TitleTargeted exploration and analysis of large cross-platform human transcriptomic compendia.
Publication TypeJournal Article
Year of Publication2015
AuthorsZhu, Q, Wong, AK, Krishnan, A, Aure, MR, Tadych, A, Zhang, R, Corney, DC, Greene, CS, Bongo, LA, Kristensen, VN, Charikar, M, Li, K, Troyanskaya, OG
JournalNat Methods
Pagination211-4, 3 p following 214
Date Published2015 Mar

We present SEEK (search-based exploration of expression compendia; http://seek.princeton.edu/), a query-based search engine for very large transcriptomic data collections, including thousands of human data sets from many different microarray and high-throughput sequencing platforms. SEEK uses a query-level cross-validation-based algorithm to automatically prioritize data sets relevant to the query and a robust search approach to identify genes, pathways and processes co-regulated with the query. SEEK provides multigene query searching with iterative metadata-based search refinement and extensive visualization-based analysis options.

Alternate JournalNat. Methods