ArticleMolecular systems biology2018
Toward an integrated map of genetic interactions in cancer cells.
Article in Molecular systems biology, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 51 papers.
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Who cites it
51 citing papers in PubMed, 84 citations in OpenAlex.
- Article
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- Functional modules predict cancer-relevant genetic interactions in mammalian cells.bioRxiv : the preprint server for biology · 2025Article
- Prolonged survival in a patient with pbrm1 mutated metastatic cholangiocarcinoma receiving tazemetostat.NPJ precision oncology · 2025Article
- A global genetic interaction map of a human cell reveals conserved principles of genetic networks.bioRxiv : the preprint server for biology · 2025Article
- Graphlet-based hyperbolic embeddings capture evolutionary dynamics in genetic networks.Bioinformatics (Oxford, England) · 2024Article
- Global analysis of the yeast knockout phenome.Science advances · 2023Article
- Prioritization of New Candidate Genes for Rare Genetic Diseases by a Disease-Aware Evaluation of Heterogeneous Molecular Networks.International journal of molecular sciences · 2023Article
- PICKLES v3: the updated database of pooled in vitro CRISPR knockout library essentiality screens.Nucleic acids research · 2023Article
- A phenotype driven integrative framework uncovers molecular mechanisms of a rare hereditary thrombophilia.PloS one · 2023Article
- Gut microbiota-stem cell niche crosstalk: A new territory for maintaining intestinal homeostasis.iMeta · 2022Review
- Optimal construction of a functional interaction network from pooled library CRISPR fitness screens.BMC bioinformatics · 2022Article
- Dynamic rewiring of biological activity across genotype and lineage revealed by context-dependent functional interactions.Genome biology · 2022Article
- Mutational signatures are markers of drug sensitivity of cancer cells.Nature communications · 2022Article
- Concurrent outcomes from multiple approaches of epistasis analysis for human body mass index associated loci provide insights into obesity biology.Scientific reports · 2022Article
- A multiscale cell-based model of tumor growth for chemotherapy assessment and tumor-targeted therapy through a 3D computational approach.Cell proliferation · 2022Article
- Computational Approaches for Designing Highly Specific and Efficient sgRNAs.Methods in molecular biology (Clifton, N.J.) · 2022Article
- Down-regulating Circular RNA Prkcsh suppresses the inflammatory response after spinal cord injury.Neural regeneration research · 2022Article
- Combinatorial CRISPR/Cas9 Screening Reveals Epistatic Networks of Interacting Tumor Suppressor Genes and Therapeutic Targets in Human Breast Cancer.Cancer research · 2021Article
Corrections and comments
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Authors and funding
6 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Cancer genomes often harbor hundreds of molecular aberrations. Such genetic variants can be drivers or passengers of tumorigenesis and create vulnerabilities for potential therapeutic exploitation. To identify genotype-dependent vulnerabilities, forward genetic screens in different genetic backgrounds have been conducted. We devised MINGLE, a computational framework to integrate CRISPR/Cas9 screens originating from different libraries building on approaches pioneered for genetic network discovery in model organisms. We applied this method to integrate and analyze data from 85 CRISPR/Cas9 screens in human cancer cells combining functional data with information on genetic variants to explore more than 2.1 million gene-background relationships. In addition to known dependencies, we identified new genotype-specific vulnerabilities of cancer cells. Experimental validation of predicted vulnerabilities identified GANAB and PRKCSH as new positive regulators of Wnt/β-catenin signaling. By clustering genes with similar genetic interaction profiles, we drew the largest genetic network in cancer cells to date. Our scalable approach highlights how diverse genetic screens can be integrated to systematically build informative maps of genetic interactions in cancer, which can grow dynamically as more data are included.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.