Transcriptomics,Multiomics

Dataset Information

5

Transcription profiling of mouse inner cell mass (ICM) from a single cells derived from mouse blastocysts at E3.5


ABSTRACT: The inner cell mass (ICM) of the early blastocyst at E3.5, a source of ES cell derivation, is a morphologically homogeneous population of undifferentiated pluripotent cells that give rise to all embryonic lineages. The immediate application of the newly developed V1V3 method to single cells in this stage of mouse embryos revealed the presence of two populations of cells, one with primitive endoderm expression and the other with pluripotent epiblast-like gene expression. The genes expressed differentially between these two populations were well preserved in morphologically differentiated primitive endoderm and epiblast in the embryos one day later (E4.5), demonstrating that the method successfully detects subtle but essential differences in gene expression at the single-cell level among seemingly homogeneous cell populations. This study provides a strategy to analyze biophysical events in medicine as well as in neural, stem cell, and developmental biology, where small numbers of distinctive or diseased cells play critical roles. Experiment Overall Design: We isolated blastocysts at E3.5 and dissociated the ICM into single cells by trypsin-EDTA treatment. To prepare cDNA samples, we then randomly picked a total of 55 single cells. cDNAs were synthesized and amplified by the V1V3 method, and screened by gene-specific PCR using Oct4 and Cdx2 to remove trophectoderm cells, and 50 cells were identified as Oct4-positive and Cdx2-negative, ICM cells.

OTHER RELATED OMICS DATASETS IN: PRJNA104647PRJNA104667PRJNA94845

INSTRUMENT(S): 418 [Affymetrix]

SUBMITTER: Kazuki Kurimoto  

PROVIDER: E-GEOD-4307 | ArrayExpress | 2008-06-13

SECONDARY ACCESSION(S): GSE4307PRJNA104667

REPOSITORIES: GEO, ArrayExpress

Dataset's files

Source:
Action DRS
E-GEOD-4307.README.txt Txt
E-GEOD-4307.eSet.r Other
E-GEOD-4307.idf.txt Idf
E-GEOD-4307.processed.1.zip Processed
E-GEOD-4307.raw.1.zip Raw
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Publications

An improved single-cell cDNA amplification method for efficient high-density oligonucleotide microarray analysis.

Kurimoto Kazuki K   Yabuta Yukihiro Y   Ohinata Yasuhide Y   Ono Yukiko Y   Uno Kenichiro D KD   Yamada Rikuhiro G RG   Ueda Hiroki R HR   Saitou Mitinori M  

Nucleic acids research 20060317 5


A systems-level understanding of a small but essential population of cells in development or adulthood (e.g. somatic stem cells) requires accurate quantitative monitoring of genome-wide gene expression, ideally from single cells. We report here a strategy to globally amplify mRNAs from single cells for highly quantitative high-density oligonucleotide microarray analysis that combines a small number of directional PCR cycles with subsequent linear amplification. Using this strategy, both the repr  ...[more]

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