Transcriptomics,Multiomics

Dataset Information

6

In situ-synthesized novel microarray optimized for mouse stem cell and early developmental expression profiling: Part2


ABSTRACT: E12.5 mouse whole embryos and placentas were pooled within 3 litters and total RNA was extracted. Fluorescently-labeled, linearly-amplified cRNA targets were prepared from the RNA samples and compared on a novel microarray design to validate the system. A "self-versus-self" experimental design was used to assess the false-positive rates in the system. The in situ-synthesized 60-mer oligonucleotide microarray platform contains approximately 22,000 DNA features, and was designed to detect transcripts from the entire NIA cDNA clone collection. Keywords: self vs self design E12.5 mouse whole embryos and placentas were pooled within 3 litters and total RNA was extracted. Fluorescently-labeled, linearly-amplified cRNA targets were prepared from the RNA samples and compared on a novel microarray design to validate the system. A "self-versus-self" experimental design was used to assess the false-positive rates in the system. The in situ-synthesized 60-mer oligonucleotide microarray platform contains approximately 22,000 DNA features, and was designed to detect transcripts from the entire NIA cDNA clone collection.

OTHER RELATED OMICS DATASETS IN: PRJNA93563PRJNA93545PRJNA93557

ORGANISM(S): Mus musculus  

SUBMITTER: Minoru S.H. Ko   Yong Qian  Kazuhiro Aiba  Mark G Carter  Naomi T Ko  Dawood B Dudekula  Stuart S Hwang  Minoru S Ko  Pius M Brzoska  Alexei A Sharov  Condie E Carmack  Toshio Hamatani 

PROVIDER: E-GEOD-3513 | ArrayExpress | 2010-06-30

SECONDARY ACCESSION(S): GSE3513PRJNA93557

REPOSITORIES: GEO, ArrayExpress

Dataset's files

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Action DRS
E-GEOD-3513.README.txt Txt
E-GEOD-3513.idf.txt Idf
E-GEOD-3513.processed.1.zip Processed
E-GEOD-3513.sdrf.txt Txt
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Publications

In situ-synthesized novel microarray optimized for mouse stem cell and early developmental expression profiling.

Carter Mark G MG   Hamatani Toshio T   Sharov Alexei A AA   Carmack Condie E CE   Qian Yong Y   Aiba Kazuhiro K   Ko Naomi T NT   Dudekula Dawood B DB   Brzoska Pius M PM   Hwang S Stuart SS   Ko Minoru S H MS  

Genome research 20030501 5


Applications of microarray technologies to mouse embryology/genetics have been limited, due to the nonavailability of microarrays containing large numbers of embryonic genes and the gap between microgram quantities of RNA required by typical microarray methods and the miniscule amounts of tissue available to researchers. To overcome these problems, we have developed a microarray platform containing in situ-synthesized 60-mer oligonucleotide probes representing approximately 22,000 unique mouse t  ...[more]

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