Publications by authors named "Artem Sokolov"

19Publications

Characterizing ABC-Transporter Substrate-Likeness Using a Clean-Slate Genetic Background.

Front Pharmacol 2019 25;10:448. Epub 2019 Apr 25.

Laboratory of Systems Pharmacology, Harvard Medical School, Boston, MA, United States.

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April 2019

Clinical and Genomic Characterization of Treatment-Emergent Small-Cell Neuroendocrine Prostate Cancer: A Multi-institutional Prospective Study.

J Clin Oncol 2018 08 9;36(24):2492-2503. Epub 2018 Jul 9.

Rahul Aggarwal, Li Zhang, Felix Y. Feng, Paul Lloyd, Jack Youngren, Adam Foye, Denise Playdle, Charles J. Ryan, and Eric J. Small, University of California San Francisco, San Francisco; Alana S. Weinstein, Verena Friedl, Can Zhang, Christopher K. Wong, Vlado Uzunangelov, Artem Sokolov, Yulia Newton, and Joshua M. Stuart, University of California Santa Cruz, Santa Cruz; Owen N. Witte and Matthew Rettig, University of California Los Angeles, Los Angeles; Christopher P. Evans and Primo Lara, University of California Davis, Davis, CA; Jiaoti Huang, Duke University, Durham, NC; Joshi J. Alumkal, George V. Thomas, and Tomasz M. Beer, Oregon Health Sciences University, Portland, OR; Martin Gleave and Kim N. Chi, University of British Columbia, Vancouver, British Columbia, Canada; Lawrence True, University of Washington, Seattle, WA; Himisha Beltran and Mark A. Rubin, Weill Cornell Medicine, New York, NY; and Francesca Demichelis, University of Trento, Trento, Italy.

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August 2018

Prophetic Granger Causality to infer gene regulatory networks.

PLoS One 2017 6;12(12):e0170340. Epub 2017 Dec 6.

University of California Santa Cruz, Department of Biomolecular Engineering, Santa Cruz, CA, United States of America.

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January 2018

N-Myc Drives Neuroendocrine Prostate Cancer Initiated from Human Prostate Epithelial Cells.

Cancer Cell 2016 Apr 31;29(4):536-547. Epub 2016 Mar 31.

Department of Microbiology, Immunology, and Medical Genetics, University of California, Los Angeles, Los Angeles, CA 90095, USA; Eli and Edythe Broad Center of Regenerative Medicine and Stem Cell Research, University of California, Los Angeles, Los Angeles, CA 90095, USA; Department of Molecular and Medical Pharmacology, University of California, Los Angeles, Los Angeles, CA 90095, USA; Howard Hughes Medical Institute, University of California, Los Angeles, Los Angeles, CA 90095, USA. Electronic address:

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April 2016

Pathway-Based Genomics Prediction using Generalized Elastic Net.

PLoS Comput Biol 2016 Mar 9;12(3):e1004790. Epub 2016 Mar 9.

Department of Biomolecular Engineering and Center for Biomolecular Science and Engineering, University of California Santa Cruz, Santa Cruz, California, United States of America.

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March 2016

ONE-CLASS DETECTION OF CELL STATES IN TUMOR SUBTYPES.

Pac Symp Biocomput 2016 ;21:405-16

Department of Biomolecular Engineering, University of California Santa Cruz, USA,

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October 2016

A basal stem cell signature identifies aggressive prostate cancer phenotypes.

Proc Natl Acad Sci U S A 2015 Nov 12;112(47):E6544-52. Epub 2015 Oct 12.

Department of Microbiology, Immunology, and Molecular Genetics, University of California, Los Angeles, CA 90095; Eli and Edythe Broad Center of Regenerative Medicine and Stem Cell Research, University of California, Los Angeles, CA 90095; Department of Molecular and Medical Pharmacology, University of California, Los Angeles, CA 90095; Howard Hughes Medical Institute, University of California, Los Angeles, CA 90095

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November 2015

Assessing the clinical utility of cancer genomic and proteomic data across tumor types.

Nat Biotechnol 2014 Jul 22;32(7):644-52. Epub 2014 Jun 22.

1] Graduate Program in Structural and Computational Biology and Molecular Biophysics, Baylor College of Medicine, Houston, Texas, USA. [2] Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center, Houston, Texas, USA. [3].

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July 2014

Combining heterogeneous data sources for accurate functional annotation of proteins.

BMC Bioinformatics 2013 28;14 Suppl 3:S10. Epub 2013 Feb 28.

Department of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, California 95064, USA.

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July 2013

A large-scale evaluation of computational protein function prediction.

Authors:
Predrag Radivojac Wyatt T Clark Tal Ronnen Oron Alexandra M Schnoes Tobias Wittkop Artem Sokolov Kiley Graim Christopher Funk Karin Verspoor Asa Ben-Hur Gaurav Pandey Jeffrey M Yunes Ameet S Talwalkar Susanna Repo Michael L Souza Damiano Piovesan Rita Casadio Zheng Wang Jianlin Cheng Hai Fang Julian Gough Patrik Koskinen Petri Törönen Jussi Nokso-Koivisto Liisa Holm Domenico Cozzetto Daniel W A Buchan Kevin Bryson David T Jones Bhakti Limaye Harshal Inamdar Avik Datta Sunitha K Manjari Rajendra Joshi Meghana Chitale Daisuke Kihara Andreas M Lisewski Serkan Erdin Eric Venner Olivier Lichtarge Robert Rentzsch Haixuan Yang Alfonso E Romero Prajwal Bhat Alberto Paccanaro Tobias Hamp Rebecca Kaßner Stefan Seemayer Esmeralda Vicedo Christian Schaefer Dominik Achten Florian Auer Ariane Boehm Tatjana Braun Maximilian Hecht Mark Heron Peter Hönigschmid Thomas A Hopf Stefanie Kaufmann Michael Kiening Denis Krompass Cedric Landerer Yannick Mahlich Manfred Roos Jari Björne Tapio Salakoski Andrew Wong Hagit Shatkay Fanny Gatzmann Ingolf Sommer Mark N Wass Michael J E Sternberg Nives Škunca Fran Supek Matko Bošnjak Panče Panov Sašo Džeroski Tomislav Šmuc Yiannis A I Kourmpetis Aalt D J van Dijk Cajo J F ter Braak Yuanpeng Zhou Qingtian Gong Xinran Dong Weidong Tian Marco Falda Paolo Fontana Enrico Lavezzo Barbara Di Camillo Stefano Toppo Liang Lan Nemanja Djuric Yuhong Guo Slobodan Vucetic Amos Bairoch Michal Linial Patricia C Babbitt Steven E Brenner Christine Orengo Burkhard Rost Sean D Mooney Iddo Friedberg

Nat Methods 2013 Mar 27;10(3):221-7. Epub 2013 Jan 27.

School of Informatics and Computing, Indiana University, Bloomington, Indiana, USA.

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March 2013

PARADIGM-SHIFT predicts the function of mutations in multiple cancers using pathway impact analysis.

Bioinformatics 2012 Sep;28(18):i640-i646

Department of Biomolecular Engineering and CBSE, University of California Santa Cruz, Santa Cruz, CA 95064, USA.

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September 2012

Hierarchical classification of gene ontology terms using the GOstruct method.

J Bioinform Comput Biol 2010 Apr;8(2):357-76

Department of Computer Science, Colorado State University, Fort Collins, CO 80523, USA.

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April 2010

Geometric subspace methods and time-delay embedding for EEG artifact removal and classification.

IEEE Trans Neural Syst Rehabil Eng 2006 Jun;14(2):142-6

Department of Computer Science, Colorado State University, Fort Collins, CO 80523, USA.

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June 2006