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TranscriptomicsGene expression in E14 TG2a cells grown with or without LIF and sorted for 5T4 expression
E14 TG2a cells grown with LIF were disaggregated and FACS sorted for cell surface 5T4 negativity versus E14 TG2a cells grown without LIF for 3 days and sorted for 5T4 positivity. Two samples in triplicate. 5T4- vs. 5T4+
ORGANISM(S): Mus musculus 
2011-02-15 | E-GEOD-20372 | biostudies-arrayexpress
ProteomicsA global non-coding RNA system modulates fission yeast protein levels in response to stress
Mitogen Activated Protein Kinase (MAPK) signaling cascades transduce information arising from events external to the cell, such as environmental stresses, to a variety of downstream effectors and transcription factors. The fission yeast stress activated MAP kinase (SAPK) pathway is conserved with th...
ORGANISM(S): Schizosaccharomyces pombe 927 
2014-05-19 | PXD000894 | Pride
Fission yeast Label-free quantitative proteomics Non-coding rnas Osmotic stress 
TranscriptomicsLung gamma delta T cells in tumor-free and mammary tumor-bearing mice
Gamma delta T cells were sorted from the lungs of 4 female FVB/n mice (labeled wild-type [WT] 1-4) and 4 female mammary tumour-bearing K14-Cre;Brca1F/F;Trp53F/F (KB1P) mice (labeled Tumour 1-4).The sorted cells were loaded onto the Chromium Single Cell 30 Chip Kit v2 (10xGenomics) to generate librar...
ORGANISM(S): Mus musculus 
2021-07-12 | E-MTAB-10677 | biostudies-arrayexpress
GenomicsRUNX1 positively regulates a cell adhesion and migration program in murine hemogenic endothelium prior to blood emergence (DamID-seq)
During ontogeny the transcription factor RUNX1 governs the emergence of definitive hematopoietic cells from specialized endothelial cells, called hemogenic endothelium (HE). The ultimate consequence of this endothelial-to-hematopoietic transition is the concomitant activation of the hematopoietic pr...
ORGANISM(S): Mus musculus 
2014-08-05 | E-GEOD-55308 | biostudies-arrayexpress
TranscriptomicsRUNX1 positively regulates a cell adhesion and migration program in murine hemogenic endothelium prior to blood emergence (RNA-seq)
During ontogeny the transcription factor RUNX1 governs the emergence of definitive hematopoietic cells from specialized endothelial cells, called hemogenic endothelium (HE). The ultimate consequence of this endothelial-to-hematopoietic transition is the concomitant activation of the hematopoietic pr...
ORGANISM(S): Mus musculus 
2014-08-05 | E-GEOD-55310 | biostudies-arrayexpress
TranscriptomicsSplicing towards noncoding isoforms in colorectal carcinoma is associated with tumor hypoxia and the DNA damage response
Tumor hypoxia is associated with poor patient outcome and resistance to therapy. It is associated with a rapid decline in protein production mediated through mTOR signalling. Here we show that it also leads to widespread changes in splicing and a global shift towards the expression of noncoding isof...
ORGANISM(S): Homo sapiens 
2016-07-28 | E-GEOD-81513 | biostudies-arrayexpress
TranscriptomicsOncogene-dependent regulation of tumor cells via stromal reciprocal signalling
Cancer is a heterocellular disease composed of tumor cells and stromal cells. Although stromal cells are known to regulate cancer progression, oncogene-dependent signalling through heterocellular cancer systems remains poorly elucidated. Here, we describe KRASG12D-dependent ‘reciprocal’ signalling a...
ORGANISM(S): Mus musculus 
2015-06-27 | E-GEOD-70351 | biostudies-arrayexpress
TranscriptomicsProgrammed fluctuations in sense/anti-sense transcript ratios drive sexual differentiation in Schizosaccharomyces pombe
Strand specific RNA sequencing of S. pombe revealed a highly structured programme of ncRNA expression at over 600 loci. Waves of antisense transcription accompanied sexual differentiation. A substantial proportion of ncRNA arose from mechanisms previously considered to be largely artefactual, includ...
ORGANISM(S): Schizosaccharomyces pombe 
2011-12-20 | E-GEOD-28113 | biostudies-arrayexpress
TranscriptomicsStability of miRNA in FFPE tumour samples exhibiting degraded mRNA [Cervix samples miRNA]
Background: As degradation of formalin-fixed paraffin-embedded (FFPE) samples limits ability to expression profile, we explored factors predicting success for FFPE profiling and investigated an approach overcoming this limitation. Methods: Bladder (n=141, stored 3-8 years) and cervix (n=160, stored...
ORGANISM(S): Homo sapiens 
2012-07-03 | E-GEOD-39015 | biostudies-arrayexpress
TranscriptomicsStability of miRNA in FFPE tumour samples exhibiting degraded mRNA [Cervix samples series 1]
Background: As degradation of formalin-fixed paraffin-embedded (FFPE) samples limits ability to expression profile, we explored factors predicting success for FFPE profiling and investigated an approach overcoming this limitation. Methods: Bladder (n=141, stored 3-8 years) and cervix (n=160, stored...
ORGANISM(S): Homo sapiens 
2012-07-03 | E-GEOD-39013 | biostudies-arrayexpress
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