Related to CRISPR and CRISPR based screens:

General info /

Our YouTube channel link  <– !


gRNA design /!/


Screen papers /

Full genomic reference libraries of gRNAs can be found for example in the following excellent publications. They are intended to be sorted in reversed chronological order and contains both regular KO libraries, as well as repression and activation libraries. (Please cite publications if you use the library):

  1. A CRISPR Dropout Screen Identifies Genetic Vulnerabilities and Therapeutic targets in Acute Myeloid Leukemia. Tzelepis et al. Cell Reports 2016. link
  2. Compact and highly active next-generation libraries for CRISPR-mediated gene repression and activation. Horlbeck et al. eLife 2016. link
  3. Optimized sgRNA design to maximize activity and minimize off-target effects of CRISPR-Cas9. Doench et al. Nature Biotechnology 2016. link
  4. Unraveling CRISPR-Cas9 genome engineering parameters via a library-on-library approach. Chari et al. Nature Methods 2015. link
  5. High-Resolution CRISPR Screens Reveal Fitness Genes and Genotype-Specific Cancer Liabilities. Hart et al. Cell 2015. link
  6. Identification and characterization of essential genes in the human genome. Wang et al. Science 2015. link
  7. A CRISPR-Based Screen Identifies Genes Essential for West-Nile-Virus-Induced Cell Death. Ma et al. Cell Reports 2015. link
  8. Genome-scale transcriptional activation by an engineered CRISPR-Cas9 complex. Konermann et al. Nature 2015. link
  9. Genome-Scale CRISPR-Mediated Control of Gene Repression and Activation. Gilbert et al. Cell 2014. link
  10. Genome-wide recessive genetic screening in mammalian cells with a lentiviral CRISPR-guide RNA library. Koike-Yusa et al. Nature Biotechnology 2014. link
  11. Improved vectors and genome-wide libraries for CRISPR screening. Sanjana et al. Nature Methods 2014. link
  12. RNA-Guided Human Genome Engineering via Cas9. Mali et al. Science 2013. link

Several of the libraries can be accessed through addgene (link) by clicking the links to the libraries in the end of page.

Please let me know if there is any missed publication in this list. Note that suggested full genomic gRNA libraries, listed here, should be available thorough the publication. I’m sorry for not finding them earlier.


Other Links / 

Ensembl Genome Browser /

European Bioinformatics Institute /

ImmGen /

Gencode /

Human Protein Atlas /

R2: Genomics Analysis and Visualization Platform /

Integrative Genomics Viewer /

Gene expression atlas /

The International Knockout Mouse Consortium /

Accense, for analysis of FSC files /   <– !


Oligonucleotide Properties Calculator /

BioMath Calculators /

Reverse DNA sequence /

Harvard primer bank /

Barcodes! /

MiSeq Amplicon Sequencing Sample Prep with Dual Barcoding /


Promo, “Identification of putative transcription factor binding sites” /

Transcription factor targets /

GPminer, “Investigation of gene promoters” /

dChip Software: Analysis and visualization of gene expression and SNP microarrays /

Making phylogenetic trees /

SeaView, “Multiple sequence alignment” /

BEAST, “Analysis of molecular sequences” /

FigTree, “Graphical viewer of phylogenetic trees” /

Pipmaker, “Percent identity plot” /

Using ImageJ to Quantify Images /

Making heatmaps 1 /

Making heatmaps 2 /


ApE, “A plasmid Editor” /

SnapGene /

ImageJ /

PyMol, “Molecular visualization tool” /, free alternative to Photoshop /

Inkscape, free alternative to Illustrator /

Cell profiler /


Assay Guidance Manual, High Throughput Screening (HTS) / (see and

UniProt ID mappings /

Decipher ( lists of genes and suggested shRNAs /

Protein interactions / 



The Belmont Report 1979 /

WMA Declaration of Helsinki – Ethical Principles for Medical Research Involving Human Subjects /

Clinical Trials /

Progress in Autoimmune Diseases Research, Report to Congress, National Institutes of Health, The Autoimmune Diseases Coordinating Committee, March 2005 /

Gapminder World link

Kahoot – Making Learning Awesome link link

Global Burden of disease link

Steven Johnson on where good ideas come from: link 1, link 2, link 3

Scott Page on Leveraging Diversity link 1, link 2

Organized note-taking: link 1, link 2, link 3

“Grantsmanship is the art of acquiring peer-reviewed research funding” link

Work environment and lab safety at KI: