Renal medullary carcinomas depend upon SMARCB1 loss and are sensitive to proteasome inhibition

Authors: Andrew L Hong, Yuen-Yi Tseng, Jeremiah A Wala, Won-Jun Kim, Bryan D Kynnap, Mihir B Doshi, Guillaume Kugener, Gabriel J Sandoval, Thomas P Howard, Ji Li, Xiaoping Yang, Michelle Tillgren, Mahmhoud Ghandi, Abeer Sayeed, Rebecca Deasy, Abigail Ward, Brian McSteen, Katherine M Labella, Paula Keskula, Adam Tracy, Cora Connor, Catherine M Clinton, Alanna J Church, Brian D Crompton, Katherine A Janeway, Barbara Van Hare, David Sandak, Ole Gjoerup, Pratiti Bandopadhayay, Paul A Clemons, Stuart L Schreiber, David E Root, Prafulla C Gokhale, Susan N Chi, Elizabeth A Mullen, Charles WM Roberts, Cigall Kadoch, Rameen Beroukhim, Keith L Ligon, Jesse S Boehm, William C Hahn

Source: eLife, Vol 8 (2019)

Subject Terms: renal medullary carcinoma, SMARCB1, MLN2238, ubiquitin-proteasome system, cell cycle, Medicine, Science, Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://elifesciences.org/articles/44161; https://doaj.org/toc/2050-084X

Access URL: https://doaj.org/article/ea9c3a1d96864bb8bbdbc626e575f019

Quantitative-proteomic comparison of alpha and Beta cells to uncover novel targets for lineage reprogramming.

Authors: Amit Choudhary, Kaihui Hu He, Philipp Mertins, Namrata D Udeshi, Vlado Dančík, Dina Fomina-Yadlin, Stefan Kubicek, Paul A Clemons, Stuart L Schreiber, Steven A Carr, Bridget K Wagner

Source: PLoS ONE, Vol 9, Iss 4, p e95194 (2014)

Subject Terms: Medicine, Science

File Description: electronic resource

Relation: https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0095194&type=printable; https://doaj.org/toc/1932-6203

Access URL: https://doaj.org/article/cd3139a6c9eb46f5a08998455970b898

Human genetics in rheumatoid arthritis guides a high-throughput drug screen of the CD40 signaling pathway.

Authors: Gang Li, Dorothée Diogo, Di Wu, Jim Spoonamore, Vlado Dancik, Lude Franke, Fina Kurreeman, Elizabeth J Rossin, Grant Duclos, Cathy Hartland, Xuezhong Zhou, Kejie Li, Jun Liu, Philip L De Jager, Katherine A Siminovitch, Alexandra Zhernakova, Soumya Raychaudhuri, John Bowes, Steve Eyre, Leonid Padyukov, Peter K Gregersen, Jane Worthington, Rheumatoid Arthritis Consortium International (RACI), Namrata Gupta, Paul A Clemons, Eli Stahl, Nicola Tolliday, Robert M Plenge

Source: PLoS Genetics, Vol 9, Iss 5, p e1003487 (2013)

Subject Terms: Genetics, QH426-470

File Description: electronic resource

Relation: http://europepmc.org/articles/PMC3656093?pdf=render; https://doaj.org/toc/1553-7390; https://doaj.org/toc/1553-7404

Access URL: https://doaj.org/article/603abdaa6bb84998953d03c9d0b32fa5

Multiplex cytological profiling assay to measure diverse cellular states.

Authors: Sigrun M Gustafsdottir, Vebjorn Ljosa, Katherine L Sokolnicki, J Anthony Wilson, Deepika Walpita, Melissa M Kemp, Kathleen Petri Seiler, Hyman A Carrel, Todd R Golub, Stuart L Schreiber, Paul A Clemons, Anne E Carpenter, Alykhan F Shamji

Source: PLoS ONE, Vol 8, Iss 12, p e80999 (2013)

Subject Terms: Medicine, Science

File Description: electronic resource

Relation: http://europepmc.org/articles/PMC3847047?pdf=render; https://doaj.org/toc/1932-6203

Access URL: https://doaj.org/article/8c40507e5fdb43ab9bb993e3733562bc

Assay of the multiple energy-producing pathways of mammalian cells.

Authors: Barry R Bochner, Mark Siri, Richard H Huang, Shawn Noble, Xiang-He Lei, Paul A Clemons, Bridget K Wagner

Source: PLoS ONE, Vol 6, Iss 3, p e18147 (2011)

Subject Terms: Medicine, Science

File Description: electronic resource

Relation: http://europepmc.org/articles/PMC3063803?pdf=render; https://doaj.org/toc/1932-6203

Access URL: https://doaj.org/article/222b35829b6e4d22bd2a7e2cf2e226e6

Diversity-oriented synthesis encoded by deoxyoligonucleotides

Authors: Liam Hudson, Jeremy W. Mason, Matthias V. Westphal, Matthieu J. R. Richter, Jonathan R. Thielman, Bruce K. Hua, Christopher J. Gerry, Guoqin Xia, Heather L. Osswald, John M. Knapp, Zher Yin Tan, Praveen Kokkonda, Ben I. C. Tresco, Shuang Liu, Andrew G. Reidenbach, Katherine S. Lim, Jennifer Poirier, John Capece, Simone Bonazzi, Christian M. Gampe, Nichola J. Smith, James E. Bradner, Connor W. Coley, Paul A. Clemons, Bruno Melillo, C. Suk-Yee Hon, Johannes Ottl, Christoph E. Dumelin, Jonas V. Schaefer, Ann Marie E. Faust, Frédéric Berst, Stuart L. Schreiber, Frédéric J. Zécri, Karin Briner

Source: Nature Communications, Vol 14, Iss 1, Pp 1-15 (2023)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/36c9d05209eb47b1b03cc9fce00df87d

Author Correction: Diversity-oriented synthesis encoded by deoxyoligonucleotides

Authors: Liam Hudson, Jeremy W. Mason, Matthias V. Westphal, Matthieu J. R. Richter, Jonathan R. Thielman, Bruce K. Hua, Christopher J. Gerry, Guoqin Xia, Heather L. Osswald, John M. Knapp, Zher Yin Tan, Praveen Kokkonda, Ben I. C. Tresco, Shuang Liu, Andrew G. Reidenbach, Katherine S. Lim, Jennifer Poirier, John Capece, Simone Bonazzi, Christian M. Gampe, Nichola J. Smith, James E. Bradner, Connor W. Coley, Paul A. Clemons, Bruno Melillo, C. Suk-Yee Hon, Johannes Ottl, Christoph E. Dumelin, Jonas V. Schaefer, Ann Marie E. Faust, Frédéric Berst, Stuart L. Schreiber, Frédéric J. Zécri, Karin Briner

Source: Nature Communications, Vol 14, Iss 1, Pp 1-1 (2023)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/d2f9e92baa034e31a3064fe3179e5c22

High-throughput Identification of Phage-derived Imaging Agents

Authors: Kimberly A. Kelly, Paul A. Clemons, Amy M. Yu, Ralph Weissleder

Source: Molecular Imaging, Vol 5 (2006)

Subject Terms: Biology (General), QH301-705.5, Medical technology, R855-855.5

File Description: electronic resource

Relation: https://doaj.org/toc/1536-0121

Access URL: https://doaj.org/article/5ff7768cefa444f38d2ae8947658f792

Expanding Stereochemical and Skeletal Diversity Using Petasis Reactions and 1,3-Dipolar Cycloadditions.

Authors: Giovanni Muncipinto, Taner Kaya, J. Anthony Wilson, Naoya Kumagai, Paul A. Clemons, Stuart L. Schreiber

Source: Organic Letters; Nov2010, Vol. 12 Issue 22, p5230-5233, 4p

Alpha Shapes Applied to Molecular Shape Characterization Exhibit Novel Properties Compared to Established Shape Descriptors.

Authors: J. Anthony Wilson¹, Andreas Bender¹, Taner Kaya¹, Paul A. Clemons¹

Source: Journal of Chemical Information & Modeling; Oct2009, Vol. 49 Issue 10, p2231-2241, 11p

Mapping the landscape of genetic dependencies in chordoma

Authors: Tanaz Sharifnia, Mathias J. Wawer, Amy Goodale, Yenarae Lee, Mariya Kazachkova, Joshua M. Dempster, Sandrine Muller, Joan Levy, Daniel M. Freed, Josh Sommer, Jérémie Kalfon, Francisca Vazquez, William C. Hahn, David E. Root, Paul A. Clemons, Stuart L. Schreiber

Source: Nature Communications, Vol 14, Iss 1, Pp 1-17 (2023)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/15d1d503cc354ceb925abcc12163767f

Predicting compound activity from phenotypic profiles and chemical structures

Authors: Nikita Moshkov, Tim Becker, Kevin Yang, Peter Horvath, Vlado Dancik, Bridget K. Wagner, Paul A. Clemons, Shantanu Singh, Anne E. Carpenter, Juan C. Caicedo

Source: Nature Communications, Vol 14, Iss 1, Pp 1-11 (2023)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/d1696a696570421b97ee48344f88bf2e

Reference compounds for characterizing cellular injury in high-content cellular morphology assays

Authors: Jayme L. Dahlin, Bruce K. Hua, Beth E. Zucconi, Shawn D. Nelson, Shantanu Singh, Anne E. Carpenter, Jonathan H. Shrimp, Evelyne Lima-Fernandes, Mathias J. Wawer, Lawrence P. W. Chung, Ayushi Agrawal, Mary O’Reilly, Dalia Barsyte-Lovejoy, Magdalena Szewczyk, Fengling Li, Parnian Lak, Matthew Cuellar, Philip A. Cole, Jordan L. Meier, Tim Thomas, Jonathan B. Baell, Peter J. Brown, Michael A. Walters, Paul A. Clemons, Stuart L. Schreiber, Bridget K. Wagner

Source: Nature Communications, Vol 14, Iss 1, Pp 1-16 (2023)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/a0652f03d5554808827f7867140b6ae5

Chemogenomic library design strategies for precision oncology, applied to phenotypic profiling of glioblastoma patient cells

Authors: Paschalis Athanasiadis, Balaguru Ravikumar, Richard J.R. Elliott, John C. Dawson, Neil O. Carragher, Paul A. Clemons, Timothy Johanssen, Daniel Ebner, Tero Aittokallio

Source: iScience, Vol 26, Iss 7, Pp 107209- (2023)

Subject Terms: Genetics, Cancer, Science

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2589004223012865; https://doaj.org/toc/2589-0042

Access URL: https://doaj.org/article/1cefd29b3ccb49cbab7215e3ecc6518e

Biolink Model: A universal schema for knowledge graphs in clinical, biomedical, and translational science

Authors: Deepak R. Unni, Sierra A. T. Moxon, Michael Bada, Matthew Brush, Richard Bruskiewich, J. Harry Caufield, Paul A. Clemons, Vlado Dancik, Michel Dumontier, Karamarie Fecho, Gustavo Glusman, Jennifer J. Hadlock, Nomi L. Harris, Arpita Joshi, Tim Putman, Guangrong Qin, Stephen A. Ramsey, Kent A. Shefchek, Harold Solbrig, Karthik Soman, Anne E. Thessen, Melissa A. Haendel, Chris Bizon, Christopher J. Mungall, The Biomedical Data Translator Consortium

Source: Clinical and Translational Science, Vol 15, Iss 8, Pp 1848-1855 (2022)

Subject Terms: Therapeutics. Pharmacology, RM1-950, Public aspects of medicine, RA1-1270

File Description: electronic resource

Relation: https://doaj.org/toc/1752-8054; https://doaj.org/toc/1752-8062

Access URL: https://doaj.org/article/51789557b3144741819afc43c3755e97

High-resolution specificity profiling and off-target prediction for site-specific DNA recombinases

Authors: Jeffrey L. Bessen, Lena K. Afeyan, Vlado Dančík, Luke W. Koblan, David B. Thompson, Chas Leichner, Paul A. Clemons, David R. Liu

Source: Nature Communications, Vol 10, Iss 1, Pp 1-13 (2019)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/cab979859ad4417b8ff4c6496b54b8cd

A GPX4-dependent cancer cell state underlies the clear-cell morphology and confers sensitivity to ferroptosis

Authors: Yilong Zou, Michael J. Palte, Amy A. Deik, Haoxin Li, John K. Eaton, Wenyu Wang, Yuen-Yi Tseng, Rebecca Deasy, Maria Kost-Alimova, Vlado Dančík, Elizaveta S. Leshchiner, Vasanthi S. Viswanathan, Sabina Signoretti, Toni K. Choueiri, Jesse S. Boehm, Bridget K. Wagner, John G. Doench, Clary B. Clish, Paul A. Clemons, Stuart L. Schreiber

Source: Nature Communications, Vol 10, Iss 1, Pp 1-13 (2019)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/30381869b6f34533b2be4a86cf0a583a

Modeling the impact of drug interactions on therapeutic selectivity

Authors: Zohar B. Weinstein, Nurdan Kuru, Szilvia Kiriakov, Adam C. Palmer, Ahmad S. Khalil, Paul A. Clemons, Muhammad H. Zaman, Frederick P. Roth, Murat Cokol

Source: Nature Communications, Vol 9, Iss 1, Pp 1-9 (2018)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/469370dc8ba0481e8780ba4f7a1c399a

Addendum: High-resolution specificity profiling and off-target prediction for site-specific DNA recombinases

Authors: Jeffrey L. Bessen, Lena K. Afeyan, Vlado Dančík, Luke W. Koblan, David B. Thompson, Chas Leichner, Paul A. Clemons, David R. Liu

Source: Nature Communications, Vol 10, Iss 1, Pp 1-3 (2019)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/d9b0668567fe4179adfb2a8f5e45443f

Small-Molecule and CRISPR Screening Converge to Reveal Receptor Tyrosine Kinase Dependencies in Pediatric Rhabdoid Tumors

Authors: Elaine M. Oberlick, Matthew G. Rees, Brinton Seashore-Ludlow, Francisca Vazquez, Geoffrey M. Nelson, Neekesh V. Dharia, Barbara A. Weir, Aviad Tsherniak, Mahmoud Ghandi, John M. Krill-Burger, Robin M. Meyers, Xiaofeng Wang, Phil Montgomery, David E. Root, Jake M. Bieber, Sandi Radko, Jaime H. Cheah, C. Suk-Yee Hon, Alykhan F. Shamji, Paul A. Clemons, Peter J. Park, Michael A. Dyer, Todd R. Golub, Kimberly Stegmaier, William C. Hahn, Elizabeth A. Stewart, Stuart L. Schreiber, Charles W.M. Roberts

Source: Cell Reports, Vol 28, Iss 9, Pp 2331-2344.e8 (2019)

Subject Terms: Biology (General), QH301-705.5

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2211124719309118; https://doaj.org/toc/2211-1247

Access URL: https://doaj.org/article/92a087e67b0f487ba84b47b60011a6bf