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Samad Lotia
Researcher at Gladstone Institutes
Publications - 8
Citations - 3858
Samad Lotia is an academic researcher from Gladstone Institutes. The author has contributed to research in topics: App store & Induced pluripotent stem cell. The author has an hindex of 8, co-authored 8 publications receiving 3410 citations.
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Journal ArticleDOI
Integration of biological networks and gene expression data using Cytoscape
Melissa S. Cline,Michael E. Smoot,Ethan Cerami,Allan Kuchinsky,Nerius Landys,Christopher T. Workman,Rowan H. Christmas,Iliana Avila-Campilo,Iliana Avila-Campilo,Michael L. Creech,Benjamin Gross,Kristina Hanspers,Ruth Isserlin,Ryan Kelley,Sarah Killcoyne,Samad Lotia,Steven Maere,John H. Morris,Keiichiro Ono,Vuk Pavlovic,Alexander R. Pico,Aditya Vailaya,Peng-Liang Wang,Annette M. Adler,Bruce R. Conklin,Leroy Hood,Martin Kuiper,Chris Sander,Ilya Schmulevich,Benno Schwikowski,Guy J. Warner,Trey Ideker,Gary D. Bader +32 more
TL;DR: This protocol explains how to use Cytoscape to analyze the results of mRNA expression profiling, and other functional genomics and proteomics experiments, in the context of an interaction network obtained for genes of interest.
Journal ArticleDOI
A travel guide to Cytoscape plugins
Rintaro Saito,Michael E. Smoot,Keiichiro Ono,Johannes Ruscheinski,Peng-Liang Wang,Samad Lotia,Alexander R. Pico,Gary D. Bader,Trey Ideker +8 more
TL;DR: A travel guide to the world of plugins, covering the 152 publicly available plugins for Cytoscape 2.5–2.8 and ongoing efforts to distribute, organize and maintain the quality of the collection.
Journal ArticleDOI
Cytoscape App Store
TL;DR: The Cytoscape App Store is launched to highlight the important features that apps add to CyToscape, enable researchers to find and install apps they need and help developers promote their apps.
Journal ArticleDOI
WikiPathways App for Cytoscape: Making biological pathways amenable to network analysis and visualization
TL;DR: The open-source WikiPathways app for Cytoscape is presented that can be used to import biological pathways for data visualization and network analysis and how they can be combined and used together with other apps.
Journal ArticleDOI
Molecular, phenotypic, and sample-associated data to describe pluripotent stem cell lines and derivatives
Kenneth Daily,Shannan J. Ho Sui,Lynn M. Schriml,Phillip J. Dexheimer,Nathan Salomonis,Robin Schroll,Stacy Bush,Mehdi Keddache,Christopher N. Mayhew,Samad Lotia,Thanneer M. Perumal,Kristen K. Dang,Lorena Pantano,Alexander R. Pico,Elke Grassman,Diana Nordling,Winston Hide,Winston Hide,Antonis K. Hatzopoulos,Punam Malik,Jose A. Cancelas,Carolyn Lutzko,Bruce J. Aronow,Larsson Omberg +23 more
TL;DR: The goal is to provide data that can improve the ability to robustly and reproducibly use human pluripotent stem cells to understand development and disease.