Toward a systems biology of mouse inner ear organogenesis: gene expression pathways, patterns and network analysis.

Toward a systems biology of mouse inner ear organogenesis: gene expression pathways, patterns and network analysis. Research Abstract Details 

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Toward a systems biology of mouse inner ear organogenesis: gene expression pathways, patterns and network analysis. Abstract Text:

Samin A Sajan,Mark E Warchol,Michael Lovett,Samin A Sajan,Mark E Warchol,Michael Lovett,

We describe the most comprehensive study to date on gene expression during mouse inner ear (IE) organogenesis. Samples were microdissected from mouse embryos at E9-E15 in half-day intervals, a period that spans all of IE organogenesis. These included separate dissections of all discernible IE substructures such as the cochlea, utricle, and saccule. All samples were analyzed on high density expression microarrays under strict statistical filters. Extensive confirmatory tests were performed, including RNA in situ hybridizations. More than 5000 genes significantly varied in expression according to developmental stage, tissue, or both and defined 28 distinct expression patterns. For example, upregulation of 315 genes provided a clear-cut "signature" of early events in IE specification. Additional, clear-cut, gene expression signatures marked specific structures such as the cochlea, utricle, or saccule throughout late IE development. Pathway analysis identified 53 signaling cascades enriched within the 28 patterns. Many novel pathways, not previously implicated in IE development, including beta-adrenergic, amyloid, estrogen receptor, circadian rhythm, and immune system pathways, were identified. Finally, we identified positional candidate genes in 54 uncloned nonsyndromic human deafness intervals. This detailed analysis provides many new insights into the spatial and temporal genetic specification of this complex organ system.

Toward a systems biology of mouse inner ear organogenesis: gene expression pathways, patterns and network analysis. Publishing Authors By Initials

SA Sajan,ME Warchol,M Lovett,SA Sajan,ME Warchol,M Lovett,

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Toward a systems biology of mouse inner ear organogenesis: gene expression pathways, patterns and network analysis. Journal Published:

PUBLICATION TYPE: Research Support, N.I.H., Extr

Journal: Genetics

VOLUME: 177

Page Numbers: 631-53

Journal Abbreviation: Genetics

ISSN: 0016-6731

DAY: 29

MONTH: 07

YEAR: 2007

Toward a systems biology of mouse inner ear organogenesis: gene expression pathways, patterns and network analysis. Information

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LANGUAGE: eng

NlmUniqueID: 374636

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Grant and Affiliation Information for Toward a systems biology of mouse inner ear organogenesis: gene expression pathways, patterns and network analysis.

AFFILIATION: Department of Genetics, Washington University School of Medicine, St. Louis, Missouri 63310, USA.

Country: United States

AGENCY: United States NIDCD

GRANT: R01DC5632

ACRONYM: DC

MEDLINETA: Genetics

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