{"doi":"10.1101/2020.07.03.186908","title":"Large-scale Characterization of Drug Responses of Clinically Relevant Proteins in Cancer Cell Lines","abstract":"Summary Perturbation biology is a powerful approach to developing quantitative models of cellular behaviors and gaining mechanistic insights into disease development. In recent years, large-scale resources for phenotypic and mRNA responses of cancer cell lines to perturbations have been generated. However, similar large-scale protein response resources are not available, resulting in a critical knowledge gap for elucidating oncogenic mechanisms and developing effective cancer therapies. Here we generated and compiled perturbed expression profiles of ~210 clinically relevant proteins in >12,000 cancer cell-line samples in response to >150 drug compounds using reverse-phase protein arrays. We show that integrating protein response signals substantially increases the predictive power for drug sensitivity and aids in gaining insights into mechanisms of drug resistance. We build a systematic map of protein-drug connectivity and develop an open-access, user-friendly data portal for community use. Our study provides a valuable information resource for a broad range of quantitative modeling and biomedical applications. Highlights A large collection of cancer cell line protein responses to drug perturbations Perturbed protein responses greatly increase predictive power for drug sensitivity Build a systematic map of protein-drug connectivity based on response profiles Develop a user-friendly, interactive data portal for community use","journal":"bioRxiv (Cold Spring Harbor Laboratory)","year":2020,"id":120500,"datarank":0.5777251751656654,"base_score":2.3978952727983707,"endowment":2.3978952727983707,"self_citation_contribution":0.3596842909197557,"citation_network_contribution":0.21804088424590967,"self_endowment_contribution":0.3596842909197557,"citer_contribution":0.21804088424590967,"corpus_percentile":66.04780691575772,"corpus_rank":4390,"citation_count":10,"citer_count":10,"citers_with_citation_signal":8,"citers_with_endowment":8,"datacite_reuse_total":0,"is_dataset":true,"is_dataset_confidence":0.5879,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2020-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":317293,"name":"Jun Li","orcid":"0000-0002-1171-7141","position":1,"is_corresponding":false},{"id":558431,"name":"Mei‐Ju Chen","orcid":null,"position":2,"is_corresponding":false},{"id":69710,"name":"Zhenlin Ju","orcid":"0000-0001-7496-7909","position":3,"is_corresponding":false},{"id":558432,"name":"Nicole K. Nesser","orcid":null,"position":4,"is_corresponding":false},{"id":558433,"name":"Katie Johnson-Camacho","orcid":null,"position":5,"is_corresponding":false},{"id":475220,"name":"Christopher Boniface","orcid":"0000-0003-0130-7517","position":6,"is_corresponding":false},{"id":558434,"name":"Yancey Lawrence","orcid":null,"position":7,"is_corresponding":false},{"id":558435,"name":"Nupur T. Pande","orcid":null,"position":8,"is_corresponding":false},{"id":72141,"name":"Michael A. Davies","orcid":"0000-0002-0977-0912","position":9,"is_corresponding":false},{"id":35706,"name":"Meenhard Herlyn","orcid":"0000-0003-0839-0739","position":10,"is_corresponding":false},{"id":557837,"name":"Taru Muranen","orcid":"0000-0003-4158-9002","position":11,"is_corresponding":false},{"id":499879,"name":"Ioannis K. 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Brugge","orcid":"0000-0002-2547-4814","position":21,"is_corresponding":false},{"id":13753,"name":"Yiling Lu","orcid":"0000-0002-3662-2106","position":22,"is_corresponding":false},{"id":13817,"name":"Gordon B. Mills","orcid":"0000-0002-0144-9614","position":23,"is_corresponding":false},{"id":269810,"name":"Han Liang","orcid":"0000-0001-7633-286X","position":24,"is_corresponding":false},{"id":400439,"name":"Wei Zhao","orcid":"0000-0001-6732-9466","position":0,"is_corresponding":true}],"reference_count":45,"raw_metadata":null,"created_at":"2026-07-18T23:14:33.640077Z","pmid":null,"pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}