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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...
Autores principales: | , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
2015
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Materias: | |
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 |
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author | 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. |
author_facet | 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. |
author_sort | Zhu, Qian |
collection | PubMed |
description | 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. |
format | Online Article Text |
id | pubmed-4768301 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2015 |
record_format | MEDLINE/PubMed |
spelling | pubmed-47683012016-02-26 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. Nat Methods Article 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. 2015-01-12 2015-03 /pmc/articles/PMC4768301/ /pubmed/25581801 http://dx.doi.org/10.1038/nmeth.3249 Text en http://www.nature.com/authors/editorial_policies/license.html#terms Users may view, print, copy, and download text and data-mine the content in such documents, for the purposes of academic research, subject always to the full Conditions of use:http://www.nature.com/authors/editorial_policies/license.html#terms |
spellingShingle | Article 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. Targeted exploration and analysis of large cross-platform human transcriptomic compendia |
title | Targeted exploration and analysis of large cross-platform human transcriptomic compendia |
title_full | Targeted exploration and analysis of large cross-platform human transcriptomic compendia |
title_fullStr | Targeted exploration and analysis of large cross-platform human transcriptomic compendia |
title_full_unstemmed | Targeted exploration and analysis of large cross-platform human transcriptomic compendia |
title_short | Targeted exploration and analysis of large cross-platform human transcriptomic compendia |
title_sort | targeted exploration and analysis of large cross-platform human transcriptomic compendia |
topic | Article |
url | 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 |
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