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Targeted exploration and analysis of large cross-platform human transcriptomic compendia.
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.
Afiliación
  • Zhu Q; 1] Department of Computer Science, Princeton University, Princeton, New Jersey, USA. [2] Lewis-Sigler Institute of Integrative Genomics, Princeton University, Princeton, New Jersey, USA.
  • Wong AK; 1] Department of Computer Science, Princeton University, Princeton, New Jersey, USA. [2] Lewis-Sigler Institute of Integrative Genomics, Princeton University, Princeton, New Jersey, USA.
  • Krishnan A; Lewis-Sigler Institute of Integrative Genomics, Princeton University, Princeton, New Jersey, USA.
  • Aure MR; Department of Genetics, Institute for Cancer Research, Oslo University Hospital, The Norwegian Radium Hospital, Oslo, Norway.
  • Tadych A; Lewis-Sigler Institute of Integrative Genomics, Princeton University, Princeton, New Jersey, USA.
  • Zhang R; 1] Lewis-Sigler Institute of Integrative Genomics, Princeton University, Princeton, New Jersey, USA. [2] Department of Molecular Biology, Princeton University, Princeton, New Jersey, USA.
  • Corney DC; 1] Lewis-Sigler Institute of Integrative Genomics, Princeton University, Princeton, New Jersey, USA. [2] Department of Molecular Biology, Princeton University, Princeton, New Jersey, USA.
  • Greene CS; 1] Department of Genetics, Geisel School of Medicine at Dartmouth, Hanover, New Hampshire, USA. [2] Institute for Quantitative Biomedical Sciences, Dartmouth College, Hanover, New Hampshire, USA.
  • Bongo LA; Department of Computer Science, University of Tromsø, Tromsø, Norway.
  • Kristensen VN; 1] Department of Genetics, Institute for Cancer Research, Oslo University Hospital, The Norwegian Radium Hospital, Oslo, Norway. [2] Institute for Clinical Medicine, Faculty of Medicine, University of Oslo, Oslo, Norway. [3] Department of Clinical Molecular Biology (EpiGen), Division of Medicine, Ak
  • Charikar M; Department of Computer Science, Princeton University, Princeton, New Jersey, USA.
  • Li K; Department of Computer Science, Princeton University, Princeton, New Jersey, USA.
  • Troyanskaya OG; 1] Department of Computer Science, Princeton University, Princeton, New Jersey, USA. [2] Lewis-Sigler Institute of Integrative Genomics, Princeton University, Princeton, New Jersey, USA. [3] Simons Center for Data Analysis, Simons Foundation, New York, New York, USA.
Nat Methods ; 12(3): 211-4, 3 p following 214, 2015 Mar.
Article en En | MEDLINE | ID: mdl-25581801
ABSTRACT
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.
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Texto completo: 1 Colección: 01-internacional Banco de datos: MEDLINE Asunto principal: Motor de Búsqueda / Secuenciación de Nucleótidos de Alto Rendimiento / Transcriptoma Límite: Humans Idioma: En Revista: Nat Methods Asunto de la revista: TECNICAS E PROCEDIMENTOS DE LABORATORIO Año: 2015 Tipo del documento: Article País de afiliación: Estados Unidos
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Texto completo: 1 Colección: 01-internacional Banco de datos: MEDLINE Asunto principal: Motor de Búsqueda / Secuenciación de Nucleótidos de Alto Rendimiento / Transcriptoma Límite: Humans Idioma: En Revista: Nat Methods Asunto de la revista: TECNICAS E PROCEDIMENTOS DE LABORATORIO Año: 2015 Tipo del documento: Article País de afiliación: Estados Unidos