You are here

Nucleic Acids Res DOI:10.1093/nar/gku476

LINCS Canvas Browser: interactive web app to query, browse and interrogate LINCS L1000 gene expression signatures.

Publication TypeJournal Article
Year of Publication2014
AuthorsDuan, Q, Flynn, C, Niepel, M, Hafner, M, Muhlich, JL, Fernandez, NF, Rouillard, AD, Tan, CM, Chen, EY, Golub, TR, Sorger, PK, Subramanian, A, Ma'ayan, A
JournalNucleic Acids Res
Volume42
IssueWeb Server issue
PagesW449-60
Date Published2014 Jul
ISSN1362-4962
KeywordsAntineoplastic Agents, Breast Neoplasms, Female, Gene Expression Profiling, Humans, Interleukins, Internet, Macrophages, Software, User-Computer Interface
Abstract

For the Library of Integrated Network-based Cellular Signatures (LINCS) project many gene expression signatures using the L1000 technology have been produced. The L1000 technology is a cost-effective method to profile gene expression in large scale. LINCS Canvas Browser (LCB) is an interactive HTML5 web-based software application that facilitates querying, browsing and interrogating many of the currently available LINCS L1000 data. LCB implements two compacted layered canvases, one to visualize clustered L1000 expression data, and the other to display enrichment analysis results using 30 different gene set libraries. Clicking on an experimental condition highlights gene-sets enriched for the differentially expressed genes from the selected experiment. A search interface allows users to input gene lists and query them against over 100 000 conditions to find the top matching experiments. The tool integrates many resources for an unprecedented potential for new discoveries in systems biology and systems pharmacology. The LCB application is available at http://www.maayanlab.net/LINCS/LCB. Customized versions will be made part of the http://lincscloud.org and http://lincs.hms.harvard.edu websites.

URLhttp://nar.oxfordjournals.org/cgi/pmidlookup?view=long&pmid=24906883
DOI10.1093/nar/gku476
Pubmed

http://www.ncbi.nlm.nih.gov/pubmed/24906883?dopt=Abstract

Alternate JournalNucleic Acids Res.
PubMed ID24906883
PubMed Central IDPMC4086130
Grant ListU54HG006093 / HG / NHGRI NIH HHS / United States
U54HG006097 / HG / NHGRI NIH HHS / United States
U54 HG006097 / HG / NHGRI NIH HHS / United States
P50 GM071558 / GM / NIGMS NIH HHS / United States
R01GM098316-01A1 / GM / NIGMS NIH HHS / United States
R01 DK088541 / DK / NIDDK NIH HHS / United States
T32 HL007824 / HL / NHLBI NIH HHS / United States
R01 GM098316 / GM / NIGMS NIH HHS / United States
U54HG006097-S1 / HG / NHGRI NIH HHS / United States
R01DK088541-01A1 / DK / NIDDK NIH HHS / United States
U54 CA189201 / CA / NCI NIH HHS / United States
P50GM071558 / GM / NIGMS NIH HHS / United States