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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
MetabolomicsMetabonomics uncovers a reversible proatherogenic lipid profile during infliximab therapy of inflammatory bowel disease

BACKGROUND: One-third of inflammatory bowel disease (IBD) patients show no response to infliximab (IFX) induction therapy, and approximately half of patients responding become unresponsive over time. Thus, identification of potential treatment response biomarkers are of great cl...

2022-01-13 | MTBLS239 | MetaboLights
MetabolomicsSpatially-guided metabolomics profiling of heterogeneous human tumor tissues

Bulk high-resolution mass spectrometry can provide sensitive and global snapshots of metabolites involved in cancer metabolism. However, intra-tumor heterogeneity (IntraTH) convolutes the cellular origins and tumor pathologies associated with the detected metabolites, thus making the elucidation ...

2026-04-15 | MTBLS13432 | MetaboLights
MetabolomicsMetabonomics of human fecal extracts characterize ulcerative colitis, Crohn's disease and healthy individuals
This study employs spectroscopy-based metabolic profiling of fecal extracts from healthy subjects and patients with active or inactive ulcerative colitis (UC) and Crohn's disease (CD) to substantiate the potential use of spectroscopy as a non-invasive diagnostic tool and to characterize the fecal me...
2017-02-07 | MTBLS237 | MetaboLights
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
UnknownLncRNA FIRRE functions as a tumor promoter by interaction with PTBP1 to stabilize BECN1 mRNA and facilitate autophagy.
Not available
S-EPMC8811066 | biostudies-literature
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
TranscriptomicsTranscription profiling of mouse small intestinal crypt-villus axis
Genes encoding transcription factors function as hubs in gene regulatory networks because they encode DNA-binding proteins, which bind to promoters that carry their binding sites. In the present work we have studied gene regulatory networks defined by genes with transcripts belonging to different mR...
ORGANISM(S): Mus musculus 
2008-06-12 | E-GEOD-3216 | biostudies-arrayexpress
TranscriptomicsHypoxia transcriptome sequencing of blind mole rat (BMR, Spalax galili) and rat (Rattus norvegicus)
Deep sequencing of mRNA from Spalax galili and Rattus norvegicus Total RNAs were isolated from the brain of female BMRs under various oxygen concentrations (3%, 6%, 10%, 14%, and 21%) for 6 hours. We also got RNAs from the brain of rats under 6%, 10%, 14%, and 21% oxygen conditions.
ORGANISM(S): Nannospalax galili 
2014-06-05 | E-GEOD-49485 | biostudies-arrayexpress
GenomicsGenome-wide DNA methylation analyses by the HELP assay
The HELP tagging assay was performed on purified genomic DNAs. The protocol was modified for NEBNext Multiplex Oligos for Illumina (NEB) from the original protocol4 (http://wasp.einstein.yu.edu/index.php/Protocol:HELP_tagging). Briefly, genomic DNA was digested by HpaII or MspI, the former only cutt...
ORGANISM(S): Mus musculus 
2015-09-10 | E-GEOD-51680 | biostudies-arrayexpress
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