W
Wen Niu
Researcher at University of Cincinnati
Publications - 8
Citations - 524
Wen Niu is an academic researcher from University of Cincinnati. The author has contributed to research in topics: Omics & Workflow. The author has an hindex of 5, co-authored 7 publications receiving 368 citations. Previous affiliations of Wen Niu include University of Cincinnati Academic Health Center & Icahn School of Medicine at Mount Sinai.
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Journal ArticleDOI
The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations
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 J. 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 Al 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 A. Kaye,Jeannette Osterloh,Kelly Haston,Jaslin Kalra,Steve Finkbiener,Jonathan Z. Li,Pamela Milani,Miriam Adam,Renan Escalante-Chong,Karen Sachs,Alexander LeNail,Divya Ramamoorthy,Ernest Fraenkel,Gavin Daigle,Uzma Hussain,Alyssa Coye,Jeffrey D. Rothstein,Dhruv Sareen,Loren Ornelas,Maria G. Banuelos,Berhan Mandefro,Ritchie Ho,Clive N. Svendsen,Ryan G. Lim,Jennifer Stocksdale,Malcolm 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 A. LaBarge,Mark A. LaBarge,Heidi S. Feiler,Mark A. Dane,Elmar Bucher,Michel Nederlof,Damir Sudar,Sean M. Gross,David Kilburn,Rebecca Smith,Kaylyn Devlin,Ron Margolis,Leslie Derr,Albert Lee,Ajay Pillai +107 more
TL;DR: The LINCS program focuses on cellular physiology shared among tissues and cell types relevant to an array of diseases, including cancer, heart disease, and neurodegenerative disorders.
Journal ArticleDOI
Data Portal for the Library of Integrated Network-based Cellular Signatures (LINCS) program: integrated access to diverse large-scale cellular perturbation response data.
Amar Koleti,Amar Koleti,Raymond Terryn,Raymond Terryn,Vasileios Stathias,Vasileios Stathias,Caty Chung,Caty Chung,Daniel J. Cooper,Daniel J. Cooper,John Paul Turner,John Paul Turner,Dusica Vidovic,Dusica Vidovic,Michele Forlin,Michele Forlin,Tanya T. Kelley,Tanya T. Kelley,Alessandro D'Urso,Alessandro D'Urso,Bryce K. Allen,Bryce K. Allen,Denis Torre,Kathleen M. Jagodnik,Lily Wang,Sherry L. Jenkins,Christopher C. Mader,Christopher C. Mader,Wen Niu,Wen Niu,Mehdi Fazel,Mehdi Fazel,Naim Al Mahi,Naim Al Mahi,Marcin Pilarczyk,Marcin Pilarczyk,Nicholas A. Clark,Nicholas A. Clark,Behrouz Shamsaei,Behrouz Shamsaei,Jarek Meller,Jarek Meller,Juozas Vasiliauskas,Juozas Vasiliauskas,John F. Reichard,John F. Reichard,Mario Medvedovic,Mario Medvedovic,Avi Ma'ayan,Ajay Pillai,Stephan C. Schürer,Stephan C. Schürer +51 more
TL;DR: TheLINCS Data Portal (LDP) is described, a unified web interface to access datasets generated by the LINCS DSGCs, and its underlying database, LINCS Data Registry (LDR).
Posted ContentDOI
Connecting omics signatures of diseases, drugs, and mechanisms of actions with iLINCS
Marcin Pilarczyk,Michal Kouril,Behrouz Shamsaei,Juozas Vasiliauskas,Wen Niu,Naim Al Mahi,Lixia Zhang,Nicholas A. Clark,Yan Ren,Shana White,Rashid Saadman Karim,Huan Xu,Jacek Biesiada,Mark F. Bennett,Sarah E. Davidson,John F. Reichard,Kurt Roberts,Vasileios Stathias,Amar Koleti,Dusica Vidovic,Daniel J.B. Clarke,Stephan C. Schürer,Avi Ma'ayan,Jarek Meller,Jarek Meller,Mario Medvedovic +25 more
TL;DR: In summary, iLINCS workflows integrate vast omics data resources and a range of analytics and interactive visualization tools into a comprehensive platform for analysis of omics signatures.
Journal ArticleDOI
Differential expression and prognostic value of long non-coding RNA in HPV-negative head and neck squamous cell carcinoma.
Sulsal-Ul Haque,Liang Niu,Damaris Kuhnell,Jacob Hendershot,Jacek Biesiada,Wen Niu,Matthew C Hagan,Karl T. Kelsey,Keith A. Casper,Trisha Wise-Draper,Mario Medvedovic,Scott M. Langevin +11 more
TL;DR: Differential expression of 5 lncRNA was identified and validated in HPV-negative HNSCC and low MEG3 expression was associated with favorable 3-year RFS, although the significance of this finding remains unclear.
Journal ArticleDOI
piNET: a versatile web platform for downstream analysis and visualization of proteomics data
Behrouz Shamsaei,Szymon Chojnacki,Marcin Pilarczyk,Mehdi Fazel Najafabadi,Wen Niu,Chuming Chen,Karen Ross,Andrea Matlock,Jeremy L. Muhlich,Somchai Chutipongtanate,Somchai Chutipongtanate,Jie Zheng,John Paul Turner,Dusica Vidovic,Jake Jaffe,Michael J. MacCoss,Cathy H. Wu,Cathy H. Wu,Ajay Pillai,Avi Ma'ayan,Stephan C. Schürer,Michal Kouril,Mario Medvedovic,Jarek Meller,Jarek Meller,Jarek Meller +25 more
TL;DR: The piNET server is presented, that facilitates integrated annotation, analysis and visualization of quantitative proteomics data, with emphasis on PTM networks and integration with the LINCS library of chemical and genetic perturbation signatures in order to provide further mechanistic and functional insights.