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Literature DB >> 28591115

Alternative drug sensitivity metrics improve preclinical cancer pharmacogenomics.

Marc Hafner¹, Mario Niepel¹, Peter K Sorger¹.

Abstract

Entities: Chemical Disease Gene

Mesh：

Year: 2017 PMID： 28591115 PMCID： PMC5668135 DOI： 10.1038/nbt.3882

Source DB: PubMed Journal: Nat Biotechnol ISSN： 1087-0156 Impact factor: 54.908

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18 in total

1. Cell Death and Cancer Therapy: Don't Forget to Kill the Cancer Cell!

Authors: Anthony Letai
Journal: Clin Cancer Res Date: 2015-11-15 Impact factor: 12.531

2. Comparison of a standard regimen (CHOP) with three intensive chemotherapy regimens for advanced non-Hodgkin's lymphoma.

Authors: R I Fisher; E R Gaynor; S Dahlberg; M M Oken; T M Grogan; E M Mize; J H Glick; C A Coltman; T P Miller
Journal: N Engl J Med Date: 1993-04-08 Impact factor: 91.245

3. Measuring Cancer Drug Sensitivity and Resistance in Cultured Cells.

Authors: Mario Niepel; Marc Hafner; Mirra Chung; Peter K Sorger
Journal: Curr Protoc Chem Biol Date: 2017-06-19

4. Sensitization of BCL-2-expressing breast tumors to chemotherapy by the BH3 mimetic ABT-737.

Authors: Samantha R Oakes; François Vaillant; Elgene Lim; Lily Lee; Kelsey Breslin; Frank Feleppa; Siddhartha Deb; Matthew E Ritchie; Elena Takano; Teresa Ward; Stephen B Fox; Daniele Generali; Gordon K Smyth; Andreas Strasser; David C S Huang; Jane E Visvader; Geoffrey J Lindeman
Journal: Proc Natl Acad Sci U S A Date: 2011-07-18 Impact factor: 11.205

5. Inconsistency in large pharmacogenomic studies.

Authors: Benjamin Haibe-Kains; Nehme El-Hachem; Nicolai Juul Birkbak; Andrew C Jin; Andrew H Beck; Hugo J W L Aerts; John Quackenbush
Journal: Nature Date: 2013-11-27 Impact factor: 49.962

6. Phosphatidylinositol 3-kinase hyperactivation results in lapatinib resistance that is reversed by the mTOR/phosphatidylinositol 3-kinase inhibitor NVP-BEZ235.

Authors: Pieter J A Eichhorn; Magüi Gili; Maurizio Scaltriti; Violeta Serra; Marta Guzman; Wouter Nijkamp; Roderick L Beijersbergen; Vanesa Valero; Joan Seoane; René Bernards; José Baselga
Journal: Cancer Res Date: 2008-11-15 Impact factor: 12.701

7. Harnessing Connectivity in a Large-Scale Small-Molecule Sensitivity Dataset.

Authors: Brinton Seashore-Ludlow; Matthew G Rees; Jaime H Cheah; Murat Cokol; Edmund V Price; Matthew E Coletti; Victor Jones; Nicole E Bodycombe; Christian K Soule; Joshua Gould; Benjamin Alexander; Ava Li; Philip Montgomery; Mathias J Wawer; Nurdan Kuru; Joanne D Kotz; C Suk-Yee Hon; Benito Munoz; Ted Liefeld; Vlado Dančík; Joshua A Bittker; Michelle Palmer; James E Bradner; Alykhan F Shamji; Paul A Clemons; Stuart L Schreiber
Journal: Cancer Discov Date: 2015-10-19 Impact factor: 39.397

8. Relationships between drug activity in NCI preclinical in vitro and in vivo models and early clinical trials.

Authors: J I Johnson; S Decker; D Zaharevitz; L V Rubinstein; J M Venditti; S Schepartz; S Kalyandrug; M Christian; S Arbuck; M Hollingshead; E A Sausville
Journal: Br J Cancer Date: 2001-05-18 Impact factor: 7.640

9. Growth rate inhibition metrics correct for confounders in measuring sensitivity to cancer drugs.

Authors: Marc Hafner; Mario Niepel; Mirra Chung; Peter K Sorger
Journal: Nat Methods Date: 2016-05-02 Impact factor: 28.547

10. An unbiased metric of antiproliferative drug effect in vitro.

Authors: Leonard A Harris; Peter L Frick; Shawn P Garbett; Keisha N Hardeman; B Bishal Paudel; Carlos F Lopez; Vito Quaranta; Darren R Tyson
Journal: Nat Methods Date: 2016-05-02 Impact factor: 28.547

23 in total

1. Multiomics Profiling Establishes the Polypharmacology of FDA-Approved CDK4/6 Inhibitors and the Potential for Differential Clinical Activity.

Authors: Marc Hafner; Caitlin E Mills; Kartik Subramanian; Chen Chen; Mirra Chung; Sarah A Boswell; Robert A Everley; Changchang Liu; Charlotte S Walmsley; Dejan Juric; Peter K Sorger
Journal: Cell Chem Biol Date: 2019-06-06 Impact factor: 8.116

2. Increased 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase-3 activity in response to EGFR signaling contributes to non-small cell lung cancer cell survival.

Authors: Nadiia Lypova; Sucheta Telang; Jason Chesney; Yoannis Imbert-Fernandez
Journal: J Biol Chem Date: 2019-05-24 Impact factor: 5.157

3. Improved Dose-Response Relationship of (+)-Discodermolide-Taxol Hybrid Congeners.

Authors: Celine Nadaradjane; Chia-Ping Huang Yang; Alicia Rodriguez-Gabin; Kenny Ye; Keizo Sugasawa; Onur Atasoylu; Amos B Smith; Susan Band Horwitz; Hayley M McDaid
Journal: J Nat Prod Date: 2018-03-09 Impact factor: 4.050

4. Chemistry-First Approach for Nomination of Personalized Treatment in Lung Cancer.

Authors: Elizabeth A McMillan; Myung-Jeom Ryu; Caroline H Diep; Saurabh Mendiratta; Jean R Clemenceau; Rachel M Vaden; Ju-Hwa Kim; Takashi Motoyaji; Kyle R Covington; Michael Peyton; Kenneth Huffman; Xiaofeng Wu; Luc Girard; Yeojin Sung; Pei-Hsaun Chen; Prema L Mallipeddi; Joo Young Lee; Jordan Hanson; Sukesh Voruganti; Yunku Yu; Sunho Park; Jessica Sudderth; Christopher DeSevo; Donna M Muzny; HarshaVardhan Doddapaneni; Adi Gazdar; Richard A Gibbs; Tae-Hyun Hwang; John V Heymach; Ignacio Wistuba; Kevin R Coombes; Noelle S Williams; David A Wheeler; John B MacMillan; Ralph J Deberardinis; Michael G Roth; Bruce A Posner; John D Minna; Hyun Seok Kim; Michael A White
Journal: Cell Date: 2018-04-19 Impact factor: 41.582

5. Integration of Tumor Genomic Data with Cell Lines Using Multi-dimensional Network Modules Improves Cancer Pharmacogenomics.

Authors: James T Webber; Swati Kaushik; Sourav Bandyopadhyay
Journal: Cell Syst Date: 2018-11-07 Impact factor: 10.304

6. A multitargeted probe-based strategy to identify signaling vulnerabilities in cancers.

Authors: Suman Rao; Guangyan Du; Marc Hafner; Kartik Subramanian; Peter K Sorger; Nathanael S Gray
Journal: J Biol Chem Date: 2019-03-11 Impact factor: 5.157

Review 7. The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations.

Authors: Alexandra B Keenan; Sherry L Jenkins; Kathleen M Jagodnik; Simon Koplev; Edward He; Denis Torre; Zichen Wang; Anders B Dohlman; Moshe C Silverstein; Alexander Lachmann; Maxim V Kuleshov; Avi Ma'ayan; Vasileios Stathias; Raymond Terryn; Daniel Cooper; Michele Forlin; Amar Koleti; Dusica Vidovic; Caty Chung; Stephan C Schürer; Jouzas Vasiliauskas; Marcin Pilarczyk; Behrouz Shamsaei; Mehdi Fazel; Yan Ren; Wen Niu; Nicholas A Clark; Shana White; Naim Mahi; Lixia Zhang; Michal Kouril; John F Reichard; Siva Sivaganesan; Mario Medvedovic; Jaroslaw Meller; Rick J Koch; Marc R Birtwistle; Ravi Iyengar; Eric A Sobie; Evren U Azeloglu; Julia Kaye; Jeannette Osterloh; Kelly Haston; Jaslin Kalra; Steve Finkbiener; Jonathan Li; Pamela Milani; Miriam Adam; Renan Escalante-Chong; Karen Sachs; Alex Lenail; Divya Ramamoorthy; Ernest Fraenkel; Gavin Daigle; Uzma Hussain; Alyssa Coye; Jeffrey Rothstein; Dhruv Sareen; Loren Ornelas; Maria Banuelos; Berhan Mandefro; Ritchie Ho; Clive N Svendsen; Ryan G Lim; Jennifer Stocksdale; Malcolm S Casale; Terri G Thompson; Jie Wu; Leslie M Thompson; Victoria Dardov; Vidya Venkatraman; Andrea Matlock; Jennifer E Van Eyk; Jacob D Jaffe; Malvina Papanastasiou; Aravind Subramanian; Todd R Golub; Sean D Erickson; Mohammad Fallahi-Sichani; Marc Hafner; Nathanael S Gray; Jia-Ren Lin; Caitlin E Mills; Jeremy L Muhlich; Mario Niepel; Caroline E Shamu; Elizabeth H Williams; David Wrobel; Peter K Sorger; Laura M Heiser; Joe W Gray; James E Korkola; Gordon B Mills; Mark LaBarge; Heidi S Feiler; Mark A Dane; Elmar Bucher; Michel Nederlof; Damir Sudar; Sean Gross; David F Kilburn; Rebecca Smith; Kaylyn Devlin; Ron Margolis; Leslie Derr; Albert Lee; Ajay Pillai
Journal: Cell Syst Date: 2017-11-29 Impact factor: 10.304

Review 8. Nuisance compounds in cellular assays.

Authors: Jayme L Dahlin; Douglas S Auld; Ina Rothenaigner; Steve Haney; Jonathan Z Sexton; J Willem M Nissink; Jarrod Walsh; Jonathan A Lee; John M Strelow; Francis S Willard; Lori Ferrins; Jonathan B Baell; Michael A Walters; Bruce K Hua; Kamyar Hadian; Bridget K Wagner
Journal: Cell Chem Biol Date: 2021-02-15 Impact factor: 8.116

9. Thunor: visualization and analysis of high-throughput dose-response datasets.

Authors: Alexander L R Lubbock; Leonard A Harris; Vito Quaranta; Darren R Tyson; Carlos F Lopez
Journal: Nucleic Acids Res Date: 2021-07-02 Impact factor: 16.971

Review 10. Differentiable biology: using deep learning for biophysics-based and data-driven modeling of molecular mechanisms.

Authors: Mohammed AlQuraishi; Peter K Sorger
Journal: Nat Methods Date: 2021-10-04 Impact factor: 28.547