@article {pearce_adaptive_2024,
	title = {Adaptive and Dissipative Hierarchical Population Crowding of Synthetic Protocells through Click-PISA under Gradient Energy Inputs},
	journal = {Nano Letters},
	volume = {24},
	number = {8},
	year = {2024},
	note = {Publisher: American Chemical Society},
	pages = {2457{\textendash}2464},
	abstract = {The ability of living objects to respond rapidly en masse to various stimuli or stress is an important function in response to externally applied changes in the local environment. This occurs across many length scales, for instance, bacteria swarming in response to different stimuli or stress and macromolecular crowding within cells. Currently there are few mechanisms to induce similar autonomous behaviors within populations of synthetic protocells. Herein, we report a system in which populations of individual objects behave in a coordinated manner in response to changes in the energetic environment by the emergent self-organization of large object swarms. These swarms contain protocell populations of approximately 60 000 individuals. We demonstrate the dissipative nature of the hierarchical constructs, which persist under appropriate UV stimulation. Finally, we identify the ability of the object populations to change behaviors in an adaptive population-wide response to the local energetic environment.},
	issn = {1530-6984},
	doi = {10.1021/acs.nanolett.3c04035},
	url = {https://doi.org/10.1021/acs.nanolett.3c04035},
	author = {Pearce, Samuel and Chenyu Lin and Juan P{\'e}rez-Mercader}
}
@article {kingsley_adaptive_2024,
	title = {Adaptive tail-length evolution in deer mice is associated with differential Hoxd13 expression in early development},
	journal = {Nature Ecology \& Evolution},
	year = {2024},
	note = {Publisher: Nature Publishing Group},
	month = {feb},
	pages = {1{\textendash}15},
	abstract = {Variation in the size and number of axial segments underlies much of the diversity in animal body plans. Here we investigate the evolutionary, genetic and developmental mechanisms driving tail-length differences between forest and prairie ecotypes of deer mice (Peromyscus maniculatus). We first show that long-tailed forest mice perform better in an arboreal locomotion assay, consistent with tails being important for balance during climbing. We then identify six genomic regions that contribute to differences in tail length, three of which associate with caudal vertebra length and the other three with vertebra number. For all six loci, the forest allele increases tail length, indicative of the cumulative effect of natural selection. Two of the genomic regions associated with variation in vertebra number contain Hox gene clusters. Of those, we find an allele-specific decrease in Hoxd13 expression in the embryonic tail bud of long-tailed forest mice, consistent with its role in axial elongation. Additionally, we find that forest embryos have more presomitic mesoderm than prairie embryos and that this correlates with an increase in the number of neuromesodermal progenitors, which are modulated by Hox13 paralogues. Together, these results suggest a role for Hoxd13 in the development of natural variation in adaptive morphology on a microevolutionary timescale.},
	keywords = {Evolutionary developmental biology, Evolutionary genetics},
	issn = {2397-334X},
	doi = {10.1038/s41559-024-02346-3},
	url = {https://www.nature.com/articles/s41559-024-02346-3},
	author = {Kingsley, Evan P. and Hager, Emily R. and Lassance, Jean-Marc and Turner, Kyle M. and Harringmeyer, Olivia S. and Kirby, Christopher and Neugeboren, Beverly I. and Hoekstra, Hopi E.}
}
@article {kapate_backpack-mediated_2024,
	title = {Backpack-mediated anti-inflammatory macrophage cell therapy for the treatment of traumatic brain injury},
	journal = {PNAS Nexus},
	volume = {3},
	number = {1},
	year = {2024},
	pages = {pgad434},
	abstract = {Traumatic brain injury (TBI) is a debilitating disease with no current therapies outside of acute clinical management. While acute, controlled inflammation is important for debris clearance and regeneration after injury, chronic, rampant inflammation plays a significant adverse role in the pathophysiology of secondary brain injury. Immune cell therapies hold unique therapeutic potential for inflammation modulation, due to their active sensing and migration abilities. Macrophages are particularly suited for this task, given the role of macrophages and microglia in the dysregulated inflammatory response after TBI. However, maintaining adoptively transferred macrophages in an anti-inflammatory, wound-healing phenotype against the proinflammatory TBI milieu is essential. To achieve this, we developed discoidal microparticles, termed backpacks, encapsulating anti-inflammatory interleukin-4, and dexamethasone for ex vivo macrophage attachment. Backpacks durably adhered to the surface of macrophages without internalization and maintained an anti-inflammatory phenotype of the carrier macrophage through 7 days in vitro. Backpack{\textendash}macrophage therapy was scaled up and safely infused into piglets in a cortical impact TBI model. Backpack{\textendash}macrophages migrated to the brain lesion site and reduced proinflammatory activation of microglia in the lesion penumbra of the rostral gyrus of the cortex and decreased serum concentrations of proinflammatory biomarkers. These immunomodulatory effects elicited a 56\% decrease in lesion volume. The results reported here demonstrate, to the best of our knowledge, a potential use of a cell therapy intervention for a large animal model of TBI and highlight the potential of macrophage-based therapy. Further investigation is required to elucidate the neuroprotection mechanisms associated with anti-inflammatory macrophage therapy.},
	issn = {2752-6542},
	doi = {10.1093/pnasnexus/pgad434},
	url = {https://doi.org/10.1093/pnasnexus/pgad434},
	author = {Kapate, Neha and Liao, Rick and Sodemann, Ryan Luke and Stinson, Tawny and Prakash, Supriya and Kumbhojkar, Ninad and Suja, Vineeth Chandran and Lily Li-Wen Wang and Flanz, Mikayla and Rajeev, Rohan and Villafuerte, Dania and Shaha, Suyog and Janes, Morgan and Park, Kyung Soo and Dunne, Michael and Golemb, Bryan and Hone, Alexander and Adebowale, Kolade and Clegg, John and Slate, Andrea and McGuone, Declan and Costine-Bartell, Beth and Mitragotri, Samir}
}
@article {zhang_biochemically_2023,
	title = {Biochemically functionalized probes for cell-type{\textendash}specific targeting and recording in the brain},
	journal = {Science Advances},
	volume = {9},
	number = {48},
	year = {2023},
	note = {Publisher: American Association for the Advancement of Science},
	pages = {eadk1050},
	abstract = {Selective targeting and modulation of distinct cell types and neuron subtypes is central to understanding complex neural circuitry and could enable electronic treatments that target specific circuits while minimizing off-target effects. However, current brain-implantable electronics have not yet achieved cell-type specificity. We address this challenge by functionalizing flexible mesh electronic probes, which elicit minimal immune response, with antibodies or peptides to target specific cell markers. Histology studies reveal selective association of targeted neurons, astrocytes, and microglia with functionalized probe surfaces without accumulating off-target cells. In vivo chronic electrophysiology further yields recordings consistent with selective targeting of these cell types. Last, probes functionalized to target dopamine receptor 2 expressing neurons show the potential for neuron-subtype{\textendash}specific targeting and electrophysiology.},
	doi = {10.1126/sciadv.adk1050},
	url = {https://www.science.org/doi/full/10.1126/sciadv.adk1050},
	author = {Anqi Zhang and Theodore J. Zwang and Charles M. Lieber}
}
@article {RN144,
	title = {CD8 cytotoxic T-cell infiltrates and cellular damage in the hypothalamus in human obesity},
	journal = {Acta Neuropathol Commun},
	volume = {11},
	number = {1},
	year = {2023},
	note = {Ahrendsen, Jared T Nong, Yi Huo, Yuda Steele, Jasmine Anderson, Matthew P eng U54 HD090255/HD/NICHD NIH HHS/ R01 MH112714/MH/NIMH NIH HHS/ R01 MH114858/MH/NIMH NIH HHS/ R21 MH100868/MH/NIMH NIH HHS/ R21 HD079249/HD/NICHD NIH HHS/ Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov{\textquoteright}t England 2023/10/10 Acta Neuropathol Commun. 2023 Oct 9;11(1):163. doi: 10.1186/s40478-023-01659-x.},
	pages = {163},
	type = {Journal Article},
	abstract = {Rare cases of paraneoplastic obesity in children suggest sporadic obesity might also arise from an adaptive immune cell-mediated mechanism. Since the hypothalamus is a central regulator of feeding behavior and energy expenditure, we quantified lymphocytic inflammation in this region in a cohort of obese and non-obese human post-mortem brains. We report that CD8-positive cytotoxic T-cells are increased in hypothalamic median eminence/arcuate nucleus (ME/Arc) and bed nucleus of the stria terminalis in 40\% of obese compared to non-obese patients, but not in other hypothalamic nuclei or brain regions. CD8 T-cells were most abundant in individuals with concurrent obesity and diabetes. Markers of cytotoxic T-cell induced damage, activated caspase 3 and poly-ADP ribose, were also elevated in the ME/Arc of obese patients. To provoke CD8 cytotoxic T-cell infiltrates in ventromedial region of hypothalamus in mice we performed stereotactic injections of an adeno-associated virus expressing immunogenic green fluorescent protein or saline. AAV but not saline injections triggered hypothalamic CD8 T-cell infiltrates associated with a rapid weight gain in mice recapitulating the findings in human obesity. This is the first description of the neuropathology of human obesity and when combined with its reconstitution in a mouse model suggests adaptive immunity may drive as much as 40\% of the human condition.},
	keywords = {Animals Humans Mice Arcuate Nucleus of Hypothalamus/metabolism CD8-Positive T-Lymphocytes Hypothalamus/metabolism *Pediatric Obesity/metabolism T-Lymphocytes CD8 T cell Hypothalamus Inflammation Obesity},
	issn = {2051-5960 (Electronic) 2051-5960 (Linking)},
	doi = {10.1186/s40478-023-01659-x},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/37814324},
	author = {Ahrendsen, J. T. and Nong, Y. and Huo, Y. and Steele, J. and Anderson, M. P.}
}
@article {RN147,
	title = {Dissociating the contributions of sensorimotor striatum to automatic and visually guided motor sequences},
	journal = {Nat Neurosci},
	volume = {26},
	number = {10},
	year = {2023},
	note = {Mizes, Kevin G C Lindsey, Jack Escola, G Sean Olveczky, Bence P eng R01 NS105349/NS/NINDS NIH HHS/ Research Support, N.I.H., Extramural Research Support, U.S. Gov{\textquoteright}t, Non-P.H.S. 2023/09/05 Nat Neurosci. 2023 Oct;26(10):1791-1804. doi: 10.1038/s41593-023-01431-3. Epub 2023 Sep 4.},
	pages = {1791-1804},
	type = {Journal Article},
	abstract = {The ability to sequence movements in response to new task demands enables rich and adaptive behavior. However, such flexibility is computationally costly and can result in halting performances. Practicing the same motor sequence repeatedly can render its execution precise, fast and effortless, that is, {\textquoteright}automatic{\textquoteright}. The basal ganglia are thought to underlie both types of sequence execution, yet whether and how their contributions differ is unclear. We parse this in rats trained to perform the same motor sequence instructed by cues and in a self-initiated overtrained, or {\textquoteright}automatic,{\textquoteright} condition. Neural recordings in the sensorimotor striatum revealed a kinematic code independent of the execution mode. Although lesions reduced the movement speed and affected detailed kinematics similarly, they disrupted high-level sequence structure for automatic, but not visually guided, behaviors. These results suggest that the basal ganglia are essential for {\textquoteright}automatic{\textquoteright} motor skills that are defined in terms of continuous kinematics, but can be dispensable for discrete motor sequences guided by sensory cues.},
	keywords = {Rats Animals *Corpus Striatum/physiology *Basal Ganglia/physiology Movement/physiology Neostriatum Motor Skills Psychomotor Performance/physiology},
	issn = {1546-1726 (Electronic) 1097-6256 (Linking)},
	doi = {10.1038/s41593-023-01431-3},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/37667040},
	author = {Mizes, K. G. C. and Lindsey, J. and Escola, G. S. and Olveczky, B. P.}
}
@article {RN142,
	title = {Dynamics of macrophage tumor infiltration},
	journal = {Applied Physics Reviews},
	volume = {10},
	number = {4},
	year = {2023},
	note = {U0qa5 Times Cited:0 Cited References Count:58},
	type = {Journal Article},
	abstract = {Long-term remission in cancer patients treated with ex vivo bona fide M1-induced macrophages has been poor, and the reasons behind this are not understood. Injected M1 macrophages must physically migrate to tumors to execute their role that leads to a therapeutic benefit. However, the trafficking of macrophages to tumors has not been rigorously studied. We hypothesized that trafficking capabilities of macrophages are impacted when naive M0 macrophages are converted into an M1 phenotype for macrophage therapy. To test this, we developed a three-dimensional assay comprising a tumor spheroid and macrophages to quantify macrophage tumor transport. Cell migration, permeability, and kinetics of tumor entry were quantitatively defined and compared between macrophage phenotypes. Our results demonstrate that compared to M0 macrophages, M1 macrophages migrate less efficiently toward the tumor spheroid and exhibit a fivefold lower tumor permeability. Live imaging data combined with unsupervised machine learning algorithms reveal that macrophage migration correlates with their shape transitions. Our studies highlight the importance of transport considerations in determining the efficacy of cell therapies. This study quantitatively demonstrates that the transport properties of macrophages in tumors depend on their phenotype.},
	keywords = {monocyte-derived macrophages in-vivo adoptive immunotherapy 3d culture migration tumorigenesis mechanisms plasticity cells},
	issn = {1931-9401},
	doi = {Artn 041402 10.1063/5.0160924},
	url = {<Go to ISI>://WOS:001081926500001},
	author = {Adebowale, K. and Guerriero, J. L. and Mitragotri, S.}
}
@article {RN145,
	title = {Laminin-coated electronic scaffolds with vascular topography for tracking and promoting the migration of brain cells after injury},
	journal = {Nat Biomed Eng},
	volume = {7},
	number = {10},
	year = {2023},
	note = {Yang, Xiao Qi, Yue Wang, Chonghe Zwang, Theodore J Rommelfanger, Nicholas J Hong, Guosong Lieber, Charles M eng 1R21DA043985-01/U.S. Department of Health \& Human Services | NIH | National Institute on Drug Abuse (NIDA)/ 1DP1EB025835-01/U.S. Department of Health \& Human Services | NIH | National Institute of Biomedical Imaging and Bioengineering (NIBIB)/ England 2023/10/10 Nat Biomed Eng. 2023 Oct;7(10):1282-1292. doi: 10.1038/s41551-023-01101-6. Epub 2023 Oct 9.},
	pages = {1282-1292},
	type = {Journal Article},
	abstract = {In the adult brain, neural stem cells are largely restricted into spatially discrete neurogenic niches, and hence areas of neuron loss during neurodegenerative disease or following a stroke or traumatic brain injury do not typically repopulate spontaneously. Moreover, understanding neural activity accompanying the neural repair process is hindered by a lack of minimally invasive devices for the chronic measurement of the electrophysiological dynamics in damaged brain tissue. Here we show that 32 individually addressable platinum microelectrodes integrated into laminin-coated branched polymer scaffolds stereotaxically injected to span a hydrogel-filled cortical lesion and deeper regions in the brains of mice promote neural regeneration while allowing for the tracking of migrating host brain cells into the lesion. Chronic measurements of single-unit activity and neural-circuit analyses revealed the establishment of spiking activity in new neurons in the lesion and their functional connections with neurons deeper in the brain. Electronic implants mimicking the topographical and surface properties of brain vasculature may aid the stimulation and tracking of neural-circuit restoration following injury.},
	issn = {2157-846X (Electronic) 2157-846X (Linking)},
	doi = {10.1038/s41551-023-01101-6},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/37814007},
	author = {Yang, X. and Qi, Y. and Wang, C. and Zwang, T. J. and Rommelfanger, N. J. and G. Hong and Lieber, C. M.}
}
@article {RN143,
	title = {Molecular mechanisms controlling the biogenesis of the TGF-beta signal Vg1},
	journal = {Proc Natl Acad Sci U S A},
	volume = {120},
	number = {43},
	year = {2023},
	note = {Dingal, P C Dave P Carte, Adam N Montague, Tessa G Lim Suan, Medel B Jr Schier, Alexander F eng DP1-HD094764/HHS | National Institutes of Health (NIH)/ UT Dallas Startup Fund/University of Texas at Dallas (UTD)/ 2023/10/16 Proc Natl Acad Sci U S A. 2023 Oct 24;120(43):e2307203120. doi: 10.1073/pnas.2307203120. Epub 2023 Oct 16.},
	pages = {e2307203120},
	type = {Journal Article},
	abstract = {The TGF-beta signals Vg1 (Dvr1/Gdf3) and Nodal form heterodimers to induce vertebrate mesendoderm. The Vg1 proprotein is a monomer retained in the endoplasmic reticulum (ER) and is processed and secreted upon heterodimerization with Nodal, but the mechanisms underlying Vg1 biogenesis are largely elusive. Here, we clarify the mechanisms underlying Vg1 retention, processing, secretion, and signaling and introduce a Synthetic Processing (SynPro) system that enables the programmed cleavage of ER-resident and extracellular proteins. First, we find that Vg1 can be processed by intra- or extracellular proteases. Second, Vg1 can be processed without Nodal but requires Nodal for secretion and signaling. Third, Vg1-Nodal signaling activity requires Vg1 processing, whereas Nodal can remain unprocessed. Fourth, Vg1 employs exposed cysteines, glycosylated asparagines, and BiP chaperone-binding motifs for monomer retention in the ER. These observations suggest two mechanisms for rapid mesendoderm induction: Chaperone-binding motifs help store Vg1 as an inactive but ready-to-heterodimerize monomer in the ER, and the flexibility of Vg1 processing location allows efficient generation of active heterodimers both intra- and extracellularly. These results establish SynPro as an in vivo processing system and define molecular mechanisms and motifs that facilitate the generation of active TGF-beta heterodimers.},
	keywords = {Nodal Vg1 processing retention zebrafish},
	issn = {1091-6490 (Electronic) 0027-8424 (Linking)},
	doi = {10.1073/pnas.2307203120},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/37844219},
	author = {Dingal, Pcdp and Carte, A. N. and Montague, T. G. and Lim Suan, M. B., Jr. and Schier, A. F.}
}
@article {RN146,
	title = {Multifunctional magnetic nanoparticles elicit anti-tumor immunity in a mouse melanoma model},
	journal = {Mater Today Bio},
	volume = {23},
	year = {2023},
	note = {Lafuente-Gomez, Nuria de Lazaro, Irene Dhanjani, Monica Garcia-Soriano, David Sobral, Miguel C Salas, Gorka Mooney, David J Somoza, Alvaro eng England 2023/10/12 Mater Today Bio. 2023 Sep 24;23:100817. doi: 10.1016/j.mtbio.2023.100817. eCollection 2023 Dec.},
	pages = {100817},
	type = {Journal Article},
	abstract = {Immunotherapy has emerged as a promising strategy to eradicate cancer cells. Particularly, the development of cancer vaccines to induce a potent and sustained antigen-specific T cell response has become a center of attention. Herein, we describe a novel immunotherapy based on magnetic nanoparticles (MNP) covalently modified with the OVA(254-267) antigen and a CpG oligonucleotide via disulfide bonds. The MNP-CpG-COVA significantly enhances dendritic cell activation and CD8(+) T cell antitumoral response against B16-OVA melanoma cells in vitro. Notably, the immune response induced by the covalently modified MNP is more potent and sustained over time than that triggered by the free components, highlighting the advantage of nanoformulations in immunotherapies. What is more, the nanoparticles are stable in the blood after in vivo administration and induce potent levels of systemic tumor-specific effector CD8 + T cells. Overall, our findings highlight the potential of covalently functionalized MNP to induce robust immune responses against mouse melanoma.},
	keywords = {Cancer immunotherapy Cancer vaccine Magnetic nanoparticles Nanomedicine},
	issn = {2590-0064 (Electronic) 2590-0064 (Linking)},
	doi = {10.1016/j.mtbio.2023.100817},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/37822453},
	author = {Lafuente-Gomez, N. and de Lazaro, I. and Dhanjani, M. and Garcia-Soriano, D. and Sobral, M. C. and Salas, G. and D. J. Mooney and Somoza, A.}
}
@article {RN141,
	title = {A polygenic explanation for Haldane{\textquoteright}s rule in butterflies},
	journal = {Proc Natl Acad Sci U S A},
	volume = {120},
	number = {44},
	year = {2023},
	note = {Xiong, Tianzhu Tarikere, Shreeharsha Rosser, Neil Li, Xueyan Yago, Masaya Mallet, James eng Internal Funding/Harvard University Department of Organismic and Evolutionary Biology/ 1764269/The Quantitative Biology Initiatives at Harvard; The NSF-Simons Center for Mathematical and Statistical Analysis of Biology at Harvard/ Grant in Aid of Research/Sigma Xi, The Scientific Research Honor Society/ 32070482/National Natural Science Foundation of China/ 21H02215/JSPS KAKENHI Grant/ 2023/10/19 Proc Natl Acad Sci U S A. 2023 Oct 31;120(44):e2300959120. doi: 10.1073/pnas.2300959120. Epub 2023 Oct 19.},
	pages = {e2300959120},
	type = {Journal Article},
	abstract = {Two robust rules have been discovered about animal hybrids: Heterogametic hybrids are more unfit (Haldane{\textquoteright}s rule), and sex chromosomes are disproportionately involved in hybrid incompatibility (the large-X/Z effect). The exact mechanisms causing these rules in female heterogametic taxa such as butterflies are unknown but are suggested by theory to involve dominance on the sex chromosome. We investigate hybrid incompatibilities adhering to both rules in Papilio and Heliconius butterflies and show that dominance theory cannot explain our data. Instead, many defects coincide with unbalanced multilocus introgression between the Z chromosome and all autosomes. Our polygenic explanation predicts both rules because the imbalance is likely greater in heterogametic females, and the proportion of introgressed ancestry is more variable on the Z chromosome. We also show that mapping traits polygenic on a single chromosome in backcrosses can generate spurious large-effect QTLs. This mirage is caused by statistical linkage among polygenes that inflates estimated effect sizes. By controlling for statistical linkage, most incompatibility QTLs in our hybrid crosses are consistent with a polygenic basis. Since the two genera are very distantly related, polygenic hybrid incompatibilities are likely common in butterflies.},
	keywords = {Animals Female *Butterflies/genetics Hybridization, Genetic Models, Genetic Sex Chromosomes Haldane{\textquoteright}s rule Lepidoptera Qtl hybrid incompatibility polygenic trait},
	issn = {1091-6490 (Electronic) 0027-8424 (Linking)},
	doi = {10.1073/pnas.2300959120},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/37856563},
	author = {Xiong, T. and Tarikere, S. and Rosser, N. and Li, X. and Yago, M. and Mallet, J.}
}
@article {RN148,
	title = {Molecular tuning of sea anemone stinging},
	journal = {Elife},
	volume = {12},
	year = {2023},
	note = {He, Lily S Qi, Yujia Allard, Corey A H Valencia-Montoya, Wendy A Krueger, Stephanie P Weir, Keiko Seminara, Agnese Bellono, Nicholas W eng R35 GM142697/GM/NIGMS NIH HHS/ R01 DC018789/DC/NIDCD NIH HHS/ R35GM142697/NH/NIH HHS/ 101002724 RIDING/ERC_/European Research Council/International R01DC018789/NH/NIH HHS/ Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov{\textquoteright}t Research Support, U.S. Gov{\textquoteright}t, Non-P.H.S. England 2023/10/31 Elife. 2023 Oct 31;12:RP88900. doi: 10.7554/eLife.88900.},
	type = {Journal Article},
	abstract = {Jellyfish and sea anemones fire single-use, venom-covered barbs to immobilize prey or predators. We previously showed that the anemone Nematostella vectensis uses a specialized voltage-gated calcium (Ca(V)) channel to trigger stinging in response to synergistic prey-derived chemicals and touch (Weir et al., 2020). Here, we use experiments and theory to find that stinging behavior is suited to distinct ecological niches. We find that the burrowing anemone Nematostella uses uniquely strong Ca(V) inactivation for precise control of predatory stinging. In contrast, the related anemone Exaiptasia diaphana inhabits exposed environments to support photosynthetic endosymbionts. Consistent with its niche, Exaiptasia indiscriminately stings for defense and expresses a Ca(V) splice variant that confers weak inactivation. Chimeric analyses reveal that Ca(V)beta subunit adaptations regulate inactivation, suggesting an evolutionary tuning mechanism for stinging behavior. These findings demonstrate how functional specialization of ion channel structure contributes to distinct organismal behavior.},
	keywords = {Animals *Sea Anemones/genetics Biological Evolution Venoms Nematostella vectensis cassiopea xamachana clytia hemisphaerica cyanea capillata exaiptasia diaphana molecular biophysics neuroscience physalia physalis structural biology},
	issn = {2050-084X (Electronic) 2050-084X (Linking)},
	doi = {10.7554/eLife.88900},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/37906220},
	author = {He, L. S. and Qi, Y. and Allard, C.A.H. and Valencia-Montoya, W.A. and Krueger, S. P. and Weir, K. and A. Seminara and Bellono, N.W.}
}
@article {RN127,
	title = {A backpack-based myeloid cell therapy for multiple sclerosis},
	journal = {Proc Natl Acad Sci U S A},
	volume = {120},
	number = {17},
	year = {2023},
	note = {Kapate, Neha Dunne, Michael Kumbhojkar, Ninad Prakash, Supriya Wang, Lily Li-Wen Graveline, Amanda Park, Kyung Soo Chandran Suja, Vineeth Goyal, Juhee Clegg, John R Mitragotri, Samir eng Research Support, Non-U.S. Gov{\textquoteright}t Research Support, U.S. Gov{\textquoteright}t, Non-P.H.S. 2023/04/19 Proc Natl Acad Sci U S A. 2023 Apr 25;120(17):e2221535120. doi: 10.1073/pnas.2221535120. Epub 2023 Apr 19.},
	pages = {e2221535120},
	type = {Journal Article},
	abstract = {Multiple sclerosis (MS) is an incurable autoimmune disease and is currently treated by systemic immunosuppressants with off-target side effects. Although aberrant myeloid function is often observed in MS plaques in the central nervous system (CNS), the role of myeloid cells in therapeutic intervention is currently overlooked. Here, we developed a myeloid cell-based strategy to reduce the disease burden in experimental autoimmune encephalomyelitis (EAE), a mouse model of progressive MS. We developed monocyte-adhered microparticles ("backpacks") for activating myeloid cell phenotype to an anti-inflammatory state through localized interleukin-4 and dexamethasone signals. We demonstrate that backpack-laden monocytes infiltrated into the inflamed CNS and modulated both the local and systemic immune responses. Within the CNS, backpack-carrying monocytes regulated both the infiltrating and tissue-resident myeloid cell compartments in the spinal cord for functions related to antigen presentation and reactive species production. Treatment with backpack-monocytes also decreased the level of systemic pro-inflammatory cytokines. Additionally, backpack-laden monocytes induced modulatory effects on T(H)1 and T(H)17 populations in the spinal cord and blood, demonstrating cross talk between the myeloid and lymphoid arms of disease. Backpack-carrying monocytes conferred therapeutic benefit in EAE mice, as quantified by improved motor function. The use of backpack-laden monocytes offers an antigen-free, biomaterial-based approach to precisely tune cell phenotype in vivo, demonstrating the utility of myeloid cells as a therapeutic modality and target.},
	keywords = {Autoimmune, Experimental Central Nervous System Monocytes Mice, Inbred C57BL Cns Immunoengineering macrophages myeloid phenotype, Mice Animals *Multiple Sclerosis/therapy Myeloid Cells *Encephalomyelitis},
	issn = {1091-6490 (Electronic) 0027-8424 (Print) 0027-8424 (Linking)},
	doi = {10.1073/pnas.2221535120},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/37075071},
	author = {Kapate, N. and Dunne, M. and Kumbhojkar, N. and Prakash, S. and Wang, L. L. and Graveline, A. and Park, K.S. and Chandran Suja, V. and Goyal, J. and Clegg, J. R. and Mitragotri, S.}
}
@article {RN128,
	title = {Complex hemolymph circulation patterns in grasshopper wings},
	journal = {Commun Biol},
	volume = {6},
	number = {1},
	year = {2023},
	note = {Salcedo, Mary K Jun, Brian H Socha, John J Pierce, Naomi E Vlachos, Pavlos P Combes, Stacey A eng Research Support, U.S. Gov{\textquoteright}t, Non-P.H.S. England 2023/03/25 Commun Biol. 2023 Mar 23;6(1):313. doi: 10.1038/s42003-023-04651-2.},
	pages = {313},
	type = {Journal Article},
	abstract = {An insect{\textquoteright}s living systems-circulation, respiration, and a branching nervous system-extend from the body into the wing. Wing hemolymph circulation is critical for hydrating tissues and supplying nutrients to living systems such as sensory organs across the wing. Despite the critical role of hemolymph circulation in maintaining healthy wing function, wings are often considered "lifeless" cuticle, and flows remain largely unquantified. High-speed fluorescent microscopy and particle tracking of hemolymph in the wings and body of the grasshopper Schistocerca americana revealed dynamic flow in every vein of the fore- and hindwings. The global system forms a circuit, but local flow behavior is complex, exhibiting three distinct types: pulsatile, aperiodic, and "leaky" flow. Thoracic wing hearts pull hemolymph from the wing at slower frequencies than the dorsal vessel; however, the velocity of returning hemolymph (in the hindwing) is faster than in that of the dorsal vessel. To characterize the wing{\textquoteright}s internal flow mechanics, we mapped dimensionless flow parameters across the wings, revealing viscous flow regimes. Wings sustain ecologically important insect behaviors such as pollination and migration. Analysis of the wing circulatory system provides a template for future studies investigating the critical hemodynamics necessary to sustaining wing health and insect flight.},
	keywords = {Animal/physiology, Animal/physiology Insecta/physiology Wings, Animals *Grasshoppers Biomechanical Phenomena Hemolymph Flight},
	issn = {2399-3642 (Electronic) 2399-3642 (Linking)},
	doi = {10.1038/s42003-023-04651-2},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/36959465},
	author = {Salcedo, M. K. and Jun, B. H. and Socha, J. J. and Pierce, N. E. and Vlachos, P. P. and Combes, S. A.}
}
@article {RN124,
	title = {Formation and Replacement of Bone And Tooth Mineralized Tissues in Green Iguanas (Iguana Iguana) Revealed by In-Vivo Fluorescence Marking},
	journal = {Integr Comp Biol},
	year = {2023},
	note = {Green, Daniel R Winkler, Daniela E Leichliter, Jennifer Harms, Gregory S Hatt, Jean-Michel Clauss, Marcus Tutken, Thomas eng England 2023/07/21 Integr Comp Biol. 2023 Jul 20:icad089. doi: 10.1093/icb/icad089.},
	type = {Journal Article},
	abstract = {Hard tissue formation patterns and rates reveal details of animal physiology, life history, and environment, but are understudied in reptiles. Here, we use fluorescence labels delivered in vivo and laser confocal scanning microscopy to study tooth and bone formation in a managed group of green iguanas (Iguana iguana, Linne 1758) kept for 1.5 years under experimentally controlled conditions and undergoing several dietary switches. We constrain rates of tooth elongation, which we observe to be slow when enamel is initially deposited (c. 9 microm/day), but then increases exponentially in the dentin root, reaching c. 55 microm/day or more after crown completion. We further constrain the total timing of tooth formation to approximately 40-60 days, and observe highly variable timings of tooth resorption onset and replacement. Fluorescent labels clearly indicate cohorts of teeth recruited within Zahnreihen replacement waves, with faster sequential tooth recruitment and greater wave sizes posteriorly, where each wave initiates. Rates of hard tissue formation in long bones range from 0.4-3.4 microm/day, correlating with animal weight gain, and cortical bone recording the entire history of the experiment. We suggest additional labeling experiments to study hard tissue formation patterns in other reptiles, and propose strategies for chemical analyses of hard tissues in order to extract temporal information about past environments, behaviors and diets from reptilian fossils throughout the Phanerozoic.},
	issn = {1557-7023 (Electronic) 1540-7063 (Linking)},
	doi = {10.1093/icb/icad089},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/37475667},
	author = {Green, D. R. and Winkler, D. E. and Leichliter, J. and Harms, G. S. and Hatt, J. M. and Clauss, M. and Tutken, T.}
}
@article {RN134,
	title = {Hominoid SVA-lncRNA AK057321 targets human-specific SVA retrotransposons in SCN8A and CDK5RAP2 to initiate neuronal maturation},
	journal = {Commun Biol},
	volume = {6},
	number = {1},
	year = {2023},
	note = {Nadler, Monica J S Chang, Weipang Ozkaynak, Ekim Huo, Yuda Nong, Yi Boillot, Morgane Johnson, Mark Moreno, Antonio Matthew P Anderson eng R01 MH112714/MH/NIMH NIH HHS/ R01 MH114858/MH/NIMH NIH HHS/ R21 MH100868/MH/NIMH NIH HHS/ R21 HD079249/HD/NICHD NIH HHS/ U54 HD090255/HD/NICHD NIH HHS/ P30 HD018655/HD/NICHD NIH HHS/ Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov{\textquoteright}t England 2023/03/31 Commun Biol. 2023 Mar 30;6(1):347. doi: 10.1038/s42003-023-04683-8.},
	pages = {347},
	type = {Journal Article},
	abstract = {SINE-VNTR-Alu (SVA) retrotransposons arose and expanded in the genome of hominoid primates concurrent with the slowing of brain maturation. We report genes with intronic SVA transposons are enriched for neurodevelopmental disease and transcribed into long non-coding SVA-lncRNAs. Human-specific SVAs in microcephaly CDK5RAP2 and epilepsy SCN8A gene introns repress their expression via transcription factor ZNF91 to delay neuronal maturation. Deleting the SVA in CDK5RAP2 initiates multi-dimensional and in SCN8A selective sodium current neuronal maturation by upregulating these genes. SVA-lncRNA AK057321 forms RNA:DNA heteroduplexes with the genomic SVAs and upregulates these genes to initiate neuronal maturation. SVA-lncRNA AK057321 also promotes species-specific cortex and cerebellum-enriched expression upregulating human genes with intronic SVAs (e.g., HTT, CHAF1B and KCNJ6) but not mouse orthologs. The diversity of neuronal genes with intronic SVAs suggest this hominoid-specific SVA transposon-based gene regulatory mechanism may act at multiple steps to specialize and achieve neoteny of the human brain.},
	keywords = {Animals Humans *Retroelements/genetics *RNA, Long Noncoding/genetics Minisatellite Repeats Short Interspersed Nucleotide Elements Primates/genetics Chromatin Assembly Factor-1/genetics NAV1.6 Voltage-Gated Sodium Channel/genetics Nerve Tissue Proteins/genetics Cell Cycle Proteins/genetics},
	issn = {2399-3642 (Electronic) 2399-3642 (Linking)},
	doi = {10.1038/s42003-023-04683-8},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/36997626},
	author = {Nadler, M. J. S. and W. Chang and Ozkaynak, E. and Huo, Y. and Nong, Y. and Boillot, M. and Johnson, M. and Moreno, A. and Matthew, P. Anderson}
}
@article {RN140,
	title = {Inter-axonal molecular crosstalk via Lumican proteoglycan sculpts murine cervical corticospinal innervation by distinct subpopulations},
	journal = {Cell Rep},
	volume = {42},
	number = {3},
	year = {2023},
	note = {Itoh, Yasuhiro Sahni, Vibhu Shnider, Sara J McKee, Holly Macklis, Jeffrey D eng R01 NS049553/NS/NINDS NIH HHS/ R01 NS045523/NS/NINDS NIH HHS/ K12 HD093427/HD/NICHD NIH HHS/ F31 NS063516/NS/NINDS NIH HHS/ R01 NS104055/NS/NINDS NIH HHS/ R01 NS075672/NS/NINDS NIH HHS/ DP1 NS106665/NS/NINDS NIH HHS/ Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov{\textquoteright}t 2023/03/20 Cell Rep. 2023 Mar 28;42(3):112182. doi: 10.1016/j.celrep.2023.112182. Epub 2023 Mar 17.},
	pages = {112182},
	type = {Journal Article},
	abstract = {How CNS circuits sculpt their axonal arbors into spatially and functionally organized domains is not well understood. Segmental specificity of corticospinal connectivity is an exemplar for such regional specificity of many axon projections. Corticospinal neurons (CSN) innervate spinal and brainstem targets with segmental precision, controlling voluntary movement. Multiple molecularly distinct CSN subpopulations innervate the cervical cord for evolutionarily enhanced precision of forelimb movement. Evolutionarily newer CSN(BC-lat) exclusively innervate bulbar-cervical targets, while CSN(medial) are heterogeneous; distinct subpopulations extend axons to either bulbar-cervical or thoraco-lumbar segments. We identify that Lumican controls balance of cervical innervation between CSN(BC-lat) and CSN(medial) axons during development, which is maintained into maturity. Lumican, an extracellular proteoglycan expressed by CSN(BC-lat), non-cell-autonomously suppresses cervical collateralization by multiple CSN(medial) subpopulations. This inter-axonal molecular crosstalk between CSN subpopulations controls murine corticospinal circuitry refinement and forelimb dexterity. Such crosstalk is generalizable beyond the corticospinal system for evolutionary incorporation of new neuron populations into preexisting circuitry.},
	keywords = {Animals Mice *Spinal Cord/physiology Lumican *Axons/physiology Neurons/physiology Movement Pyramidal Tracts CP: Neuroscience Lumican proteoglycan axon collateralization axon development circuit refinement corticospinal neurons corticospinal segmental spec},
	issn = {2211-1247 (Electronic)},
	doi = {10.1016/j.celrep.2023.112182},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/36934325},
	author = {Itoh, Y. and Sahni, V. and Shnider, S. J. and McKee, H. and Macklis, J. D.}
}
@article {RN135,
	title = {Membrane curvature and PS localize coagulation proteins to filopodia and retraction fibers of endothelial cells},
	journal = {Blood Adv},
	volume = {7},
	number = {1},
	year = {2023},
	note = {Carman, Christopher V Nikova, Dessislava N Sakurai, Yumiko Shi, Jialan Novakovic, Valerie A Rasmussen, Jan T Lam, Wilbur A Gilbert, Gary E eng R01 HL104006/HL/NHLBI NIH HHS/ Research Support, N.I.H., Extramural Research Support, U.S. Gov{\textquoteright}t, Non-P.H.S. 2022/07/19 Blood Adv. 2023 Jan 10;7(1):60-72. doi: 10.1182/bloodadvances.2021006870.},
	pages = {60-72},
	type = {Journal Article},
	abstract = {Prior reports indicate that the convex membrane curvature of phosphatidylserine (PS)-containing vesicles enhances formation of binding sites for factor Va and lactadherin. Yet, the relationship of convex curvature to localization of these proteins on cells remains unknown. We developed a membrane topology model, using phospholipid bilayers supported by nano-etched silica substrates, to further explore the relationship between curvature and localization of coagulation proteins. Ridge convexity corresponded to maximal curvature of physiologic membranes (radii of 10 or 30 nm) and the troughs had a variable concave curvature. The benchmark PS probe lactadherin exhibited strong differential binding to the ridges, on membranes with 4\% to 15\% PS. Factor Va, with a PS-binding motif homologous to lactadherin, also bound selectively to the ridges. Bound factor Va supported coincident binding of factor Xa, localizing prothrombinase complexes to the ridges. Endothelial cells responded to prothrombotic stressors and stimuli (staurosporine, tumor necrosis factor-alpha [TNF- alpha]) by retracting cell margins and forming filaments and filopodia. These had a high positive curvature similar to supported membrane ridges and selectively bound lactadherin. Likewise, the retraction filaments and filopodia bound factor Va and supported assembly of prothrombinase, whereas the cell body did not. The perfusion of plasma over TNF-alpha-stimulated endothelia in culture dishes and engineered 3-dimensional microvessels led to fibrin deposition at cell margins, inhibited by lactadherin, without clotting of bulk plasma. Our results indicate that stressed or stimulated endothelial cells support prothrombinase activity localized to convex topological features at cell margins. These findings may relate to perivascular fibrin deposition in sepsis and inflammation.},
	keywords = {*Thromboplastin/metabolism *Phosphatidylserines/metabolism Endothelial Cells/metabolism Factor Va/chemistry/metabolism Pseudopodia/metabolism Fibrin},
	issn = {2473-9537 (Electronic) 2473-9529 (Print) 2473-9529 (Linking)},
	doi = {10.1182/bloodadvances.2021006870},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/35849711},
	author = {Carman, C. V. and Nikova, D. N. and Sakurai, Y. and Shi, J. and Novakovic, V. A. and J. T. Rasmussen and Lam, W. A. and Gilbert, G. E.}
}
@article {RN130,
	title = {Microporogen-Structured Collagen Matrices for Embedded Bioprinting of Tumor Models for Immuno-Oncology},
	journal = {Adv Mater},
	year = {2023},
	note = {Reynolds, Daniel S de Lazaro, Irene Blache, Manon L Liu, Yutong Jeffreys, Nicholas C Doolittle, Ramsey M Grandidier, Estee Olszewski, Jason Dacus, Mason T Mooney, David J Lewis, Jennifer A eng U01CA21436901/CA/NCI NIH HHS/ Germany 2023/05/10 Adv Mater. 2023 May 10:e2210748. doi: 10.1002/adma.202210748.},
	pages = {e2210748},
	type = {Journal Article},
	abstract = {Embedded bioprinting enables the rapid design and fabrication of complex tissues that recapitulate in vivo microenvironments. However, few biological matrices enable good print fidelity, while simultaneously facilitate cell viability, proliferation, and migration. Here, a new microporogen-structured (microPOROS) matrix for embedded bioprinting is introduced, in which matrix rheology, printing behavior, and porosity are tailored by adding sacrificial microparticles composed of a gelatin-chitosan complex to a prepolymer collagen solution. To demonstrate its utility, a 3D tumor model is created via embedded printing of a murine melanoma cell ink within the microPOROS collagen matrix at 4 degrees C. The collagen matrix is subsequently crosslinked around the microparticles upon warming to 21 degrees C, followed by their melting and removal at 37 degrees C. This process results in a microPOROS matrix with a fibrillar collagen type-I network akin to that observed in vivo. Printed tumor cells remain viable and proliferate, while antigen-specific cytotoxic T cells incorporated in the matrix migrate to the tumor site, where they induce cell death. The integration of the microPOROS matrix with embedded bioprinting opens new avenues for creating complex tissue microenvironments in vitro that may find widespread use in drug discovery, disease modeling, and tissue engineering for therapeutic use.},
	keywords = {cancer collagen embedded bioprinting immunotherapy microporogens},
	issn = {1521-4095 (Electronic) 0935-9648 (Linking)},
	doi = {10.1002/adma.202210748},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/37163476},
	author = {Reynolds, D. S. and de Lazaro, I. and Blache, M. L. and Liu, Y. and Jeffreys, N. C. and Doolittle, R. M. and Grandidier, E. and Olszewski, J. and Dacus, M. T. and D. J. Mooney and Lewis, J. A.}
}
@article {RN125,
	title = {Multiplexed analysis of EV reveals specific biomarker composition with diagnostic impact},
	journal = {Nat Commun},
	volume = {14},
	number = {1},
	year = {2023},
	note = {Spitzberg, Joshua D Ferguson, Scott Yang, Katherine S Peterson, Hannah M Carlson, Jonathan C T Weissleder, Ralph eng P01 CA069246/CA/NCI NIH HHS/ T32 CA079443/CA/NCI NIH HHS/ R01 CA237332/CA/NCI NIH HHS/ Research Support, N.I.H., Extramural England 2023/03/05 Nat Commun. 2023 Mar 4;14(1):1239. doi: 10.1038/s41467-023-36932-z.},
	pages = {1239},
	type = {Journal Article},
	abstract = {Exosomes and extracellular vesicles (EV) are increasingly being explored as circulating biomarkers, but their heterogenous composition will likely mandate the development of multiplexed EV technologies. Iteratively multiplexed analyses of near single EVs have been challenging to implement beyond a few colors during spectral sensing. Here we developed a multiplexed analysis of EV technique (MASEV) to interrogate thousands of individual EVs during 5 cycles of multi-channel fluorescence staining for 15 EV biomarkers. Contrary to the common belief, we show that: several markers proposed to be ubiquitous are less prevalent than believed; multiple biomarkers concur in single vesicles but only in small fractions; affinity purification can lead to loss of rare EV subtypes; and deep profiling allows detailed analysis of EV, potentially improving the diagnostic content. These findings establish the potential of MASEV for uncovering fundamental EV biology and heterogeneity and increasing diagnostic specificity.},
	keywords = {*Extracellular Vesicles *Exosomes Biomarkers Chromatography, Affinity Staining and Labeling},
	issn = {2041-1723 (Electronic) 2041-1723 (Linking)},
	doi = {10.1038/s41467-023-36932-z},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/36870999},
	author = {Spitzberg, J. D. and Ferguson, S. and Yang, K. S. and Peterson, H. M. and Carlson, J. C. T. and Weissleder, R.}
}
@article {RN133,
	title = {Neural mechanisms of parasite-induced summiting behavior in {\textquoteright}zombie{\textquoteright} Drosophila},
	journal = {Elife},
	volume = {12},
	year = {2023},
	note = {Elya, Carolyn Lavrentovich, Danylo Lee, Emily Pasadyn, Cassandra Duval, Jasper Basak, Maya Saykina, Valerie de Bivort, Benjamin eng GT11087/HHMI/Howard Hughes Medical Institute/ R01 NS121874/NS/NINDS NIH HHS/ Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov{\textquoteright}t Research Support, U.S. Gov{\textquoteright}t, Non-P.H.S. England 2023/05/15 Elife. 2023 May 15;12:e85410. doi: 10.7554/eLife.85410.},
	type = {Journal Article},
	abstract = {For at least two centuries, scientists have been enthralled by the "zombie" behaviors induced by mind-controlling parasites. Despite this interest, the mechanistic bases of these uncanny processes have remained mostly a mystery. Here, we leverage the Entomophthora muscae-Drosophila melanogaster "zombie fly" system to reveal the mechanistic underpinnings of summit disease, a manipulated behavior evoked by many fungal parasites. Using a high-throughput approach to measure summiting, we discovered that summiting behavior is characterized by a burst of locomotion and requires the host circadian and neurosecretory systems, specifically DN1p circadian neurons, pars intercerebralis to corpora allata projecting (PI-CA) neurons and corpora allata (CA), the latter being solely responsible for juvenile hormone (JH) synthesis and release. Using a machine learning classifier to identify summiting animals in real time, we observed that PI-CA neurons and CA appeared intact in summiting animals, despite invasion of adjacent regions of the "zombie fly" brain by E. muscae cells and extensive host tissue damage in the body cavity. The blood-brain barrier of flies late in their infection was significantly permeabilized, suggesting that factors in the hemolymph may have greater access to the central nervous system during summiting. Metabolomic analysis of hemolymph from summiting flies revealed differential abundance of several compounds compared to non-summiting flies. Transfusing the hemolymph of summiting flies into non-summiting recipients induced a burst of locomotion, demonstrating that factor(s) in the hemolymph likely cause summiting behavior. Altogether, our work reveals a neuro-mechanistic model for summiting wherein fungal cells perturb the fly{\textquoteright}s hemolymph, activating a neurohormonal pathway linking clock neurons to juvenile hormone production in the CA, ultimately inducing locomotor activity in their host.},
	keywords = {Animals *Drosophila Drosophila melanogaster/physiology *Parasites Corpora Allata/metabolism Juvenile Hormones/metabolism D. melanogaster Entomophthora muscae behavior circadian rhythm genetics genomics juvenile hormone neuroscience parasitic mind-control},
	issn = {2050-084X (Electronic) 2050-084X (Linking)},
	doi = {10.7554/eLife.85410},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/37184212},
	author = {Elya, C. and Lavrentovich, D. and Lee, E. and Pasadyn, C. and Duval, J. and Basak, M. and Saykina, V. and B. de Bivort}
}
@article {RN136,
	title = {Polymer Micropatches as Natural Killer Cell Engagers for Tumor Therapy},
	journal = {ACS Nano},
	year = {2023},
	note = {Prakash, Supriya Kumbhojkar, Ninad Lu, Andrew Kapate, Neha Suja, Vineeth Chandran Park, Kyung Soo Wang, Lily Li-Wen Mitragotri, Samir eng 2023/08/11 ACS Nano. 2023 Aug 11. doi: 10.1021/acsnano.3c03980.},
	type = {Journal Article},
	abstract = {Natural killer (NK) cell therapies have emerged as a potential therapeutic approach to various cancers. Their efficacy, however, is limited by their low persistence and anergy. Current approaches to sustain NK cell persistence in vivo include genetic modification, activation via pretreatment, or coadministration of supporting cytokines or antibodies. Such supporting therapies exhibit limited efficacy in vivo, in part due to the reversal of their effect within the immunosuppressive tumor microenvironment and off-target toxicity. Here, we report a material-based approach to address this challenge. Specifically, we describe the use of polymeric micropatches as a platform for sustained, targeted activation of NK cells, an approach referred to as microparticles as cell engagers (MACE). Poly(lactide-co-glycolic) acid (PLGA) micropatches, 4-8 mum in diameter and surface-modified with NK cell receptor targeting antibodies, exhibited strong adhesion to NK cells and induced their activation without the need of coadministered cytokines. The activation induced by MACE was greater than that induced by nanoparticles, attesting to the crucial role of MACE geometry in the activation of NK cells. MACE-bound NK cells remained viable and exhibited trans-endothelial migration and antitumor activity in vitro. MACE-bound NK cells activated T cells, macrophages, and dendritic cells in vitro. Adoptive transfer of NK-MACE also demonstrated superior antitumor efficacy in a mouse melanoma lung metastasis model compared to unmodified NK cells. Overall, MACE offers a simple, scalable, and effective way of activating NK cells and represents an attractive platform to improve the efficacy of NK cell therapy.},
	keywords = {NK cell NK cell activation NK engager adoptive cell transfer cross-linking lung metastasis microparticle},
	issn = {1936-086X (Electronic) 1936-0851 (Linking)},
	doi = {10.1021/acsnano.3c03980},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/37565806},
	author = {Prakash, S. and Kumbhojkar, N. and Lu, A. and Kapate, N. and Suja, V. C. and Park, K.S. and Wang, L. L. and Mitragotri, S.}
}
@article {RN131,
	title = {A single-cell transcriptome atlas of the maturing zebrafish telencephalon},
	journal = {Genome Res},
	volume = {33},
	number = {4},
	year = {2023},
	note = {Pandey, Shristi Moyer, Anna J Thyme, Summer B eng DP1 HD094764/HD/NICHD NIH HHS/ R00 MH110603/MH/NIMH NIH HHS/ T32 HG008961/HG/NHGRI NIH HHS/ Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov{\textquoteright}t 2023/04/19 Genome Res. 2023 Apr;33(4):658-671. doi: 10.1101/gr.277278.122. Epub 2023 Apr 18.},
	pages = {658-671},
	type = {Journal Article},
	abstract = {The zebrafish telencephalon is composed of highly specialized subregions that regulate complex behaviors such as learning, memory, and social interactions. The transcriptional signatures of the neuronal cell types in the telencephalon and the timeline of their emergence from larva to adult remain largely undescribed. Using an integrated analysis of single-cell transcriptomes of approximately 64,000 cells obtained from 6-day-postfertilization (dpf), 15-dpf, and adult telencephalon, we delineated nine main neuronal cell types in the pallium and eight in the subpallium and nominated novel marker genes. Comparing zebrafish and mouse neuronal cell types revealed both conserved and absent types and marker genes. Mapping of cell types onto a spatial larval reference atlas created a resource for anatomical and functional studies. Using this multiage approach, we discovered that although most neuronal subtypes are established early in the 6-dpf fish, some emerge or expand in number later in development. Analyzing the samples from each age separately revealed further complexity in the data, including several cell types that expand substantially in the adult forebrain and do not form clusters at the larval stages. Together, our work provides a comprehensive transcriptional analysis of the cell types in the zebrafish telencephalon and a resource for dissecting its development and function.},
	keywords = {Animals Mice *Zebrafish/metabolism *Transcriptome Zebrafish Proteins/genetics Neurons/metabolism Telencephalon/metabolism},
	issn = {1549-5469 (Electronic) 1088-9051 (Print) 1088-9051 (Linking)},
	doi = {10.1101/gr.277278.122},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/37072188},
	author = {Pandey, S. and Moyer, A. J. and Thyme, S. B.}
}
@article {RN126,
	title = {Spatial characterization of tangle-bearing neurons and ghost tangles in the human inferior temporal gyrus with three-dimensional imaging},
	journal = {Brain Commun},
	volume = {5},
	number = {3},
	year = {2023},
	note = {Zwang, Theodore J Woost, Benjamin Bailey, Joshua Hoglund, Zachary Richardson, Douglas S Bennett, Rachel E Hyman, Bradley T eng England 2023/06/16 Brain Commun. 2023 Apr 19;5(3):fcad130. doi: 10.1093/braincomms/fcad130. eCollection 2023.},
	pages = {fcad130},
	type = {Journal Article},
	abstract = {Studies of post-mortem human tissue provide insight into pathological processes, but are inherently limited by practical considerations that limit the scale at which tissue can be examined, and the obvious issue that the tissue reflects only one time point in a continuous disease process. We approached this problem by adapting new tissue clearance techniques to an entire cortical area of human brain, which allows surveillance of hundreds of thousands of neurons throughout the depth of the entire cortical thickness. This approach allows detection of {\textquoteright}rare{\textquoteright} events that may be difficult to detect in standard 5 micrometre-thick paraffin sections. For example, it is well established that neurofibrillary tangles begin within a neuron, and ultimately, in at least some instances, persist in the brain even after the neuron has died. These are referred to as {\textquoteright}ghost tangles{\textquoteright}, a term that appropriately implies their {\textquoteright}difficult to see{\textquoteright} ephemeral qualities. We set out to find ghost tangles as one example of the power of the tissue clearance/image analysis techniques to detect rare events, and to learn what happens at the end-point of a tangle{\textquoteright}s life history. We were able to identify 8103 tau tangles, 132 465 neurons and 299 640 nuclei in tissue samples from three subjects with severe Alzheimer{\textquoteright}s disease (Braak V-VI) and 4 tau tangles, 200 447 neurons and 462 715 nuclei in tissue samples from three subjects with no significant tau pathology (Braak 0-I). Among these data, we located 57 ghost tangles, which makes them only 0.7\% of the total tau tangles observed. We found that ghost tangles are more likely to be found in cortical layers 3 and 5 (49/57), with a select few scattered across other layers 1, 2, 4 and 6. This ability to find rare events, such as ghost tangles, in large enough quantities to statistically test their distribution exemplifies how tissue clearing can be used as a powerful tool for studying selective vulnerability or resilience to pathology across brain regions.},
	keywords = {ghost tangles inferior temporal gyrus spatial mapping tau tissue clearing},
	issn = {2632-1297 (Electronic) 2632-1297 (Linking)},
	doi = {10.1093/braincomms/fcad130},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/37324243},
	author = {Zwang, T. J. and Woost, B. and Bailey, J. and Hoglund, Z. and Richardson, D.S. and Bennett, R. E. and Hyman, B. T.}
}
@article {RN138,
	title = {Tle4 controls both developmental acquisition and early post-natal maturation of corticothalamic projection neuron identity},
	journal = {Cell Rep},
	volume = {42},
	number = {8},
	year = {2023},
	note = {Galazo, Maria J Sweetser, David A Macklis, Jeffrey D eng 2023/08/10 Cell Rep. 2023 Aug 9;42(8):112957. doi: 10.1016/j.celrep.2023.112957.},
	pages = {112957},
	type = {Journal Article},
	abstract = {Identities of distinct neuron subtypes are specified during embryonic development, then maintained during post-natal maturation. In cerebral cortex, mechanisms controlling early acquisition of neuron-subtype identities have become increasingly understood. However, mechanisms controlling neuron-subtype identity stability during post-natal maturation are largely unexplored. We identify that Tle4 is required for both early acquisition and post-natal stability of corticothalamic neuron-subtype identity. Embryonically, Tle4 promotes acquisition of corticothalamic identity and blocks emergence of core characteristics of subcerebral/corticospinal projection neuron identity, including gene expression and connectivity. During the first post-natal week, when corticothalamic innervation is ongoing, Tle4 is required to stabilize corticothalamic neuron identity, limiting interference from differentiation programs of developmentally related neuron classes. We identify a deacetylation-based epigenetic mechanism by which TLE4 controls Fezf2 expression level by corticothalamic neurons. This contributes to distinction of cortical output subtypes and ensures identity stability for appropriate maturation of corticothalamic neurons.},
	keywords = {CP: Developmental biology CP: Neuroscience Fezf2 Tle4 corticospinal neurons corticothalamic neurons epigenetic regulation neuron identity acquisition neuron identity stability subcerebral projection neurons},
	issn = {2211-1247 (Electronic)},
	doi = {10.1016/j.celrep.2023.112957},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/37561632},
	author = {Galazo, M. J. and Sweetser, D. A. and Macklis, J. D.}
}
@article {RN137,
	title = {Transplantation-based screen identifies inducers of muscle progenitor cell engraftment across vertebrate species},
	journal = {Cell Rep},
	volume = {42},
	number = {4},
	year = {2023},
	note = {Tavakoli, Sahar Garcia, Vivian Gahwiler, Eric Adatto, Isaac Rangan, Apoorva Messemer, Kathleen A Kakhki, Sara Ashrafi Yang, Song Chan, Victoria S Manning, Margot E Fotowat, Haleh Zhou, Yi Wagers, Amy J Zon, Leonard I eng R24 OD017870/OD/NIH HHS/ 2023/04/06 Cell Rep. 2023 Apr 4;42(4):112365. doi: 10.1016/j.celrep.2023.112365.},
	pages = {112365},
	type = {Journal Article},
	abstract = {Stem cell transplantation presents a potentially curative strategy for genetic disorders of skeletal muscle, but this approach is limited by the deleterious effects of cell expansion in vitro and consequent poor engraftment efficiency. In an effort to overcome this limitation, we sought to identify molecular signals that enhance the myogenic activity of cultured muscle progenitors. Here, we report the development and application of a cross-species small-molecule screening platform employing zebrafish and mice, which enables rapid, direct evaluation of the effects of chemical compounds on the engraftment of transplanted muscle precursor cells. Using this system, we screened a library of bioactive lipids to discriminate those that could increase myogenic engraftment in vivo in zebrafish and mice. This effort identified two lipids, lysophosphatidic acid and niflumic acid, both linked to the activation of intracellular calcium-ion flux, which showed conserved, dose-dependent, and synergistic effects in promoting muscle engraftment across these vertebrate species.},
	keywords = {CP: Developmental biology cell therapy engraftment lysophosphatidic acid muscular dystrophy niflumic acid satellite cell},
	issn = {2211-1247 (Electronic)},
	doi = {10.1016/j.celrep.2023.112365},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/37018075},
	author = {Tavakoli, S. and Garcia, V. and Gahwiler, E. and Adatto, I. and Rangan, A. and Messemer, K. A. and Kakhki, S. A. and Yang, S. and Chan, V. S. and Manning, M. E. and Fotowat, H. and Zhou, Y. and Wagers, A.J. and Zon, L. I.}
}
@article {RN132,
	title = {Video-based pooled screening yields improved far-red genetically encoded voltage indicators},
	journal = {Nat Methods},
	volume = {20},
	number = {7},
	year = {2023},
	note = {Tian, He Davis, Hunter C Wong-Campos, J David Park, Pojeong Fan, Linlin Z Gmeiner, Benjamin Begum, Shahinoor Werley, Christopher A Borja, Gabriel B Upadhyay, Hansini Shah, Himali Jacques, Jane Qi, Yitong Parot, Vicente Deisseroth, Karl Cohen, Adam E eng RF1 MH117042/MH/NIMH NIH HHS/ RF1 NS126043/NS/NINDS NIH HHS/ HHMI/Howard Hughes Medical Institute/ Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov{\textquoteright}t Research Support, U.S. Gov{\textquoteright}t, Non-P.H.S. 2023/01/10 Nat Methods. 2023 Jul;20(7):1082-1094. doi: 10.1038/s41592-022-01743-5. Epub 2023 Jan 9.},
	pages = {1082-1094},
	type = {Journal Article},
	abstract = {Video-based screening of pooled libraries is a powerful approach for directed evolution of biosensors because it enables selection along multiple dimensions simultaneously from large libraries. Here we develop a screening platform, Photopick, which achieves precise phenotype-activated photoselection over a large field of view (2.3 x 2.3 mm, containing >10(3) cells, per shot). We used the Photopick platform to evolve archaerhodopsin-derived genetically encoded voltage indicators (GEVIs) with improved signal-to-noise ratio (QuasAr6a) and kinetics (QuasAr6b). These GEVIs gave improved signals in cultured neurons and in live mouse brains. By combining targeted in vivo optogenetic stimulation with high-precision voltage imaging, we characterized inhibitory synaptic coupling between individual cortical NDNF (neuron-derived neurotrophic factor) interneurons, and excitatory electrical synapses between individual hippocampal parvalbumin neurons. The QuasAr6 GEVIs are powerful tools for all-optical electrophysiology and the Photopick approach could be adapted to evolve a broad range of biosensors.},
	keywords = {Cultured Neurons/physiology Interneurons, Mice Animals *Hippocampus/physiology *Electrophysiological Phenomena Cells},
	issn = {1548-7105 (Electronic) 1548-7091 (Print) 1548-7091 (Linking)},
	doi = {10.1038/s41592-022-01743-5},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/36624211},
	author = {H. Tian and Davis, H. C. and Wong-Campos, J. D. and Park, P. and Fan, L. Z. and Gmeiner, B. and Begum, S. and Werley, C. A. and Borja, G. B. and Upadhyay, H. and Shah, H. and Jacques, J. and Qi, Y. and Parot, V. and K. Deisseroth and Cohen, A. E.}
}
@article {RN129,
	title = {Anti-inflammatory therapy enables robot-actuated regeneration of aged muscle},
	journal = {Sci Robot},
	volume = {8},
	number = {76},
	year = {2023},
	note = {McNamara, S L Seo, B R Freedman, B R Roloson, E B Alvarez, J T O{\textquoteright}Neill, C T Vandenburgh, H H Walsh, C J Mooney, D J eng K99 AG065495/AG/NIA NIH HHS/ T32 GM007753/GM/NIGMS NIH HHS/ T32 GM144273/GM/NIGMS NIH HHS/ F31 AR075367/AR/NIAMS NIH HHS/ R01 DE013349/DE/NIDCR NIH HHS/ Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov{\textquoteright}t Research Support, U.S. Gov{\textquoteright}t, Non-P.H.S. 2023/03/23 Sci Robot. 2023 Mar 22;8(76):eadd9369. doi: 10.1126/scirobotics.add9369. Epub 2023 Mar 22.},
	pages = {eadd9369},
	type = {Journal Article},
	abstract = {Robot-actuated mechanical loading (ML)-based therapies ("mechanotherapies") can promote regeneration after severe skeletal muscle injury, but the effectiveness of such approaches during aging is unknown and may be influenced by age-associated decline in the healing capacity of skeletal muscle. To address this knowledge gap, this work used a noninvasive, load-controlled robotic device to impose highly defined tissue stresses to evaluate the age dependence of ML on muscle repair after injury. The response of injured muscle to robot-actuated cyclic compressive loading was found to be age sensitive, revealing not only a lack of reparative benefit of ML on injured aged muscles but also exacerbation of tissue inflammation. ML alone also disrupted the normal regenerative processes of aged muscle stem cells. However, these negative effects could be reversed by introducing anti-inflammatory therapy alongside ML application, leading to enhanced skeletal muscle regeneration even in aged mice.},
	keywords = {Animals Mice *Regeneration/physiology *Robotics Muscle, Skeletal/physiology Anti-Inflammatory Agents},
	issn = {2470-9476 (Electronic) 2470-9476 (Linking)},
	doi = {10.1126/scirobotics.add9369},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/36947599},
	author = {S. L. MCNAMARA and B. R. Seo and B. R. Freedman and E. B. Roloson and Alvarez, J.T. and O{\textquoteright}Neill, C. T. and H. H. Vandenburgh and C. J. Walsh and D. J. Mooney}
}
@article {1664213,
	title = {Controlling human organoid symmetry breaking reveals signaling gradients drive segmentation clock waves},
	journal = {Cell},
	volume = {186},
	year = {2023},
	url = {https://www.cell.com/cell/fulltext/S0092-8674(22)01585-9$\#$secsectitle0085},
	author = {Yusuf Ilker Yaman and Ramanathan, Sharad}
}
@article {1664212,
	title = {Controlling organoid symmetry breaking uncovers an excitable system underlying human axial elongation},
	journal = {Cell},
	volume = {186},
	year = {2023},
	url = {https://www.cell.com/cell/fulltext/S0092-8674(22)01586-0},
	author = {Anand, Giridhar M. and Megale, Heitor C. and Murphy, Sean H. and Weis, Theresa and Zuwan Lin and Yichun He and Wang, Xiao and Jia Liu and Ramanathan, Sharad}
}
@article {1664211,
	title = {Tissue libraries enable rapid determination of conditions that preserve antibody labeling in cleared mouse and human tissue.},
	journal = {eLife},
	volume = {84122},
	year = {2023},
	url = {https://elifesciences.org/articles/84112},
	author = {Theodore J Zwang and Bennett, Rachel E and Maria Lysandrou and Benjamin Woost and Anqi Zhang and Charles m Lieber and Richardson, Douglas S and Hyman, Bradley T}
}
@article {RN99,
	title = {Time-tagged ticker tapes for intracellular recordings},
	journal = {Nature Biotechnology},
	year = {2023},
	type = {Journal Article},
	issn = {1087-0156},
	doi = {10.1038/s41587-022-01524-7},
	url = {https://dx.doi.org/10.1038/s41587-022-01524-7},
	author = {Lin, Dingchang and Li, Xiuyuan and Moult, Eric and Park, Pojeong and Tang, Benjamin and Shen, Hao and Grimm, Jonathan B. and Falco, Natalie and Jia, Bill Z. and Baker, David and Lavis, Luke D. and Adam E. Cohen}
}
@article {1664214,
	title = {A bump in the node: The hydraulic implications of rhizomatousgrowth},
	journal = {American Journal of Botany},
	volume = {e16105},
	year = {2022},
	url = {https://bsapubs.onlinelibrary.wiley.com/doi/10.1002/ajb2.16105},
	author = {Jacob S. Suissa and Andrews A. Agbleke and William E. Friedman}
}
@article {RN98,
	title = {Striatal dopamine explains novelty-induced behavioral dynamics and individual variability in threat prediction},
	journal = {Neuron},
	volume = {110},
	number = {22},
	year = {2022},
	pages = {3789-3804.e9},
	type = {Journal Article},
	issn = {0896-6273},
	doi = {10.1016/j.neuron.2022.08.022},
	url = {https://dx.doi.org/10.1016/j.neuron.2022.08.022},
	author = {Korleki Akiti and Iku Tsutsui-Kimura and Yudi Xie and Mathis, Alexander and Jeffrey E. Markowitz and Rockwell Anyoha and Datta, Sandeep Robert and Mathis, Mackenzie Weygandt and Uchida, Naoshige and Watabe-Uchida, Mitsuko}
}
@article {RN31,
	title = {A deep eutectic-based, self-emulsifying subcutaneous depot system for apomorphine therapy in Parkinson{\textquoteright}s disease},
	journal = {Proceedings of the National Academy of Sciences},
	volume = {119},
	number = {9},
	year = {2022},
	pages = {e2110450119},
	type = {Journal Article},
	issn = {0027-8424},
	author = {Kim, Jayoung and Gao, Yongsheng and Zhao, Zongmin and Rodrigues, Danika and Tanner, Eden E L and Ibsen, Kelly and Sasmal, Pradip K and Jaladi, Rajasekhar and Alikunju, Shanavas and Mitragotri, Samir}
}
@article {RN30,
	title = {Deletion of TrkB in parvalbumin interneurons alters cortical neural dynamics},
	journal = {Journal of Cellular Physiology},
	volume = {237},
	number = {1},
	year = {2022},
	pages = {949-964},
	type = {Journal Article},
	issn = {0021-9541},
	author = {Lau, Chunyue Geoffrey and Zhang, Huiqi and Murthy, Venkatesh N}
}
@article {RN20,
	title = {DGAT2 Inhibition Potentiates Lipid Droplet Formation To Reduce Cytotoxicity in APOL1 Kidney Risk Variants},
	journal = {Journal of the American Society of Nephrology},
	volume = {33},
	number = {5},
	year = {2022},
	pages = {889-907},
	type = {Journal Article},
	issn = {1046-6673},
	doi = {10.1681/asn.2021050723},
	url = {https://dx.doi.org/10.1681/asn.2021050723},
	author = {Justin Chun and Riella, Cristian V. and Chung, Hyunjae and Shah, Shrijal S. and Wang, Minxian and Jose M. Magraner and Ribas, Guilherme T. and Ribas, Hennrique T. and Jia-Yue Zhang and Seth L. Alper and David J. Friedman and Pollak, Martin R.}
}
@article {RN89,
	title = {A distinct core regulatory module enforces oncogene expression in KMT2A-rearranged leukemia},
	journal = {Genes \& development},
	volume = {36},
	number = {5-6},
	year = {2022},
	pages = {368-389},
	type = {Journal Article},
	issn = {0890-9369},
	author = {Harada, Taku and Heshmati, Yaser and Kalfon, J{\'e}r{\'e}mie and Perez, Monika W and Ferrucio, Juliana Xavier and Ewers, Jazmin and Engler, Benjamin Hubbell and Kossenkov, Andrew and Ellegast, Jana M and Joanna, S Yi}
}
@article {RN53,
	title = {Distinct representation of cue-outcome association by D1 and D2 neurons in the ventral striatum{\textquoteright}s olfactory tubercle},
	journal = {Elife},
	volume = {11},
	year = {2022},
	pages = {e75463},
	type = {Journal Article},
	issn = {2050-084X},
	author = {Martiros, Nun{\'e} and Kapoor, Vikrant and Kim, Spencer E and Murthy, Venkatesh N}
}
@article {RN35,
	title = {Distinct roles for motor cortical and thalamic inputs to striatum during motor skill learning and execution},
	journal = {Science advances},
	volume = {8},
	number = {8},
	year = {2022},
	pages = {eabk0231},
	type = {Journal Article},
	issn = {2375-2548},
	author = {Steffen B E Wolff and Ko, Raymond and {\"O}lveczky, Bence P}
}
@article {RN39,
	title = {Genetic architecture underlying variation in floral meristem termination in Aquilegia},
	journal = {Journal of Experimental Botany},
	year = {2022},
	type = {Journal Article},
	abstract = {Floral organs are produced by floral meristems (FMs), which harbor stem cells in their centers. Since each flower only has a finite number of organs, the stem cell activity of an FM will always terminate at a specific time point, a process termed floral meristem termination (FMT). Variation in the timing of FMT can give rise to floral morphological diversity, but how this process is fine-tuned at a developmental and evolutionary level is poorly understood. Flowers from the genus Aquilegia share identical floral organ arrangement except for stamen whorl number (SWN), making Aquilegia a well-suited system for investigation of this process: differences in SWN between species represent differences in the timing of FMT. By crossing A. canadensis and A. brevistyla, quantitative trait locus (QTL) mapping has revealed a complex genetic architecture with seven QTL. We explored potential candidate genes under each QTL and characterized novel expression patterns of select loci of interest using in situ hybridization. To our knowledge, this is the first attempt to dissect the genetic basis of how natural variation in the timing of FMT is regulated, and our results provide insight into how floral morphological diversity can be generated at the meristematic level.},
	issn = {0022-0957},
	doi = {10.1093/jxb/erac277},
	url = {https://doi.org/10.1093/jxb/erac277},
	author = {Min, Ya and Ballerini, Evangeline S and Edwards, Molly B and Hodges, Scott A and Kramer, Elena M}
}
@article {RN91,
	title = {Heterochronic parabiosis reprograms the mouse brain transcriptome by shifting aging signatures in multiple cell types},
	journal = {bioRxiv},
	year = {2022},
	type = {Journal Article},
	author = {Methodios Ximerakis and Holton, Kristina M and Giadone, Richard M and Ceren Ozek and Saxena, Monika and Santiago, Samara and Adiconis, Xian and Dionne, Danielle and Lan Nguyen and Shah, Kavya M}
}
@article {RN22,
	title = {Identification of basal complex protein that is essential for maturation of transmission-stage malaria parasites},
	journal = {Proceedings of the National Academy of Sciences},
	volume = {119},
	number = {34},
	year = {2022},
	note = {doi: 10.1073/pnas.2204167119},
	pages = {e2204167119},
	type = {Journal Article},
	abstract = {Malaria remains a global driver of morbidity and mortality. To generate new antimalarials, one must elucidate the fundamental cell biology of Plasmodium falciparum, the parasite responsible for the deadliest cases of malaria. A membranous and proteinaceous scaffold called the inner membrane complex (IMC) supports the parasite during morphological changes, including segmentation of daughter cells during asexual replication and formation of transmission-stage gametocytes. The basal complex lines the edge of the IMC during segmentation and likely facilitates IMC expansion. It is unknown, however, what drives IMC expansion during gametocytogenesis. We describe the discovery of a basal complex protein, PfBLEB, which we find to be essential for gametocytogenesis. Parasites lacking PfBLEB harbor defects in IMC expansion and are unable to form mature gametocytes. This article demonstrates a role for a basal complex protein outside of asexual division, and, importantly, highlights a potential molecular target for the ablation of malaria transmission.},
	doi = {10.1073/pnas.2204167119},
	url = {https://doi.org/10.1073/pnas.2204167119},
	author = {Clements, Rebecca L. and Morano, Alexander A. and Navarro, Francesca M. and McGee, James P. and Du, Esrah W. and Streva, Vincent A. and Lindner, Scott E. and Jeffrey D. Dvorin}
}
@article {RN25,
	title = {Loss of mouse Stmn2 function causes motor neuropathy},
	journal = {Neuron},
	volume = {110},
	number = {10},
	year = {2022},
	pages = {1671-1688. e6},
	type = {Journal Article},
	issn = {0896-6273},
	author = {Guerra San Juan, Irune and Nash, Leslie A and Smith, Kevin S and Leyton-Jaimes, Marcel F and Menglu Qian and Klim, Joseph R and Limone, Francesco and Dorr, Alexander B and Alexander Couto and Pintacuda, Greta}
}
@unpublished {RN18,
	title = {Machine learning directed organoid morphogenesis uncovers an excitable system driving human axial elongation},
	year = {2022},
	publisher = {Cold Spring Harbor Laboratory},
	type = {Unpublished Work},
	doi = {10.1101/2022.05.10.491358},
	url = {https://dx.doi.org/10.1101/2022.05.10.491358},
	author = {Anand, Giridhar M. and Megale, Heitor C. and Murphy, Sean H. and Weis, Theresa and Zuwan Lin and Yichun He and Wang, Xiao and Jia Liu and Ramanathan, Sharad}
}
@article {RN47,
	title = {Membrane curvature and PS localize coagulation proteins to filopodia and retraction fibers of endothelial cells},
	journal = {Blood Advances},
	year = {2022},
	type = {Journal Article},
	issn = {2473-9529},
	author = {Carman, Christopher V and Nikova, Dessislava N and Sakurai, Yumiko and Shi, Jialan and Novakovic, Valerie A and Rasmussen, Jan T and Lam, Wilbur and Gilbert, Gary E}
}
@article {RN27,
	title = {Nuclear speed and cycle length co-vary with local density during syncytial blastoderm formation in a cricket},
	journal = {Nature communications},
	volume = {13},
	number = {1},
	year = {2022},
	pages = {1-14},
	type = {Journal Article},
	issn = {2041-1723},
	author = {Seth Donoughe and Jordan Hoffmann and Nakamura, Taro and Chris H Rycroft and Cassandra G. Extavour}
}
@article {RN57,
	title = {Orthogonally induced differentiation of stem cells for the programmatic patterning of vascularized organoids and bioprinted tissues},
	journal = {Nature Biomedical Engineering},
	volume = {6},
	number = {4},
	year = {2022},
	pages = {449-462},
	type = {Journal Article},
	issn = {2157-846X},
	author = {Skylar-Scott, Mark A and Huang, Jeremy Y and Lu, Aric and Ng, Alex H M and Duenki, Tomoya and Liu, Songlei and Nam, Lucy L and Damaraju, Sarita and Church, George M and Lewis, Jennifer A.}
}
@article {RN66,
	title = {Simultaneous multiparameter whole blood hemostasis assessment using a carbon nanotube-paper composite capacitance sensor},
	journal = {Biosensors and Bioelectronics},
	volume = {197},
	year = {2022},
	pages = {113786},
	type = {Journal Article},
	issn = {0956-5663},
	author = {Sekar, Praveen K and Liang, Xin M and Kahng, Seong-Joong and Shu, Zhiquan and Dichiara, Anthony B and Chung, Jae-Hyun and Wu, Yanyun and Gao, Dayong}
}
@article {RN54,
	title = {Social isolation modulates appetite and avoidance behavior via a common oxytocinergic circuit in larval zebrafish},
	journal = {Nature communications},
	volume = {13},
	number = {1},
	year = {2022},
	pages = {1-17},
	type = {Journal Article},
	issn = {2041-1723},
	author = {Caroline L Wee and Song, Erin and Maxim Nikitchenko and Herrera, Kristian J and Wong, Sandy and Engert, Florian and Kunes, Samuel}
}
@article {RN72,
	title = {Structural basis for acyl chain control over glycosphingolipid sorting and vesicular trafficking},
	journal = {Cell reports},
	volume = {40},
	number = {2},
	year = {2022},
	pages = {111063},
	type = {Journal Article},
	issn = {2211-1247},
	author = {Schmieder, Stefanie S and Tatituri, Raju and Anderson, Michael and Kelly, Kate and Lencer, Wayne I}
}
@article {RN24,
	title = {Transplanted organoids empower human preclinical assessment of drug candidate for the clinic},
	journal = {Science advances},
	volume = {8},
	number = {27},
	year = {2022},
	pages = {eabj5633},
	type = {Journal Article},
	issn = {2375-2548},
	author = {Westerling-Bui, Amy D and Fast, Eva Maria and Soare, Thomas W and Venkatachalan, Srinivasan and DeRan, Michael and Fanelli, Alyssa B and Kyrychenko, Sergii and Hoang, Hien and Corriea, Grinal M and Zhang, Wei}
}
@article {RN28,
	title = {3D Imaging of PDL Collagen Fibers during Orthodontic Tooth Movement in Mandibular Murine Model},
	journal = {JoVE (Journal of Visualized Experiments)},
	number = {170},
	year = {2021},
	pages = {e62149},
	type = {Journal Article},
	issn = {1940-087X},
	author = {Xu, Han and Lee, Andy and Sun, Lu and Naveh, Gili RS}
}
@article {RN87,
	title = {Adaptive tail-length evolution in deer mice is associated with differential Hoxd13 expression in early development},
	journal = {bioRxiv},
	year = {2021},
	type = {Journal Article},
	author = {Kingsley, Evan P and Hager, Emily R and Lassance, Jean Marc and Turner, Kyle M and Harringmeyer, Olivia S and Kirby, Christopher and Neugeboren, Beverly I and Hoekstra, Hopi E}
}
@article {RN32,
	title = {Axis formation in annual killifish: Nodal coordinates morphogenesis in absence of Huluwa prepatterning},
	journal = {bioRxiv},
	year = {2021},
	type = {Journal Article},
	author = {Abitua, Philip B and Deniz C Aksel and Schier, Alexander F}
}
@article {RN49,
	title = {Aβ receptors specifically recognize molecular features displayed by fibril ends and neurotoxic oligomers},
	journal = {Nature Communications},
	volume = {12},
	number = {1},
	year = {2021},
	pages = {1-16},
	type = {Journal Article},
	issn = {2041-1723},
	author = {Amin, Ladan and Harris, David A}
}
@article {RN13,
	title = {Carbonate-hosted microbial communities are prolific and pervasive methane oxidizers at geologically diverse marine methane seep sites},
	journal = {Proceedings of the National Academy of Sciences},
	volume = {118},
	number = {25},
	year = {2021},
	pages = {e2006857118},
	type = {Journal Article},
	issn = {0027-8424},
	doi = {10.1073/pnas.2006857118},
	url = {https://dx.doi.org/10.1073/pnas.2006857118},
	author = {Marlow, Jeffrey J. and Hoer, Daniel and Jungbluth, Sean P. and Reynard, Linda M. and Gartman, Amy and Chavez, Marko S. and El-Naggar, Mohamed Y. and Tuross, Noreen and Orphan, Victoria J. and Peter R. Girguis}
}
@article {RN26,
	title = {Controlled delivery of gold nanoparticle-coupled miRNA therapeutics via an injectable self-healing hydrogel},
	journal = {Nanoscale},
	volume = {13},
	number = {48},
	year = {2021},
	pages = {20451-20461},
	type = {Journal Article},
	author = {van der Ven, Casper F T and Tibbitt, Mark W and Conde, Jo{\~a}o and van Mil, Alain and Hjortnaes, Jesper and Doevendans, Pieter A and Sluijter, Joost P G and Elena Aikawa and Langer, Robert S}
}
@article {RN73,
	title = {Corticospinal neuron subpopulation-specific developmental genes prospectively indicate mature segmentally specific axon projection targeting},
	journal = {Cell reports},
	volume = {37},
	number = {3},
	year = {2021},
	pages = {109843},
	type = {Journal Article},
	issn = {2211-1247},
	author = {Sahni, Vibhu and Shnider, Sara J and Jabaudon, Denis and Song, Janet HT and Itoh, Yasuhiro and Greig, Luciano C and Jeffrey D Macklis}
}
@article {RN42,
	title = {Depletion of the mini-chromosome maintenance complex binding protein allows the progression of cytokinesis despite abnormal karyokinesis during the asexual development of Plasmodium falciparum},
	journal = {Cellular microbiology},
	volume = {23},
	number = {3},
	year = {2021},
	pages = {e13284},
	type = {Journal Article},
	issn = {1462-5814},
	author = {Sabrina Absalon and Dvorin, Jeffrey D}
}
@article {RN33,
	title = {Elastogenesis correlates with pigment production in murine aortic valve leaflets},
	journal = {Frontiers in Cardiovascular Medicine},
	volume = {8},
	year = {2021},
	pages = {533},
	type = {Journal Article},
	issn = {2297-055X},
	author = {Joshua D Hutcheson and Schlotter, Florian and Creager, Michael D and Li, Xiaoshuang and Tan Pham and Vyas, Payal and Higashi, Hideyuki and Body, Simon C and Aikawa, Masanori and Sasha A Singh}
}
@article {RN59,
	title = {GDF11 expressed in the adult brain negatively regulates hippocampal neurogenesis},
	journal = {Molecular brain},
	volume = {14},
	number = {1},
	year = {2021},
	pages = {1-13},
	type = {Journal Article},
	issn = {1756-6606},
	author = {Mayweather, Brittany A and Buchanan, Sean M and Rubin, Lee L}
}
@article {RN7,
	title = {Lipidome-based Targeting of STAT3-driven Breast Cancer Cells Using Poly-l-glutamic Acid-coated Layer-by-Layer Nanoparticles},
	journal = {Mol Cancer Ther},
	volume = {20},
	number = {4},
	year = {2021},
	note = {Tosic, Isidora Heppler, Lisa N Egusquiaguirre, Susana P Boehnke, Natalie Correa, Santiago Costa, Daniel F Moore, Elizabeth A Grossman Pal, Sharmistha Richardson, Douglas S Ivanov, Alexander R Haas-Kogan, Daphne A Nomura, Daniel K Hammond, Paula T Frank, David A eng R01 CA160979/CA/NCI NIH HHS/ R01 CA218500/CA/NCI NIH HHS/ R01 GM120272/GM/NIGMS NIH HHS/ Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov{\textquoteright}t 2021/02/05 Mol Cancer Ther. 2021 Apr;20(4):726-738. doi: 10.1158/1535-7163.MCT-20-0505. Epub 2021 Feb 3.},
	pages = {726-738},
	type = {Journal Article},
	abstract = {The oncogenic transcription factor STAT3 is aberrantly activated in 70\% of breast cancers, including nearly all triple-negative breast cancers (TNBCs). Because STAT3 is difficult to target directly, we considered whether metabolic changes driven by activated STAT3 could provide a therapeutic opportunity. We found that STAT3 prominently modulated several lipid classes, with most profound effects on N-acyl taurine and arachidonic acid, both of which are involved in plasma membrane remodeling. To exploit these metabolic changes therapeutically, we screened a library of layer-by-layer (LbL) nanoparticles (NPs) differing in the surface layer that modulates interactivity with the cell membrane. We found that poly-l-glutamic acid (PLE)-coated NPs bind to STAT3-transformed breast cancer cells with 50\% greater efficiency than to nontransformed cells, and the heightened PLE-NP binding to TNBC cells was attenuated by STAT3 inhibition. This effect was also observed in densely packed three-dimensional breast cancer organoids. As STAT3-transformed cells show greater resistance to cytotoxic agents, we evaluated whether enhanced targeted delivery via PLE-NPs would provide a therapeutic advantage. We found that cisplatin-loaded PLE-NPs induced apoptosis of STAT3-driven cells at lower doses compared with both unencapsulated cisplatin and cisplatin-loaded nontargeted NPs. In addition, because radiation is commonly used in breast cancer treatment, and may alter cellular lipid distribution, we analyzed its effect on PLE-NP-cell binding. Irradiation of cells enhanced the STAT3-targeting properties of PLE-NPs in a dose-dependent manner, suggesting potential synergies between these therapeutic modalities. These findings suggest that cellular lipid changes driven by activated STAT3 may be exploited therapeutically using unique LbL NPs.},
	keywords = {Drug Delivery Systems/*methods Glutamic Acid/pharmacology/*therapeutic use Humans Lipidomics/*methods Nanoparticles/*metabolism STAT3 Transcription Factor/*metabolism Triple Negative Breast Neoplasms/*genetics/pathology},
	issn = {1538-8514 (Electronic) 1535-7163 (Linking)},
	doi = {10.1158/1535-7163.MCT-20-0505},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/33536189},
	author = {Tosic, I. and Heppler, L. N. and Egusquiaguirre, S. P. and Boehnke, N. and Correa, S. and Costa, D. F. and Moore, E. A. G. and Pal, S. and Richardson, D.S. and Ivanov, A. R. and Haas-Kogan, D. A. and Nomura, D. K. and Hammond, P. T. and Frank, D. A.}
}
@article {RN93,
	title = {Loss of TBK1 activity leads to TDP-43 proteinopathy through lysosomal dysfunction in human motor neurons},
	journal = {bioRxiv},
	year = {2021},
	type = {Journal Article},
	author = {Hao, Jin and Wells, Michael F and Niu, Gengle and Guerra San Juan, Irune and Limone, Francesco and Fukuda, Atsushi and Leyton-Jaimes, Marcel F and Joseph, Brian and Menglu Qian and Mordes, Daniel A}
}
@article {RN90,
	title = {Lumican regulates cervical corticospinal axon collateralization via non-autonomous crosstalk between distinct corticospinal neuron subpopulations},
	journal = {BioRxiv},
	year = {2021},
	type = {Journal Article},
	author = {Itoh, Yasuhiro and Sahni, Vibhu and Shnider, Sara J and Jeffrey D Macklis}
}
@article {RN9,
	title = {Martensopsalis, a new genus of Neopilionidae from New Caledonia (Opiliones: Eupnoi)},
	journal = {Zootaxa},
	volume = {4984},
	number = {1},
	year = {2021},
	pages = {98-107},
	type = {Journal Article},
	issn = {1175-5334},
	doi = {10.11646/zootaxa.4984.1.9},
	url = {https://dx.doi.org/10.11646/zootaxa.4984.1.9},
	author = {Giribet, Gonzalo and Baker, Caitlin M. and Brouste, Damien}
}
@article {RN52,
	title = {Modulating mesendoderm competence during human germ layer differentiation},
	journal = {Cell reports},
	volume = {37},
	number = {6},
	year = {2021},
	pages = {109990},
	type = {Journal Article},
	issn = {2211-1247},
	author = {Valcourt, James R and Huang, Roya E and Kundu, Sharmistha and Venkatasubramanian, Divya and Kingston, Robert E and Ramanathan, Sharad}
}
@article {RN95,
	title = {Neural correlates of individual odor preference in Drosophila},
	journal = {bioRxiv},
	year = {2021},
	type = {Journal Article},
	author = {Churgin, Matthew and Lavrentovich, Danylo and Smith, Matthew AY and Gao, Ruixuan and Edward S Boyden and de Bivort, Benjamin L}
}
@article {RN16,
	title = {Optogenetic axon guidance in embryonic zebrafish},
	journal = {STAR Protocols},
	volume = {2},
	number = {4},
	year = {2021},
	pages = {100947},
	type = {Journal Article},
	abstract = {Summary Axons form the long-range connections of biological neuronal networks, which are built through the developmental process of axon guidance. Here, we describe a protocol to precisely and non-invasively control axonal growth trajectories in live zebrafish embryos using focal light activation of a photoactivatable Rac1. We outline techniques for photostimulation, time-lapse imaging, and immunohistochemistry. These approaches enable engineering of long-range axonal circuitry or repair of defective circuits in living zebrafish, despite a milieu of competing endogenous signals and repulsive barriers. For complete details on the use and execution of this protocol, please refer to Harris et~al. (2020).},
	keywords = {Developmental biology Microscopy Model Organisms Molecular Biology Neuroscience},
	issn = {2666-1667},
	doi = {https://doi.org/10.1016/j.xpro.2021.100947},
	url = {https://www.sciencedirect.com/science/article/pii/S2666166721006535},
	author = {James M. Harris and Andy Yu-Der Wang and Arlotta, Paola}
}
@article {RN14,
	title = {The pattern of nodal morphogen signaling is shaped by co-receptor expression},
	journal = {eLife},
	volume = {10},
	year = {2021},
	type = {Journal Article},
	issn = {2050-084X},
	doi = {10.7554/elife.54894},
	url = {https://dx.doi.org/10.7554/elife.54894},
	author = {Lord, Nathan D. and Carte, Adam N. and Abitua, Philip B. and Alexander F. Schier}
}
@article {RN62,
	title = {Phenotypic and molecular evolution across 10,000 generations in laboratory budding yeast populations},
	journal = {Elife},
	volume = {10},
	year = {2021},
	pages = {e63910},
	type = {Journal Article},
	issn = {2050-084X},
	author = {Johnson, Milo S and Gopalakrishnan, Shreyas and Goyal, Juhee and Dillingham, Megan E and Bakerlee, Christopher W and Humphrey, Parris T and Jagdish, Tanush and Jerison, Elizabeth R and Kosheleva, Katya and Lawrence, Katherine R}
}
@article {RN74,
	title = {Recessive, gain-of-function toxicity in an APOL1 BAC transgenic mouse model mirrors human APOL1 kidney disease},
	journal = {Disease Models \& Mechanisms},
	volume = {14},
	number = {8},
	year = {2021},
	pages = {dmm048952},
	type = {Journal Article},
	issn = {1754-8403},
	author = {McCarthy, Gizelle M and Blasio, Angelo and Donovan, Olivia G and Schaller, Lena B and Bock-Hughes, Althea and Magraner, Jose M and Suh, Jung Hee and Tattersfield, Calum F and Stillman, Isaac E and Shah, Shrijal S}
}
@article {RN40,
	title = {Skeletal muscle regeneration with robotic actuation{\textendash}mediated clearance of neutrophils},
	journal = {Science translational medicine},
	volume = {13},
	number = {614},
	year = {2021},
	pages = {eabe8868},
	type = {Journal Article},
	issn = {1946-6242},
	author = {Seo, Bo Ri and Payne, Christopher J and McNamara, Stephanie L and Freedman, Benjamin R and Kwee, Brian J and Nam, Sungmin and de L{\'a}zaro, Irene and Darnell, Max and Alvarez, Jonathan T and Dellacherie, Maxence O}
}
@article {RN45,
	title = {Spatially resolved correlative microscopy and microbial identification reveal dynamic depth-and mineral-dependent anabolic activity in salt marsh sediment},
	journal = {Environmental microbiology},
	volume = {23},
	number = {8},
	year = {2021},
	pages = {4756-4777},
	type = {Journal Article},
	issn = {1462-2912},
	author = {Marlow, Jeffrey and Spietz, Rachel and Kim, Keun-Young and Mark Ellisman and Girguis, Peter and Hatzenpichler, Roland}
}
@article {RN1,
	title = {Tissue Clearing},
	journal = {Nat Rev Methods Primers},
	volume = {1},
	number = {1},
	year = {2021},
	note = {Richardson, Douglas S Guan, Webster Matsumoto, Katsuhiko Pan, Chenchen Chung, Kwanghun Erturk, Ali Ueda, Hiroki R Lichtman, Jeff W eng DP2 ES027992/ES/NIEHS NIH HHS/ P50 MH094271/MH/NIMH NIH HHS/ U01 MH117072/MH/NIMH NIH HHS/ U19 NS104653/NS/NINDS NIH HHS/ England 2022/02/08 Nat Rev Methods Primers. 2021;1(1). doi: 10.1038/s43586-021-00080-9. Epub 2021 Dec 16.},
	type = {Journal Article},
	abstract = {Tissue clearing of gross anatomical samples was first described over a century ago and has only recently found widespread use in the field of microscopy. This renaissance has been driven by the application of modern knowledge of optical physics and chemical engineering to the development of robust and reproducible clearing techniques, the arrival of new microscopes that can image large samples at cellular resolution and computing infrastructure able to store and analyze large data volumes. Many biological relationships between structure and function require investigation in three dimensions and tissue clearing therefore has the potential to enable broad discoveries in the biological sciences. Unfortunately, the current literature is complex and could confuse researchers looking to begin a clearing project. The goal of this Primer is to outline a modular approach to tissue clearing that allows a novice researcher to develop a customized clearing pipeline tailored to their tissue of interest. Further, the Primer outlines the required imaging and computational infrastructure needed to perform tissue clearing at scale, gives an overview of current applications, discusses limitations and provides an outlook on future advances in the field.},
	issn = {2662-8449 (Electronic) 2662-8449 (Linking)},
	doi = {10.1038/s43586-021-00080-9},
	url = {https://www.ncbi.nlm.nih.gov/pubmed/35128463},
	author = {Richardson, D.S. and Guan, W. and Matsumoto, K. and Pan, C. and Chung, K. and Erturk, A. and Ueda, H. R. and Lichtman, J. W.}
}
@article {RN11,
	title = {The type 3 secretion system requires actin polymerization to open translocon pores},
	journal = {PLOS Pathogens},
	volume = {17},
	number = {9},
	year = {2021},
	pages = {e1009932},
	type = {Journal Article},
	issn = {1553-7374},
	doi = {10.1371/journal.ppat.1009932},
	url = {https://dx.doi.org/10.1371/journal.ppat.1009932},
	author = {Russo, Brian C. and Duncan-Lowey, Jeffrey K. and Chen, Poyin and Goldberg, Marcia B.}
}
@article {RN55,
	title = {UCP1 governs liver extracellular succinate and inflammatory pathogenesis},
	journal = {Nature metabolism},
	volume = {3},
	number = {5},
	year = {2021},
	pages = {604-617},
	type = {Journal Article},
	issn = {2522-5812},
	author = {Mills, Evanna L and Harmon, Cathal and Jedrychowski, Mark P and Xiao, Haopeng and Garrity, Ryan and Tran, Nhien V and Bradshaw, Gary A and Fu, Accalia and Szpyt, John and Reddy, Anita}
}
@unpublished {RN19,
	title = {Viscous effects and complex local flow behaviors dominate hemolymph circulation in the living wings of locusts},
	year = {2021},
	publisher = {Cold Spring Harbor Laboratory},
	type = {Unpublished Work},
	doi = {10.1101/2021.09.15.460448},
	url = {https://dx.doi.org/10.1101/2021.09.15.460448},
	author = {Mary K. Salcedo and Jun, Brian and Vlachos, Pavlos and Mahadevan, Lakshminarayanan and Combes, Stacey A.}
}
@article {1652053,
	title = {Crim1 and Kelch-like 14 exert complementary dual-directional developmental control over segmentally specific corticospinal axon projection targeting},
	journal = {Cell reports},
	volume = {37},
	number = {3},
	year = {2021},
	pages = {109842},
	publisher = {Elsevier},
	isbn = {2211-1247},
	author = {Sahni, Vibhu and Itoh, Yasuhiro and Shnider, Sara J and Jeffrey D Macklis}
}
@article {1651697,
	title = {Storing and reading information in mixtures of fluorescent molecules},
	journal = {ACS central science},
	volume = {7},
	number = {10},
	year = {2021},
	pages = {1728-1735},
	publisher = {ACS Publications},
	isbn = {2374-7943},
	author = {Nagarkar, Amit A and Root, Samuel E and Fink, Michael J and Ten, Alexei S and Cafferty, Brian J and Richardson, Douglas S and Mrksich, Milan and Whitesides, George M.}
}
@article {RN38,
	title = {Absence of survival and motor deficits in 500 repeat C9ORF72 BAC mice},
	journal = {Neuron},
	volume = {108},
	number = {4},
	year = {2020},
	pages = {775-783. e4},
	type = {Journal Article},
	issn = {0896-6273},
	author = {Mordes, Daniel A and Morrison, Brett M and Ament, Xanthe H and Christopher Cantrell and Joanie Mok and Pierce Eggan and Xue, Carolyn and Jin-Yuan Wang and Eggan, Kevin and Rothstein, Jeffrey D}
}
@article {RN21,
	title = {Annexin A1\&$\#$x2013;dependent tethering promotes extracellular vesicle aggregation revealed with single\&$\#$x2013;extracellular vesicle analysis},
	journal = {Science Advances},
	volume = {6},
	number = {38},
	year = {2020},
	pages = {eabb1244},
	type = {Journal Article},
	abstract = {Protein-mediated tethering of vesicles in the extracellular matrix contributes to microcalcification formation. Extracellular vesicles (EVs) including plasma membrane{\textendash}derived microvesicles and endosomal-derived exosomes aggregate by unknown mechanisms, forming microcalcifications that promote cardiovascular disease, the leading cause of death worldwide. Here, we show a framework for assessing cell-independent EV mechanisms in disease by suggesting that annexin A1 (ANXA1){\textendash}dependent tethering induces EV aggregation and microcalcification. We present single-EV microarray, a method to distinguish microvesicles from exosomes and assess heterogeneity at a single-EV level. Single-EV microarray and proteomics revealed increased ANXA1 primarily on aggregating and calcifying microvesicles. ANXA1 vesicle aggregation was suppressed by calcium chelation, altering pH, or ANXA1 neutralizing antibody. ANXA1 knockdown attenuated EV aggregation and microcalcification formation in human cardiovascular cells and acellular three-dimensional collagen hydrogels. Our findings explain why microcalcifications are more prone to form in vulnerable regions of plaque, regulating critical cardiovascular pathology, and likely extend to other EV-associated diseases, including autoimmune and neurodegenerative diseases and cancer.},
	doi = {doi:10.1126/sciadv.abb1244},
	url = {https://www.science.org/doi/abs/10.1126/sciadv.abb1244},
	author = {Rogers, Maximillian A. and Buffolo, Fabrizio and Schlotter, Florian and Atkins, Samantha K. and Lang H. Lee and Halu, Arda and Mark C. Blaser and Tsolaki, Elena and Higashi, Hideyuki and Luther, Kristin and Daaboul, George and Carlijn V. C. Bouten and Simon C. Body and Singh, Sasha A. and Sergio Bertazzo and Libby, Peter and Aikawa, Masanori and Elena Aikawa}
}
@article {RN70,
	title = {Automated quantification of immunohistochemical staining of large animal brain tissue using QuPath software},
	journal = {Neuroscience},
	volume = {429},
	year = {2020},
	pages = {235-244},
	type = {Journal Article},
	issn = {0306-4522},
	author = {Morriss, Nicholas J and Conley, Grace M and Ospina, Sara M and Meehan III, William P and Qiu, Jianhua and Mannix, Rebekah}
}
@article {RN48,
	title = {Capturing bubbles and preventing foam using aerophilic surfaces},
	journal = {Advanced Materials Interfaces},
	volume = {7},
	number = {6},
	year = {2020},
	pages = {1901599},
	type = {Journal Article},
	issn = {2196-7350},
	author = {Rapoport, Leonid and Emmerich, Theo and Varanasi, Kripa K}
}
@article {RN77,
	title = {Changing the Waddington landscape to control mesendoderm competence},
	journal = {bioRxiv},
	year = {2020},
	pages = {867010},
	type = {Journal Article},
	author = {Valcourt, James R and Huang, Roya and Kundu, Sharmistha and Venkatasubramanian, Divya and Kingston, Robert E and Ramanathan, Sharad}
}
@article {RN50,
	title = {CUB and Sushi Multiple Domains 1 (CSMD1) opposes the complement cascade in neural tissues},
	journal = {bioRxiv},
	year = {2020},
	type = {Journal Article},
	author = {Baum, Matthew L and Daniel K Wilton and Muthukumar, Allie and Fox, Rachel G and Carey, Alanna and Crotty, William and Scott-Hewitt, Nicole and Bien, Elizabeth and Sabatini, David A and Lanser, Toby}
}
@article {RN65,
	title = {Cytosine and adenine base editing of the brain, liver, retina, heart and skeletal muscle of mice via adeno-associated viruses},
	journal = {Nature biomedical engineering},
	volume = {4},
	number = {1},
	year = {2020},
	pages = {97-110},
	type = {Journal Article},
	issn = {2157-846X},
	author = {Levy, Jonathan M and Yeh, Wei-Hsi and Pendse, Nachiket and Davis, Jessie R and Hennessey, Erin and Butcher, Rossano and Koblan, Luke W and Comander, Jason and Liu, Qin and Liu, David R}
}
@article {RN56,
	title = {Encoding of 3D head orienting movements in the primary visual cortex},
	journal = {Neuron},
	volume = {108},
	number = {3},
	year = {2020},
	pages = {512-525. e4},
	type = {Journal Article},
	issn = {0896-6273},
	author = {Grigori Guitchounts and Masis, Javier and Steffen B E Wolff and David Cox}
}
@article {RN23,
	title = {Extracellular matrix plasticity as a driver of cell spreading},
	journal = {Proceedings of the National Academy of Sciences},
	volume = {117},
	number = {42},
	year = {2020},
	pages = {25999-26007},
	type = {Journal Article},
	issn = {0027-8424},
	author = {Grolman, Joshua M and Weinand, Philipp and Mooney, David J}
}
@article {RN75,
	title = {FIN-Seq: transcriptional profiling of specific cell types from frozen archived tissue of the human central nervous system},
	journal = {Nucleic Acids Research},
	volume = {48},
	number = {1},
	year = {2020},
	pages = {e4-e4},
	type = {Journal Article},
	issn = {0305-1048},
	author = {Ryoji Amamoto and Zuccaro, Emanuela and Curry, Nathan C and Khurana, Sonia and Chen, Hsu-Hsin and Cepko, Constance L and Arlotta, Paola}
}
@article {RN92,
	title = {FSGS-causing INF2 mutation impairs cleaved INF2 N-fragment functions in podocytes},
	journal = {Journal of the American Society of Nephrology},
	volume = {31},
	number = {2},
	year = {2020},
	pages = {374-391},
	type = {Journal Article},
	issn = {1046-6673},
	author = {Balajikarthick Subramanian and Justin Chun and Perez-Gill, Chandra and Yan, Paul and Stillman, Isaac E and Higgs, Henry N and Alper, Seth L and Schl{\"o}ndorff, Johannes S and Pollak, Martin R.}
}
@article {RN37,
	title = {Glucose response by stem cell-derived β cells in vitro is inhibited by a bottleneck in glycolysis},
	journal = {Cell reports},
	volume = {31},
	number = {6},
	year = {2020},
	pages = {107623},
	type = {Journal Article},
	issn = {2211-1247},
	author = {Davis, Jeffrey C and Alves, Tiago C and Helman, Aharon and Chen, Jonathan C and Kenty, Jennifer H and Cardone, Rebecca L and Liu, David R and Kibbey, Richard G and Douglas A Melton}
}
@article {RN60,
	title = {The importomer is a peroxisomal membrane protein translocase},
	journal = {bioRxiv},
	year = {2020},
	type = {Journal Article},
	author = {Martenson, James S and Tam, Hanson and McQuown, Alexander J and Reif, Dvir and Zhou, Jing and Denic, Vladimir}
}
@article {RN41,
	title = {Induction of a timed metabolic collapse to overcome cancer chemoresistance},
	journal = {Cell metabolism},
	volume = {32},
	number = {3},
	year = {2020},
	pages = {391-403. e6},
	type = {Journal Article},
	issn = {1550-4131},
	author = {van Gastel, Nick and Spinelli, Jessica B and Sharda, Azeem and Schajnovitz, Amir and Baryawno, Ninib and Rhee, Catherine and Oki, Toshihiko and Grace, Eliane and Soled, Heather J and Milosevic, Jelena}
}
@article {RN43,
	title = {Inhibition of mTOR signaling enhances maturation of cardiomyocytes derived from human-induced pluripotent stem cells via p53-induced quiescence},
	journal = {Circulation},
	volume = {141},
	number = {4},
	year = {2020},
	pages = {285-300},
	type = {Journal Article},
	issn = {0009-7322},
	author = {Garbern, Jessica C and Helman, Aharon and Sereda, Rebecca and Sarikhani, Mohsen and Ahmed, Aishah and Escalante, Gabriela O and Ogurlu, Roza and Kim, Sean L and Zimmerman, John F and Cho, Alexander}
}
@article {RN71,
	title = {Internal jugular vein compression collar mitigates histopathological alterations after closed head rotational head impact in swine: A pilot study},
	journal = {Neuroscience},
	volume = {437},
	year = {2020},
	pages = {132-144},
	type = {Journal Article},
	issn = {0306-4522},
	author = {Mannix, Rebekah and Morriss, Nicholas J and Conley, Grace M and Meehan III, William P and Nedder, Arthur and Qiu, Jianhua and Float, Jamison and DiCesare, Christopher A and Myer, Gregory D}
}
@article {RN67,
	title = {Lipid availability determines fate of skeletal progenitor cells via SOX9},
	journal = {Nature},
	volume = {579},
	number = {7797},
	year = {2020},
	pages = {111-117},
	type = {Journal Article},
	issn = {1476-4687},
	author = {van Gastel, Nick and Stegen, Steve and Eelen, Guy and Schoors, Sandra and Carlier, Aur{\'e}lie and Dani{\"e}ls, Veerle W and Baryawno, Ninib and Przybylski, Dariusz and Depypere, Maarten and Stiers, Pieter-Jan}
}
@article {RN44,
	title = {Macrophage-Mediated Delivery of Hypoxia-Activated Prodrug Nanoparticles},
	journal = {Advanced Therapeutics},
	volume = {3},
	number = {2},
	year = {2020},
	pages = {1900162},
	type = {Journal Article},
	issn = {2366-3987},
	author = {Evans, Michael A and Shields IV, C Wyatt and Krishnan, Vinu and Wang, Lily Li-Wen and Zhao, Zhongmin and Ukidve, Anvay and Lewandowski, Michael and Gao, Yongsheng and Mitragotri, Samir}
}
@article {RN34,
	title = {Mapping 2D-and 3D-distributions of metal/metal oxide nanoparticles within cleared human ex vivo skin tissues},
	journal = {NanoImpact},
	volume = {17},
	year = {2020},
	pages = {100208},
	type = {Journal Article},
	issn = {2452-0748},
	author = {Touloumes, George J and Ardo{\~n}a, Herdeline Ann M and Casalino, Evan K and Zimmerman, John F and Chantre, Christophe O and Dimitrios Bitounis and Philip Demokritou and Kevin Kit Parker}
}
@article {RN69,
	title = {Mapping metabolic activity at single cell resolution in intact volcanic fumarole sediment},
	journal = {FEMS Microbiology Letters},
	volume = {367},
	number = {1},
	year = {2020},
	pages = {fnaa031},
	type = {Journal Article},
	issn = {1574-6968},
	author = {Marlow, Jeffrey J and Colocci, Isabella and Jungbluth, Sean P and Weber, Nils Moritz and Gartman, Amy and Kallmeyer, Jens}
}
@article {RN8,
	title = {Mouse retinal cell behaviour in space and time using light sheet fluorescence microscopy},
	journal = {eLife},
	volume = {9},
	year = {2020},
	type = {Journal Article},
	issn = {2050-084X},
	doi = {10.7554/elife.49779},
	url = {https://dx.doi.org/10.7554/elife.49779},
	author = {Prahst, Claudia and Ashrafzadeh, Parham and Mead, Thomas and Figueiredo, Ana and Chang, Karen and Douglas Richardson and Venkaraman, Lakshmi and Richards, Mark and Russo, Ana Martins and Harrington, Kyle and Ouarn{\'e}, Marie and Pena, Andreia and Chen, Dong Feng and Claesson-Welsh, Lena and Cho, Kin-Sang and Franco, Claudio A. and Bentley, Katie}
}
@article {RN46,
	title = {Ocular dominance plasticity in binocular primary visual cortex does not require C1q},
	journal = {Journal of Neuroscience},
	volume = {40},
	number = {4},
	year = {2020},
	pages = {769-783},
	type = {Journal Article},
	issn = {0270-6474},
	author = {Welsh, Christina A and Stephany, C{\'e}leste-{\'E}lise and Sapp, Richard W and Beth Stevens}
}
@article {RN76,
	title = {pH-gated succinate secretion regulates muscle remodeling in response to exercise},
	journal = {Cell},
	volume = {183},
	number = {1},
	year = {2020},
	pages = {62-75. e17},
	type = {Journal Article},
	issn = {0092-8674},
	author = {Reddy, Anita and Bozi, Luiz HM and Yaghi, Omar K and Mills, Evanna L and Xiao, Haopeng and Nicholson, Hilary E and Paschini, Margherita and Paulo, Joao A and Garrity, Ryan and Laznik-Bogoslavski, Dina}
}
@article {RN79,
	title = {Photo-disassembly of membrane microdomains revives conventional antibiotics against MRSA},
	journal = {Advanced Science},
	volume = {7},
	number = {6},
	year = {2020},
	pages = {1903117},
	type = {Journal Article},
	issn = {2198-3844},
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