Targeted exploration and analysis of large cross-platform human transcriptomic compendia

We present SEEK (http://seek.princeton.edu), a query-based search engine across very large transcriptomic data collections, including thousands of human data sets from almost 50 microarray and next-generation sequencing platforms. SEEK uses a novel query-level cross-validation-based algorithm to aut...

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Detalles Bibliográficos
Autores principales: Zhu, Qian, Wong, Aaron K, Krishnan, Arjun, Aure, Miriam R, Tadych, Alicja, Zhang, Ran, Corney, David C, Greene, Casey S, Bongo, Lars A, Kristensen, Vessela N, Charikar, Moses, Li, Kai, Troyanskaya, Olga G.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: 2015
Materias:
Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4768301/
https://www.ncbi.nlm.nih.gov/pubmed/25581801
http://dx.doi.org/10.1038/nmeth.3249
Descripción
Sumario:We present SEEK (http://seek.princeton.edu), a query-based search engine across very large transcriptomic data collections, including thousands of human data sets from almost 50 microarray and next-generation sequencing platforms. SEEK uses a novel query-level cross-validation-based algorithm to automatically prioritize data sets relevant to the query and a robust search approach to identify query-coregulated genes, pathways, and processes. SEEK provides cross-platform handling, multi-gene query search, iterative metadata-based search refinement, and extensive visualization-based analysis options.

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