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TranscriptomicsKidney development time course
Array Design; Mouse Compugen 22K Spotted Oligo Author; Sean Grimmond Common Reference (Yes/No, ID); Yes Mouse universal Reference (Stratagene) Concentration; 100 Data processing/normalization; Lowess Normalisation GeneSpring) Developmental Stage; embryonic Diseased/Normal; normal Dye Swap; red/green...
ORGANISM(S): Mus musculus 
2010-06-09 | E-GEOD-2282 | biostudies-arrayexpress
Transcriptomics10.5dpc Metanephric Mesenchyme V Intermediate Mesoderm
10.5dpc Metanephric Mesenchyme V Intermediate Mesoderm
ORGANISM(S): Mus musculus 
2010-06-09 | E-GEOD-2301 | biostudies-arrayexpress
Transcriptomics15.5dpc Ureteric tree cells Vs rest
Triplicate pairwise comparsion of FACS sorted GFP+ve Vs GFP-ve cells from the kidneys of the HoxB7-GFP transgenic mice on compugen 22K mouse arrays. HoxB7-GFP mice express GFP in the ureteric tree and its derivatives while the metanephric mesenchyme, interstitium, developing vasculature etc do not.
ORGANISM(S): Mus musculus 
2010-06-09 | E-GEOD-2281 | biostudies-arrayexpress
Transcriptomics10.5dpc Metanephric mesenchyme Vs 13.5dpc fetal kidney
Direct comparison of dissected 10.5dpc metanephric mesenchyme Vs 13.5dpc fetal kidneys
ORGANISM(S): Mus musculus 
2010-06-09 | E-GEOD-2300 | biostudies-arrayexpress
TranscriptomicsDeep-transcriptome and ribonome sequencing redefines the molecular networks of pluripotency and the extracellular space in human Embryonic Stem cells (part 2)
Recent RNA-sequencing studies have shown remarkable complexity in the mammalian transcriptome. The ultimate impact of this complexity on the predicted proteomic output is less well defined. We have undertaken a strand-specific RNA sequencing of multiple cellular RNA fractions (>18Gb) to uncover the ...
ORGANISM(S): Homo sapiens 
2011-07-01 | E-GEOD-25842 | biostudies-arrayexpress
TranscriptomicsDeep-transcriptome and ribonome sequencing redefines the molecular networks of pluripotency and the extracellular space in human Embryonic Stem cells
Cytoplasmic polyadenylated RNA from human embryonic stem cells (HES2) was separated on a 1.2% agarose and gel slices were excised corresponding to the following sizes: 0 to 0.5 kb; 0.5-2 kb; 2-3.5 kb; 3.5-6.5 kb and 6.5-20+ kb. Slices were dissolved and extracted RNA (1% of each fraction) was run on...
ORGANISM(S): Homo sapiens 
2010-10-20 | E-GEOD-24355 | biostudies-arrayexpress
TranscriptomicsTemporal gene expression profiling of myeloid cells during the peritoneal foreign body response
This study dermined the temporal gene expression profile of myeloid subpopulations recruited to the peritoneal cavity to encapsulate implanted foreign material. Sterile foreign objects were inserted into the peritoneal cavities of MacGreen mice (in which the Csf1r promoter directs myeloid-specific ...
ORGANISM(S): Mus musculus 
2014-09-17 | E-GEOD-53101 | biostudies-arrayexpress
TranscriptomicsGenome-wide analysis of gene expression and intron retention during development in a U12-type splicing-deficient zebrafish mutant [RNA-seq]
To determine the global impact of the clbn mutation on gene expression and efficiency of U2- and U12-type splicing, we analyzed the transcriptome of 108hpf wt and clbn mutant larvae by microarrays and RNA sequencing. RNAseq data was used to characterize intron retention of U2-type and U12-type intro...
ORGANISM(S): Danio rerio 
2014-02-05 | E-GEOD-53758 | biostudies-arrayexpress
GenomicsKLF1/EKLF regulatory networks in primary erythroid cells
KLF1 (EKLF) regulates a diverse suite of genes to direct erythroid cell differentiation from bi-potent progenitors. To determine the local cis-regulatory contexts and transcription factor networks in which KLF1 operates, we performed KLF1 ChIP-seq in the mouse. We found at least 945 sites in the gen...
ORGANISM(S): Mus musculus 
2010-04-08 | E-GEOD-20478 | biostudies-arrayexpress
TranscriptomicsWhole Genome Sequencing Informs Therapeutic Selection for Pancreatic Cancer
Pancreatic cancer remains one of the most lethal of malignancies and a major health burden. We performed whole genome sequencing and CNV analysis of 100 pancreatic ductal adenocarcinomas. Chromosomal rearrangements leading to gene disruption were frequent, affecting genes known to be important in pa...
ORGANISM(S): Homo sapiens 
2015-02-27 | E-GEOD-61502 | biostudies-arrayexpress
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