Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Genetic dependencies associated with transcription factor activities in human cancer cell lines

ABSTRACT: This SuperSeries is composed of the SubSeries listed below.

ORGANISM(S): Homo sapiens

PROVIDER: GSE263748 | GEO | 2024/04/29

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Genetic dependencies associated with transcription factor activities in human cancer cell lines [CROP-seq]

Project description:Transcription factors (TFs) are important mediators of aberrant transcriptional programs in cancer cells. In this study, we focused on TF activity (TFa) as a new biomarker for cell line-selective anti-proliferative effects, in that high TFa predicts sensitivity to loss-of-function of a given gene (i.e., genetic dependencies (GD)). Our linear regression-based framework identified 3,047 pan-cancer and 3,952 cancer-typespecific candidate TFa-GD associations from cell line data, which were then crossexamined for impact on survival in patient cohorts. One of the most prominent biomarkers was TEAD1 activity, whose associations with its predicted GDs were validated through experimental evidence as proof of concept. Overall, these TFa-GD associations represent an attractive resource for identifying innovative, biomarkerdriven hypotheses for drug discovery programs in oncology.

2024-04-29 | GSE263747 | GEO

Genetic dependencies associated with transcription factor activities in human cancer cell lines [SLAM-seq]

Project description:Transcription factors (TFs) are important mediators of aberrant transcriptional programs in cancer cells. In this study, we focused on TF activity (TFa) as a new biomarker for cell line-selective anti-proliferative effects, in that high TFa predicts sensitivity to loss-of-function of a given gene (i.e., genetic dependencies (GD)). Our linear regression-based framework identified 3,043 pan-cancer and 3,952 cancer-type-specific candidate TFa-GD associations from cell line data, which were then cross-examined for impact on survival in patient data. One of the most prominent biomarkers was TEAD1 activity, whose associations with its predicted GDs were validated through experimental evidence as proof of concept. Overall, these TFa-GD pairs represent an attractive resource for identifying innovative, biomarker-driven hypotheses for drug discovery programs in oncology.

2024-04-29 | GSE254799 | GEO

Genetic dependencies associated with transcription factor activities in human cancer cell lines

Project description:Genetic dependencies associated with transcription factor activities in human cancer cell lines

| PRJNA1099147 | ENA

Genetic dependencies associated with transcription factor activities in human cancer cell lines [CROP-seq]

Project description:Genetic dependencies associated with transcription factor activities in human cancer cell lines [CROP-seq]

| PRJNA1099153 | ENA

Genetic dependencies associated with transcription factor activities in human cancer cell lines [SLAM-seq]

Project description:Genetic dependencies associated with transcription factor activities in human cancer cell lines [SLAM-seq]

| PRJNA1071713 | ENA

Targeting transcriptional dependencies in cancer using a covalent CDK7 inhibitor

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2013-12-23 | E-GEOD-50625 | biostudies-arrayexpress

Prrx1 is a Master Transcription Factor of myofibroblastic Cancer-Associated Fibroblasts

Project description:This SuperSeries is composed of the SubSeries listed below.

2021-12-31 | GSE169725 | GEO

Transcription elongation factors are in vivo-specific cancer dependencies in glioma

Project description:This SuperSeries is composed of the SubSeries listed below.

2017-04-01 | GSE74529 | GEO

Systematic investigation of genetic vulnerabilities across cancer cell lines reveals lineage-specific dependencies in ovarian cancer.

Project description:A comprehensive understanding of the molecular vulnerabilities of every type of cancer will provide a powerful roadmap to guide therapeutic approaches. Efforts such as The Cancer Genome Atlas Project will identify genes with aberrant copy number, sequence, or expression in various cancer types, providing a survey of the genes that may have a causal role in cancer. A complementary approach is to perform systematic loss-of-function studies to identify essential genes in particular cancer cell types. We have begun a systematic effort, termed Project Achilles, aimed at identifying genetic vulnerabilities across large numbers of cancer cell lines. Here, we report the assessment of the essentiality of 11,194 genes in 102 human cancer cell lines. We show that the integration of these functional data with information derived from surveying cancer genomes pinpoints known and previously undescribed lineage-specific dependencies across a wide spectrum of cancers. In particular, we found 54 genes that are specifically essential for the proliferation and viability of ovarian cancer cells and also amplified in primary tumors or differentially overexpressed in ovarian cancer cell lines. One such gene, PAX8, is focally amplified in 16% of high-grade serous ovarian cancers and expressed at higher levels in ovarian tumors. Suppression of PAX8 selectively induces apoptotic cell death of ovarian cancer cells. These results identify PAX8 as an ovarian lineage-specific dependency. More generally, these observations demonstrate that the integration of genome-scale functional and structural studies provides an efficient path to identify dependencies of specific cancer types on particular genes and pathways.

| S-EPMC3145679 | biostudies-literature

Investigation of genetic dependencies in atypical teratoid rhabdoid tumors

Project description:This SuperSeries is composed of the SubSeries listed below.

2024-10-01 | GSE231287 | GEO