TY - JOUR
T1 - L1000 viewer
T2 - A search engine and Web interface for the LINCS data repository
AU - Musa, Aliyu
AU - Tripathi, Shailesh
AU - Dehmer, Matthias
AU - Emmert-Streib, Frank
PY - 2019
Y1 - 2019
N2 - The LINCS L1000 data repository contains almost two million gene expression profiles for thousands of small molecules and drugs. However, due to the complexity and the size of the data repository and a lack of an interoperable interface, the creation of pharmacologically meaningful workflows utilizing these data is severely hampered. In order to overcome this limitation, we developed the L1000 Viewer, a search engine and graphical web interface for the LINCS data repository. The web interface serves as an interactive platform allowing the user to select different forms of perturbation profiles, e.g., for specific cell lines, drugs, dosages, time points and combinations thereof. At its core, our method has a database we created from inferring and utilizing the intricate dependency graph structure among the data files. The L1000 Viewer is accessible via http://L1000viewer.bio-complexity.com/.
AB - The LINCS L1000 data repository contains almost two million gene expression profiles for thousands of small molecules and drugs. However, due to the complexity and the size of the data repository and a lack of an interoperable interface, the creation of pharmacologically meaningful workflows utilizing these data is severely hampered. In order to overcome this limitation, we developed the L1000 Viewer, a search engine and graphical web interface for the LINCS data repository. The web interface serves as an interactive platform allowing the user to select different forms of perturbation profiles, e.g., for specific cell lines, drugs, dosages, time points and combinations thereof. At its core, our method has a database we created from inferring and utilizing the intricate dependency graph structure among the data files. The L1000 Viewer is accessible via http://L1000viewer.bio-complexity.com/.
KW - Big data
KW - Data science
KW - Gene expression
KW - Pharmacogenomics
KW - Visualization
KW - Web application
UR - http://www.scopus.com/inward/record.url?scp=85068966589&partnerID=8YFLogxK
U2 - 10.3389/fgene.2019.00557
DO - 10.3389/fgene.2019.00557
M3 - Article
C2 - 31258549
AN - SCOPUS:85068966589
SN - 1664-8021
VL - 10
SP - 557
JO - Frontiers in Genetics
JF - Frontiers in Genetics
IS - JUN
M1 - 557
ER -