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Title | Pathway analysis of genomic data: concepts, methods, and prospects for future development. |
Publication Type | Journal Article |
Year of Publication | 2012 |
Authors | Ramanan VK, Shen L, Moore JH, Saykin AJ |
Journal | Trends Genet |
Volume | 28 |
Issue | 7 |
Pagination | 323-32 |
Date Published | 07/2012 |
ISSN | 0168-9525 |
Keywords | Databases, Genetic, Genome, Genome-Wide Association Study, Genomics, Humans |
Abstract | Genome-wide data sets are increasingly being used to identify biological pathways and networks underlying complex diseases. In particular, analyzing genomic data through sets defined by functional pathways offers the potential of greater power for discovery and natural connections to biological mechanisms. With the burgeoning availability of next-generation sequencing, this is an opportune moment to revisit strategies for pathway-based analysis of genomic data. Here, we synthesize relevant concepts and extant methodologies to guide investigators in study design and execution. We also highlight ongoing challenges and proposed solutions. As relevant analytical strategies mature, pathways and networks will be ideally placed to integrate data from diverse -omics sources to harness the extensive, rich information related to disease and treatment mechanisms. |
DOI | 10.1016/j.tig.2012.03.004 |
Alternate Journal | Trends Genet. |
PubMed ID | 22480918 |
PubMed Central ID | PMC3378813 |
Grant List | LM009012 / LM / NLM NIH HHS / United States R01 AG019771-10 / AG / NIA NIH HHS / United States AI59694 / AI / NIAID NIH HHS / United States P20 GM103534 / GM / NIGMS NIH HHS / United States U01 AG032984-04 / AG / NIA NIH HHS / United States R01 AG019771 / AG / NIA NIH HHS / United States R01 LM010098-04 / LM / NLM NIH HHS / United States U01 AG032984-03 / AG / NIA NIH HHS / United States P30 AG010133 / AG / NIA NIH HHS / United States P30 AG010133-18S1 / AG / NIA NIH HHS / United States AG024904 / AG / NIA NIH HHS / United States U01 AG032984 / AG / NIA NIH HHS / United States U01 AG024904 / AG / NIA NIH HHS / United States RC2 AG036535 / AG / NIA NIH HHS / United States R01 CA101318-05 / CA / NCI NIH HHS / United States P30 AG010133-22 / AG / NIA NIH HHS / United States R01 LM009012-07 / LM / NLM NIH HHS / United States AG19771 / AG / NIA NIH HHS / United States R01 AI059694-09 / AI / NIAID NIH HHS / United States GM077229-02 / GM / NIGMS NIH HHS / United States T32 GM077229 / GM / NIGMS NIH HHS / United States R01 LM010098 / LM / NLM NIH HHS / United States AG10133 / AG / NIA NIH HHS / United States U01 AG024904-07 / AG / NIA NIH HHS / United States R01 AI059694 / AI / NIAID NIH HHS / United States R01 LM009012 / LM / NLM NIH HHS / United States P30 AG010133-21 / AG / NIA NIH HHS / United States R01 CA101318 / CA / NCI NIH HHS / United States R01 AG019771-09 / AG / NIA NIH HHS / United States AG032984 / AG / NIA NIH HHS / United States U01 AG024904-08 / AG / NIA NIH HHS / United States LM010098 / LM / NLM NIH HHS / United States AG036535 / AG / NIA NIH HHS / United States |