Useful Documents

General Guides & Software

iLab Account Registration and Manual

Biowaste Handing, Control & Responsibilities

Management of Animal Diet Autofluorescence

Recognition of Components of the Vaporizer

Facsdivav6_lsr_quickrefguide

FCS_Express_information_email

Fluorofinder (light)

ICBR Policies for Self Service Users

ICBR Cytometry & Optical Microscopy Policies

 

Cytometry Materials

Flow Cytometry Basics Guide

Minimum Information About a Flow Cytometry Experiment (MIFlowCyt)

University of Florida Sorting Contract

Titrating Antibodies on Human PBMC

Sorting Buffer Recipe

Distributions of Autofluorescence After Compensation: Be Panglossian, Fret Not

Spectral Compensation for Flow Cytometry: Visualization Artifacts, Limitations, and Caveats

 

Best Practices

MiSet RFC Standards: Defining a Universal Minimum Set of Standards Required for Reproducibility and Rigor in Research Flow Cytometry Experiments

Rigor and Reproducibility in Flow (Tim Bushnell)

Reproducibility in Flow Cytometry through Standardization

NIH Enhancing Reproducibility Guidelines

Scientific Rigor and Reproducibility (Kemp, 2016)

Rigor and Reproducibility of Cytometry Practices for Immuno-Oncology (Laskowski 2020)

Flow Repository (Spidlen 2012)

 

For support documents and resources from ICBR Cytometry & Optical Microscopy, please visit: ICBR – Cytometry – External Documents – All Documents

Gene Expression & Genotyping FAQs

FAQs Bioanalyzer-TapeStation

FAQs Digital PCR

FAQs Visium HD

FAQs Single Cell RNA-seq

FAQs Short Read RNA-seq

FAQs DNA Sequencing

FAQs_16s Sequencing

NextGen Documents

NGS ICBR_Best Practices

NGS_Platforms_BasicSpecs

WGA options

NGS QC-Metrics

10X Genomics-scRNAseq lib seq-recommendations

Illumina 16S metagenomics_NGS lab recomm

SEQUEL App Options and Seq Recommendations

ELF for PacBio library fragment size selection

PacBio IsoSeq workflow on the SEQUEL_111518

PacBio_gel-purified fragments-recommend

 

Sample Requirements

PacBio sample requirements

10X Genomics Sample requirements-All-libraries

Illumina customer-constructed library requirements

Illumina Sample requirements

 

Proteomics Protocols

Isobaric labeling Quantification (iTRAQ/TMT/iodoTMT): Isobaric-Labeling-Quantification

SILAC: SILAC

Protein Extraction: Protein-isolation-using-Phenol

PTM Sample Preparation and Analysis: PTM-Sample-Prep-and-Analysis

MRM/SRM and PRM: MRM-SRM-PRM

Protein N-terminal Labeling and Analysis: N-Terminal-Labeling-and-Analysis

Label-Free Shotgun Proteomics: Label-Free-Shotgun

2D-DIGE: 2D-DIGE

 

Proteomics Deliverables and Data Visualization

Deliverables

• -iTRAQ: Raw files and ProteinPilot 5.0 or Scaffold with Mascot 2.6 output (please choose one)
• -TMT: Raw files and Proteome Discoverer 2.2 output
• -Label-Free Proteomics: Raw files and Scaffold Q+S with Mascot 2.6 or Proteome Discoverer 2.2 output
• -identification: Raw files and Scaffold Q+S with Mascot 2.6 (*.dat)

Scaffold Viewer

www.proteomesoftware.com/products/qplus-s/

ProteinPilot Viewer

sciex.com/products/software/proteinpilot-software

Proteome Discoverer Viewer

thermo.flexnetoperations.com/

Mascot Public Search

www.matrixscience.com/cgi/search_form.pl?FORMVER=2&SEARCH=MIS