This website uses cookies to ensure you get the best experience. By continuing the use this site, you agree to the use of cookies.

Please note: Your browser does not support the features used on Addgene's website. You may not be able to create an account or request plasmids through this website until you upgrade your browser. Learn more

Please note: Your browser does not fully support some of the features used on Addgene's website. If you run into any problems registering, depositing, or ordering please contact us at [email protected] Learn more

libraries-sm.jpg Pooled Libraries


In addition to the 45,000 plasmids in Addgene's repository, depositors have shared a variety of pooled libraries. To help you find what you're looking for, we've gathered our pooled plasmid libraries on one page. We hope you find it helpful! You can jump to the various types of libraries within the repository by using the top nav bar.

A pooled library is a set of plasmids all built with the same backbone and only differing in a small region. Pooled libraries are normally supplied as a single tube with all the plasmids in the library mixed together. The number of unique plasmids in a pooled library can range from a few hundred to millions. There are several different types of pooled libraries, including cDNA, shRNA, barcoding, phage display, and gRNA libraries.

Read our Pooled Library Guide for more information about:

  • Library amplification
  • Types of pooled library screens
  • Next-generation sequencing (NGS)

Barcoding Libraries

Barcoded libraries contain very large numbers of unique barcodes used to mark individual cells. These barcodes will then be inherited by any daughter cells, making barcoded libraries ideal for lineage tracing. These libraries are also commonly used to monitor the dynamics of heterogeneous tumors.

Library ID Species Lentiviral Generation PI Description
ClonTracer Library 67267 (2.5µg)

69830 (7.5µg)
Human 3rd Stegmeier Lentiviral library used to conduct positive selection screens for cancer cells resistant to a given treatment. This blog post about the ClonTracer Library describes how the library was used to identify pools cells that were resistant pre-treatment.
Perturb-seq Guide Barcodes (GBC) Library 85968 Human 3rd Weissman Barcode library for cloning gRNA sublibraries for single cell CRISPR analysis.

Return to top


cDNA Libraries

cDNA libraries are created from an organism’s actively transcribed mRNA, as opposed to genomic libraries, which are created from genomic DNA. Since cDNA libraries lack introns and other nontranscribed sequences, they are smaller and easier to use than genomic libraries, but they don’t contain as much regulatory information. To make a cDNA library, cDNA is synthesized, then ligated to adapters, and cloned into a given vector.

Library ID Species PI Description
Monosiga cDNA Library 25864 Monosiga brevicollis Carroll and King Bacterial expression cDNA library created from the choanoflagellate Monosiga brevicollis.
Proterospongia cDNA library 25716 Proterospongia King Bacterial expression cDNA library created from Proterospongia, also referred to as Salpingoeca.
S. rosetta Col- cDNA amplified library 62843 Salpingoeca rosetta King Created from the choanoflagellate Salpingoeca rosetta. Col+ refers to DNA isolated from bacteria cultured with the colony-inducing bacteria Algoriphagus machipongonensis.
S. rosetta Col+ cDNA amplified library 62844 Salpingoeca rosetta King Created from the choanoflagellate Salpingoeca rosetta. The Col- library was created from S. rosetta cultured without bacteria.

Return to top


CRISPR Libraries

Like shRNA libraries, CRISPR knockout libraries are used for loss-of-function screens. Multiple gRNAs are present for each gene targeted by the library. In contrast to shRNA, the effects of CRISPR knockout are not easily reversible, as the targeted gene sequence is mutated by CRISPR. Current research suggests that CRISPR screens may have fewer off-target effects than shRNA screens. Variants of CRISPR knockout screens include CRISPR activation (CRISPRa) and inhibition (CRISPRi) screens. These screens use catalytically dead dCas9 to inhibit or activate given genes without direct genomic modification. As in shRNA screens, the effects are reversible.

When choosing your library, please be aware that some of the library vectors contain Cas9 (1 plasmid system), while others require co-infection with Cas9-expressing virus or use in cells expressing Cas9 (2 plasmid system).

Knockout

CRISPR knockout libraries are designed to create insertions or deletions in targeted genes across the genome, rendering them nonfunctional. Libraries are designed to target throughout the genome unless specified. To limit false positives or false negatives, each library contain multiple gRNAs for each gene targeted by the library. Each library also contains non-targeting control gRNAs.

Library ID Species Lentiviral Generation PI Genes Targeted gRNAs per gene Total gRNAs

Brie mouse genome-wide library

Designed using optimized metrics that are described in Doench et al. (2016), which combined improved on-target activity predictions (Rule Set 2), with an off-target score, the Cutting Frequency Determination (CFD); John Doench’s gRNA design blog post describes how gRNAs were designed for this library.

73632 (1 plasmid)
73633 (2 plasmid)
Mouse 3rd Doench and Root 19,674 4 78,637

Brie mouse kinome library

CRISPR knockout pooled library that targets mouse kinome genes

75317 (1 plasmid)
75316 (2 plasmid)
Mouse 3rd Doench and Root 713 4 2,852

Brunello human genome-wide library

Designed using optimized metrics that are described in Doench et al. (2016), which combined improved on-target activity predictions (Rule Set 2), with an off-target score, the Cutting Frequency Determination (CFD); John Doench’s gRNA design blog post describes how gRNAs were designed for this library.

73179 (1 plasmid)
73178 (2 plasmid)
Human 3rd Doench and Root 19,114 4 76,441

Brunello human kinome library

CRISPR knockout pooled library that targets kinome genes

75314 (Guides 1-4); 75315 (Guides 5-8)
(1 plasmid)

75312 (Guides 1-4); 75313 (Guides 5-8)
(2 plasmid)

1000000083
Guides 1-4 & 5-8
(1 plasmid)


1000000082
Guides 1-4 & 5-8
(2 plasmid)
Human 3rd Doench and Root 763 4 3,052

Oxford Drosophila genome-wide library

This pooled library is designed for genomic targeting and screening in Drosophila cells. To design the gRNAs, the depositing laboratory computed all possible gRNA target sites within the shared exonic regions on either DNA strand of the Drosophila genome.

64750 D. melanogaster N/A Liu 13,501 3 40,279

Toronto KnockOut (TKO) genome-wide library - Version 1

Targets nearly all human protein-coding genes. Base library: gRNAs with no predicted off-target sites. Supplemental library: 6 additional gRNAs per gene.

1000000069 Human 3rd Moffat 17,661 12 176,500

Toronto KnockOut (TKO) genome-wide library - Version 3

The Toronto KnockOut Library v3 (TKOv3) is a one-plasmid system containing 70,948 gRNAs targeting 18,053 protein coding genes (4 gRNAs/gene) with 142 control gRNAs targeting EGFP, LacZ, and luciferase (71,090 total).

The gRNAs are sequence-optimized based on the criteria described in the associated article, and the number of gRNAs per gene is decreased to 4 based on the finding that there are diminishing benefits to more gRNAs per gene beyond four.

90294 Human 3rd Moffat 18,053 4 70,948

Toxoplasma genome-wide library

Used for first apicomplexan parasite knockout screen.

80636 T. gondii N/A Lourido 8,158 10 80,158

Activity-optimized human genome-wide library

Optimized for cleavage activity in order to maximize the likelihood of gene knockout. Split into three sub-libraries, each containing 10 gRNAs per gene.

1000000100 Human 3rd Sabatini and Lander 18,663 10 187,535

Activity-optimized human genome-wide library

Discontinued - see #1000000100 for an improved version

1000000067 Human 3rd Sabatini and Lander 18,166 5 178,896

Two plasmid activity-optimized human genome-wide library

Optimized for cleavage activity in order to maximize the likelihood of gene knockout. Split into three sub-libraries, each containing 10 gRNAs per gene.

1000000095 Human 3rd Sabatini and Lander 18,543 10 187,536

Two plasmid activity-optimized mouse genome-wide library

Optimized for cleavage activity in order to maximize the likelihood of gene knockout. Split into two sub-libraries, each containing 10 gRNAs per gene.

1000000096 Mouse 3rd Sabatini and Lander 18,986 10 188,509

Focused Ras Synthetic Lethal Human CRISPR Knockout Library

Focused gRNA library that targets synthetic lethal candidate and control genes with oncogenic Ras.
92352 Human 3rd Sabatini and Lander 132 50 6,661

Enriched human sub-pooled libraries

Contains 6 distinct subpools targeting:

  • kinase
  • cell cycle
  • nuclear
  • ribosomal
  • unknown
  • controls
51043 — 51048 Human 3rd Sabatini and Lander Varies 10 Varies

Human paired-guide RNA (pgRNA) Library for long non-coding RNAs (lncRNAs)

Designed for genomic deletion screening of functional lncRNAs (long non-coding RNAs) using lentiviral pgRNAs (paired-guide RNAs).

89640 Human 3rd Wei 671 lncRNAs Varies 12,472 pairs

Human genome-wide library v1

Used for genome scale lentiviral CRISPR screening. Target sites were chosen in a region close to the translation initiation site.

69763 Human 3rd Wu 20,121 4 77,406

Mouse CRISPR/Cas9-assisted Removal of Mitochondrial DNA (CARM) Library

This library is intended to be used as a technical tool for removal of mitochondrial DNA from mouse genomic DNA preparations.

82480 Mouse N/A Xie gRNAs target every ∼40bp over mitochondrial genome N/A 395

Human improved genome-wide library v1

Improved version using new design pipeline and improved gRNA scaffold.

67989 Human 3rd Yusa 18,010 5 90,709

Mouse genome-wide library

Discontinued
50947 Mouse 3rd Yusa 19,150 5 87,897

Mouse improved genome-wide library v2

Improved version using new design pipeline and improved gRNA scaffold.

67988 Mouse 3rd Yusa 18,424 5 90,230

Human GeCKO v2 genome-wide library

Delivered as two half-libraries (A and B) allowing researchers to screen with 3 or 6 gRNAs/gene, respectively.

1000000048 (1 plasmid)
1000000049 (2 plasmid)
Human 3rd Zhang 19,052 6 123,411

Mouse GeCKO v2 genome-wide library

Delivered as two half-libraries (A and B) allowing researchers to screen with 3 or 6 gRNAs/gene, respectively.

1000000052 (1 plasmid)
1000000053 (2 plasmid)
Mouse 3rd Zhang 20,661 6 130,209

Return to top


Activation

CRISPR activation libraries use gRNAs to guide dCas9 bound to a transcriptional activator to target genes and thereby activate their expression. You can learn more CRISPR-based gene regulation on our CRISPR guide page.

Library ID Species Lentiviral Generation PI Genes targeted gRNAs per gene Total gRNAs

Calabrese p65-HSF human activation library

CRISPR activation pooled library using p65-HSF

92379 (Set A); 92379-LV (Lentiviral Prep)

92380 (Set B); 92380-LV (Lentiviral Prep)

1000000111
Set A & Set B
Human 3rd Doench and Root 18,885 (Set A), 18,843 (Set B) 3-6 56,762 (Set A), 56,476 (Set B)

CRISPRa-v2 human genome-wide library

Increases transcriptional activation through the dCas9-SunTag-VP64 system, which enables specific recruitment of multiple copies of VP64 to the sgRNA-targeted gene.

83978
1000000091
Human 3rd Weissman 18,915 10 104,540
209,080

Subpooled CRISPRa-v2 human libraries

SunTag-VP64 constructs can be used for activation and must be supplied separately.

Subpools include kinases, apoptosis, stress, trafficking, gene expression, membrane proteins, and unknown function.

83980 — 83986 Human 3rd Weissman Varies 5 Varies

CRISPRa-v2 mouse genome-wide library

Increases transcriptional activation through the dCas9-SunTag-VP64 system, which enables specific recruitment of multiple copies of VP64 to the sgRNA-targeted gene.

83996
1000000093
Mouse 3rd Weissman 19,939 10 107,105
214,210

Subpooled CRISPRa-v2 mouse libraries

SunTag-VP64 constructs can be used for activation and must be supplied separately.

Subpools include kinases, apoptosis, stress, trafficking, gene expression, membrane proteins, and unknown function.

83998 — 84004 Mouse 3rd Weissman Varies 5 Varies

CRISPRa genome-wide library
Discontinued

60956 Human 3rd Weissman 15,977 10 198,810

Human SAM genome-wide library (2-plasmid system)

The synergistic Activation Mediator (SAM) is an engineered transcriptional activation complex for the transcriptional activation of endogenous genes. Consists of:

  • A nucleolytically inactive Cas9-VP64 fusion plus sgRNA incorporating two MS2 RNA aptamers at the tetraloop and stem-loop 2
  • MS2-P65-HSF1 plasmid which expresses the activation helper protein
1000000078 Human 3rd Zhang 23,430 3 70,290

Human SAM genome-wide library (3-plasmid system)

The synergistic Activation Mediator (SAM) is an engineered transcriptional activation complex for the transcriptional activation of endogenous genes. Consists of:

  • A nucleolytically inactive Cas9-VP64 fusion
  • sgRNA incorporating two MS2 RNA aptamers at the tetraloop and stem-loop 2
  • MS2-P65-HSF1 plasmid which expresses the activation helper protein
1000000057 (Zeocin)
1000000074 (Puromycin)
Human 3rd Zhang 23,430 3 70,290

Human SAM lncRNA activation library (3-plasmid system)

The synergistic Activation Mediator (SAM) is an engineered transcriptional activation complex for the transcriptional activation of lncRNAs. Consists of:

  • A nucleolytically inactive Cas9-VP64 fusion
  • sgRNA incorporating two MS2 RNA aptamers at the tetraloop and stem-loop 2
  • MS2-P65-HSF1 plasmid which expresses the activation helper protein
1000000106 (Zeocin) Human 3rd Zhang 10,504 10 96,458

Mouse SAM genome-wide library (3-plasmid system)

The synergistic Activation Mediator (SAM) is an engineered transcriptional activation complex for the transcriptional activation of endogenous genes. Consists of:

  • A nucleolytically inactive Cas9-VP64 fusion
  • sgRNA incorporating two MS2 RNA aptamers at the tetraloop and stem-loop 2
  • MS2-P65-HSF1 plasmid which expresses the activation helper protein
1000000075 (Puromycin) Mouse 3rd Zhang 23,439 3 69,716

Repression

CRISPR repression libraries use gRNAs to guide dCas9 bound to a transcriptional repressor to target genes, block transcription initiation, and thereby repress, or knockdown, their expression. You can learn more CRISPR-based gene regulation on our CRISPR guide page.

Library ID Species Lentiviral Generation PI Genes Targeted gRNAs per gene Total gRNAs

CRiNCL - Human CRISPRi Non-coding Libraries

Targets long non-coding RNA (lncRNA)-expressing genes; The fusion protein dCas9-KRAB can be used as the transcriptional repressor and must be supplied separately.

86538 — 86550 Human 3rd Weissman Varies 10 Varies

CRISPRi-v2 human genome-wide library

The fusion protein dCas9-KRAB can be used as the transcriptional repressor and must be supplied separately.

83969
1000000090
Human 3rd Weissman 18,905 5
10
104,535
209,070

Subpooled CRISPRi-v2 human libraries

The fusion protein dCas9-KRAB can be used as the transcriptional repressor and must be supplied separately.

Subpools include kinases, apoptosis, stress, trafficking, gene expression, membrane proteins, and unknown function.

83971 — 83977 Human 3rd Weissman Varies 5 Varies

CRISPRi-v2 mouse genome-wide library

The fusion protein dCas9-KRAB can be used as the transcriptional repressor and must be supplied separately.

83987
1000000092
Mouse 3rd Weissman 20,003 5
10
107,415
214,830

Subpooled CRISPRi-v2 mouse libraries

The fusion protein dCas9-KRAB can be used as the transcriptional repressor and must be supplied separately.

Subpools include kinases, apoptosis, stress, trafficking, gene expression, membrane proteins, and unknown function.

83989 — 83995 Mouse 3rd Weissman Varies 5 Varies

CRISPRi genome-wide library
Discontinued

62217 Human 3rd Weissman 15,977 10 206,421

Return to top


Phage Display Libraries

Phage display is a screening method for finding binding partners for targets of interest. It relies on fusions of gene fragments and a bacteriophage coat protein.

Library ID Species Vector backbone PI Description
Synuclein VHH Immune Library 1000000071 Camelid Phagemid Messer and MJFF Created for research in Parkinson's Disease; For target validation and drug design

shRNA Libraries

shRNA libraries permit reversible loss-of-function screening to elucidate which genes are involved in a phenotype. Each library contains multiple shRNA sequences for each target gene; a true positive hit (a particular target gene) in an shRNA screen should show consistent results from the multiple shRNAs that target it. shRNA libraries may also be barcoded to allow for easy identification of the shRNA a given cell carries.

DECIPHER libraries are lentiviral barcoded shRNA libraries designed for RNAi screening. It’s important to note that these libraries are not genome-wide; instead, each library is enriched for a smaller set of biologically relevant genes. The DECIPHER barcoding system makes it easy to determine which shRNAs have been enriched or depleted in a cell population; each plasmid carries a unique 18 bp barcode that can be easily identified using next-generation sequencing.

As of October 2016, the DECIPHER libraries have been discontinued.

Library ID Species Lentiviral Generation PI Targets Total shRNAs

Decipher Mod 2: Disease Targets Discontinued

28286 Human 3rd Chenchik and Frango 5,412 27,500

Decipher Mod 3: Cell Surface, etc. Discontinued

29589 Human 3rd Chenchik 4,922 27,500

Decipher Mod 1: Pathway Targets Discontinued

28287 Mouse 3rd Chenchik and Frango 4,625 27,500

Decipher Mod 2: Disease Targets Discontinued

28288 Mouse 3rd Chenchik and Frango 4,520 27,500

Return to top