Seed-effect modeling improves the consistency of genome-wide loss-of-function screens and identifies synthetic lethal vulnerabilities in cancer cells

Alok Jaiswal; Gopal Peddinti; Yevhen Akimov; Krister Wennerberg; Sergey Kuznetsov; Jing Tang; Tero Aittokallio

doi:10.1186/s13073-017-0440-2

Seed-effect modeling improves the consistency of genome-wide loss-of-function screens and identifies synthetic lethal vulnerabilities in cancer cells

Alok Jaiswal, Gopal Peddinti, Yevhen Akimov, Krister Wennerberg, Sergey Kuznetsov, Jing Tang, Tero Aittokallio

Institute for Molecular Medicine Finland

Research output: Contribution to journal › Article › Scientific › peer-review

Original language	English
Article number	51
Journal	Genome medicine
Volume	9
Number of pages	15
ISSN	1756-994X
DOIs	https://doi.org/10.1186/s13073-017-0440-2
Publication status	Published - 1 Jun 2017
MoE publication type	A1 Journal article-refereed

Fields of Science

RNAi screening
Gene essentiality
Seed essentiality
Off-target effects
Reproducibility
Seed effects
Synthetic lethality
Cancer cells
Precision oncology
RNA INTERFERENCE SCREENS
BREAST-CANCER
OVARIAN-CANCER
PI3K PATHWAY
GENE
REVEALS
CRISPR-CAS9
SUPPRESSION
DEPENDENCIES
CRISPR/CAS9
3111 Biomedicine
1184 Genetics, developmental biology, physiology

Access to Document

10.1186/s13073-017-0440-2

Seed-effect modeling improvesFinal published version, 1.13 MBLicence: Unspecified

Cite this

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title = "Seed-effect modeling improves the consistency of genome-wide loss-of-function screens and identifies synthetic lethal vulnerabilities in cancer cells",

keywords = "RNAi screening, Gene essentiality, Seed essentiality, Off-target effects, Reproducibility, Seed effects, Synthetic lethality, Cancer cells, Precision oncology, RNA INTERFERENCE SCREENS, BREAST-CANCER, OVARIAN-CANCER, PI3K PATHWAY, GENE, REVEALS, CRISPR-CAS9, SUPPRESSION, DEPENDENCIES, CRISPR/CAS9, 3111 Biomedicine, 1184 Genetics, developmental biology, physiology",

author = "Alok Jaiswal and Gopal Peddinti and Yevhen Akimov and Krister Wennerberg and Sergey Kuznetsov and Jing Tang and Tero Aittokallio",

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doi = "10.1186/s13073-017-0440-2",

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TY - JOUR

T1 - Seed-effect modeling improves the consistency of genome-wide loss-of-function screens and identifies synthetic lethal vulnerabilities in cancer cells

AU - Jaiswal, Alok

AU - Peddinti, Gopal

AU - Akimov, Yevhen

AU - Wennerberg, Krister

AU - Kuznetsov, Sergey

AU - Tang, Jing

AU - Aittokallio, Tero

PY - 2017/6/1

Y1 - 2017/6/1

KW - RNAi screening

KW - Gene essentiality

KW - Seed essentiality

KW - Off-target effects

KW - Reproducibility

KW - Seed effects

KW - Synthetic lethality

KW - Cancer cells

KW - Precision oncology

KW - RNA INTERFERENCE SCREENS

KW - BREAST-CANCER

KW - OVARIAN-CANCER

KW - PI3K PATHWAY

KW - GENE

KW - REVEALS

KW - CRISPR-CAS9

KW - SUPPRESSION

KW - DEPENDENCIES

KW - CRISPR/CAS9

KW - 3111 Biomedicine

KW - 1184 Genetics, developmental biology, physiology

U2 - 10.1186/s13073-017-0440-2

DO - 10.1186/s13073-017-0440-2

M3 - Article

SN - 1756-994X

VL - 9

JO - Genome medicine

JF - Genome medicine

M1 - 51

ER -