• Koehler illumination and DIC configuration for inverted and upright microscopes
  • All HCBI coverslip corrected objectives are corrected for #1.5 Coverslips. Please ensure you are ONLY using #1.5 slips.
  • The HCBI recomends Prolong Glass (hard mount) or Slow Fade Glass (soft mount) mounting media. We do NOT recomend using moutning media with DAPI pre-mixed into it. This causes substantial background. Nuclear dyes should be applied with/after your secondary antibodies and washed extensively before mounting.





  1. Gene Panel Design - This is completed on the Vizgen website and is at minimum a 4-6 week process. A guide to the Gene panel Design can be found here.
  2. The HCBI does NOT provide any reagents or equipment required for sample prep. A list of all required general lab reagents and equipment can be found here.
  3. A list of reagents/equipment to order from Vizgen can be found here (from Dec 2021, prices subject to change).
  4. The sample prep protocol can be found here.
  5. A video introduction to the Vizgen Vizualizer software can be found here


Tissue Clearing


Axio Scan


PALM Laser Microdissection




LSM 780/880






lightsheet_consumables.pdf192 KB
lightsheetz1_sample-preparation_zeiss.pdf1.25 MB
ihc_and_rna.pdf18 KB
palm_consumables_quickguide_2012_rev_d.docx61 KB
zeiss_labprotocol_immunofluorescence_0310.pdf407 KB
zeiss_lcm_protocol_rna_ffpe_0212.pdf482 KB
zeiss_lcm_protocol_rna_frozen_0212.pdf161 KB
en_41_011_065_elyra_sample-prep-quickguide.pdf951 KB
elyra_sim_channel_alignment_protocol.pdf154 KB
guide_to_basic_fcs_experiment.pdf1.65 MB
zeiss_labprotocol_rna_0811.pdf4.91 MB
axio_scan.z1_application_guide.pdf5.18 MB
tile_imagingfocus_faq_rev_03-14.pdf1.19 MB
aim_zen2012_aim_dic_inverted_lsm.pdf491 KB
aim_zen2012_aim_dic_upright_lsm.pdf444 KB
en_quick-guide_lightsheet-z.1_arivis-stitching.pdf3.12 MB
hcbi_clarity_protocol.pdf110 KB
immunostaining_protocol.pdf826 KB
Gene_Panel_Design162 KB
91600002_merscope_fresh_and_fixed_frozen_tissue_sample_preparation_user_guide_rev_b.pdf1.28 MB
merscope_reagent_product_catalog_december_2021.xlsx30 KB
lab_setup_check_list_.pdf92 KB