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TranscriptomicsTranscription profiling of mouse embryonic stem vs trophoblastic stem cells
We attempted to identify candidate genes that are expressed more highly in the ICM than in TE cells. Mouse ES cells are cultured from the ICM, whereas mouse TS cells are cultured from the TE. Although these cells have been cultured in vitro, they represent the in vitro equivalents of the ICM and TE....
ORGANISM(S): Mus musculus 
2005-01-01 | E-MNIA-73 | biostudies-arrayexpress
TranscriptomicsDissecting Oct3/4-regulated gene networks in embryonic stem cells by expression
POU transcription factor Pou5f1 (Oct3/4) is required to maintain ES cells in an undifferentiated state. Here we show that global expression profiling of Oct3/4-manipulated ES cells delineates the downstream target genes of Oct3/4. Combined with data from genome-wide chromatin-immunoprecipitation ass...
ORGANISM(S): Mus musculus 
2010-06-30 | E-GEOD-5936 | biostudies-arrayexpress
TranscriptomicsHigh-throughput screen for genes predominantly expressed in the ICM of mouse blastocysts by whole mount in situ hybridiz
We attempted to identify candidate genes that are expressed more highly in the ICM than in TE cells. Mouse ES cells are cultured from the ICM, whereas mouse TS cells are cultured from the TE. Although these cells have been cultured in vitro, they represent the in vitro equivalents of the ICM and TE....
ORGANISM(S): Mus musculus 
2010-06-09 | E-GEOD-3214 | biostudies-arrayexpress
TranscriptomicsIdentification of Pou5f1, Sox2, and Nanog downstream target genes with statistical confidence by applying a novel algor
We present a microarray experiment with the same tet-inducible system but with multiple time points within 24 hr to capture early responses to Oct4 suppression. These data were analyzed together with published genome-wide ChIP data. We found that most tentative target genes (TTG) of Oct4 in ES cells...
ORGANISM(S): Mus musculus 
2008-04-24 | E-GEOD-8617 | biostudies-arrayexpress
TranscriptomicsIdentification of baseline gene expression signatures predicting therapeutic responses to three biologic agents in rheumatoid arthritis: a retrospective observational study
The aim of this study was to identify the specific molecular biological features predicting the therapeutic outcomes of three bDMARDs, infliximab (IFX), tocilizumab (TCZ), and abatacept (ABT) by studying blood gene expression signature of patients prior to biologic treatment in a unified test platfo...
ORGANISM(S): Homo sapiens 
2016-07-21 | E-GEOD-78068 | biostudies-arrayexpress
TranscriptomicsKlf4 cooperates with Oct3/4 and Sox2 to activate the Lefty1 core promoter in embryonic stem cells
To characterize Klf4 downstream genes, we performed microarray analyses of the ES cells knocked down by siRNA of Klf4 gene. Keywords: individual genetic characteristic design ES cells grow without feeders on gelatin coated in complete ES medium. Cells were incubated at 37 0C; 5% CO2. ES cells were t...
ORGANISM(S): Mus musculus 
2010-06-10 | E-GEOD-5930 | biostudies-arrayexpress
TranscriptomicsPluripotency governed by Sox2 via regulation of Oct3/4 expression in mouse embryonic stem cells
To characterize the differentiation by Sox2 KO, we performed microarray analyses of mouse ES cell line 2TS22C during the time-course being induced of Sox2 KO Inducible Sox2 KO cell line 2TS22C were assigned to eight experimental groups and cultured in GMEM medium (SIGMA) with LIF at 37°C in an atmo...
ORGANISM(S): Mus musculus 
2010-06-11 | E-GEOD-5895 | biostudies-arrayexpress
TranscriptomicsBAF250B-associated SWI/SNF chromatin-remodeling complex is required to maintain undifferentiated mouse ES cells
We used BAF250b-/- ES cells, two independently derived clones, at 18 and 72 hr in culture and compared them with parental cell line (wild-type) at the same time in culture (two replications each). Total RNAs were extracted using Trizol (Invitrogen) according to manufacturer protocol. 2.5 ug of total...
ORGANISM(S): Mus musculus 
2008-06-09 | E-GEOD-8996 | biostudies-arrayexpress
TranscriptomicsDefining Developmental Potency and Cell Lineage Trajectories by Expression Profiling of Differentiating Mouse ES Cells
Biologists rely on morphology, function, and specific markers to define the differentiation status of cells. Transcript profiling has expanded the repertoire of these markers by providing the snapshot of cellular status that reflects the activity of all genes. However, such data have been used only ...
ORGANISM(S): Mus musculus 
2008-12-27 | E-GEOD-11523 | biostudies-arrayexpress
TranscriptomicsRNAi knock down of Klf4 in mouse embryonic stem cells
To characterize Klf4 downstream genes, we performed microarray analyses of the ES cells knocked down by siRNA of Klf4 gene.
ORGANISM(S): Mus musculus 
2006-11-08 | E-MNIA-92 | biostudies-arrayexpress
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