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TranscriptomicsCpG island methylation
We compare the methylation status of CpG island clones by MeDIP in SW48 colon cancer cells relative to normal colon mucosa and WI38 primary fibroblasts.
ORGANISM(S): Homo sapiens 
2010-06-09 | E-GEOD-2653 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of mouse splenic CD4+ cells after surgical induction of sepsis vs. controls reveals a distinct transcriptional response 6 hours after sepsis induction
Lymphocytes are adversely affected during sepsis. Some CD4+ splenocytes undergo apoptosis while others become Th2 polarized. The molecular determinants of these phenotypic changes are not known. Here we compare the transcriptional response of septic CD4 splenocytes to CD4 splenocytes from sham-manip...
ORGANISM(S): Mus musculus 
2007-12-07 | E-GEOD-4479 | biostudies-arrayexpress
ProteomicsPhosphate Starvation Signaling Increases Mitochondrial Membrane Potential through Respiration-independent Mechanisms
The mitochondrial membrane potential directly powers many critical functions of mitochondria, including ATP production, mitochondrial protein import, and metabolite transport. Its loss is a cardinal feature of aging and mitochondrial diseases, and cells closely monitor membrane potential as an indic...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2024-02-15 | PXD037405 | Pride
Mitochondria Phosphate 
TranscriptomicsPER2 synchronizes mitotic expansion and decidual transformation of human endometrial stromal cells
Implantation is dependent on synchronized interactions between the conceptus and surrounding decidual cells but the involvement of clock genes in this process is not well understood. Circadian oscillations are predicated on transcriptional-translational feedback loops, which balance the activities o...
ORGANISM(S): Homo sapiens 
2015-09-16 | E-GEOD-62854 | biostudies-arrayexpress
TranscriptomicsDeciphering the molecular immune response to COVID-19 using single cell multi-omics
Multi-omics single-cell profiling of surface proteins, gene expression and lymphocyte immune receptors from hospitalised COVID-19 patient peripheral blood immune cells and healthy controls donors. Identification of the coordinated immune cell compositional and state changes in response to SARS-CoV-2...
ORGANISM(S): Homo sapiens 
2021-03-17 | E-MTAB-10026 | biostudies-arrayexpress
GenomicsDiscrete Roles of STAT4 and STAT6 Transcription Factors in Tuning Epigenetic Modifications and Transcription during Helper T Cell Differentiation (ChIP-Seq)
Signal transducer and activator of transcription 4 (STAT4) and STAT6 are key factors in the specification of helper T cells; however, their direct roles in driving differentiation are not well understood. Using chromatin immunoprecipitation and massive parallel sequencing, we quantitated the full c...
ORGANISM(S): Mus musculus 
2010-06-18 | E-GEOD-22104 | biostudies-arrayexpress
GenomicsONT R10.4-Lsk sequencing of a naked mole-rat male subordinate. Sheared kidney, unsheared kidney, and brain samples
Two PacBio Hifi sequencing runs from the kidney of a single male NMR sample used to make the mHetGla4.1.primary genome assembly. Specifically, we assembled a second NMR genome from an unrelated male of a separate captive colony in Toronto, Canada, using PacBio HiFi (155.8 Gb, read N50 = 11.45 Kb) an...
ORGANISM(S): Heterocephalus glaber 
2026-08-06 | E-MTAB-17334 | biostudies-arrayexpress
GenomicsONT ULK sequencing of a male cape dune mole-rat kidney sample
One ONT-ULK sequencing run from the kidney of a single male CDMR (Bathyergus suillus) sample used to make the mBatSui1.1.primary genome assembly as an evolutionary comparator to our telomere-to-telomere naked mole-rat genome assembly. Specifically, we assembled a CDMR from a wild-derived sample in S...
ORGANISM(S): Bathyergus suillus 
2026-08-05 | E-MTAB-17420 | biostudies-arrayexpress
GenomicsPacbio Hifi sequencing of a male cape dune mole-rat kidney sample
One PacBio Hifi sequencing run from the kidney of a single male CDMR (Bathyergus suillus) sample used to make the mBatSui1.1.primary genome assembly as an evolutionary comparator to our telomere-to-telomere naked mole-rat genome assembly. Specifically, we assembled a CDMR from a wild-derived sample ...
ORGANISM(S): Bathyergus suillus 
2026-08-05 | E-MTAB-17312 | biostudies-arrayexpress
TranscriptomicsRNA sequencing of sperm extracted from the epididymis in naked mole-rat subordinates, naked mole-rat ex-subordinates, and mice
Naked mole-rat show a strong phenotype of sperm hypo-motility and abnormal morphology. Comparative genomic analyses in our study presenting the telomere-to-telomere genome for the naked mole-rat identified several sperm-gene relaxation and sperm-gene loss events in the NMR. To test the transcriptomi...
ORGANISM(S): Mus musculus 
2026-07-31 | E-MTAB-17270 | biostudies-arrayexpress
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