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TranscriptomicsWhiA and WhiB of Streptomyces venezuelae depend on each other for binding DNA
WhiB regulon, as determined by ChIP-Seq turned out to be identical to the WhiA regulon leading to the speculation that the two proteins might be required to work together to bind DNA. In this experiment WhiA ChIP-Seq was done in a whiB deletion background and, WhiB ChIP-Seq was done in a whiA deleti...
ORGANISM(S): Streptomyces venezuelae 
2021-07-01 | E-MTAB-10673 | biostudies-arrayexpress
TranscriptomicsAfter demyelination in the adult CNS, oligodendrocyte precursor cells revert to an immature mRNA profile and express immune cues favoring their migration
In multiple sclerosis (MS) and experimental models of demyelination, myelin repair is mostly achieved by oligodendrocyte precursor cells (OPCs). To gain insight into the biological specificity of these adult precursors, in the perspective to better understand why remyelination often fails in MS, we ...
ORGANISM(S): Mus musculus 
2014-11-06 | E-GEOD-48872 | biostudies-arrayexpress
ModelsKarim2021 - CardioTox net: Ligand-based prediction of hERG blockade
A robust predictor for hERG channel blockade based on an ensemble of five deep learning models. The authors have collected a dataset from public sources, such as BindingDB and ChEMBL on hERG blockers and non-blockers. The cut-off for hERG blockade was set at IC50 Model Type: Predictive machine lea...
2024-07-18 | MODEL2407180003 | BioModels
Machine Learning Model FAIR-AIML Ersilia 
UnknownCardioTox net: a robust predictor for hERG channel blockade based on deep learning meta-feature ensembles.
Not available
S-EPMC8365955 | biostudies-literature
TranscriptomicsTranscriptomic responses of juvenile Pacific whiteleg shrimp, Litopenaeus vannamei, to hypoxia and hypercapnic hypoxia
Here we used microarrays to characterize changes in global gene expression in the hepatopancreas of Pacific white shrimp, Litopenaeus vannamei, exposed to short term (4 h) hypoxia (H) or hypercapnic hypoxia (HH) or long term (24 h) H or HH, compared to animals in air-saturated water (normoxia). Th...
ORGANISM(S): Litopenaeus vannamei 
2012-04-29 | E-GEOD-29029 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of human actute monocytic leukemia cell line THP-1 cells incubated at 37 or 32 degrees C for 24h reveals moderate hypothermia produces substantial changes in cellular gene expression, in categories potentially of importance to systemic function.
Background: Moderate hypothermia (32oC for 12 – 72 hours) has therapeutic applications, but the mechanisms by which it affects cellular function are unclear. We tested the hypothesis that moderate hypothermia produces broad changes in gene expression by human cells at the level of mRNA. Methods:...
ORGANISM(S): Homo sapiens 
2007-10-26 | E-GEOD-4425 | biostudies-arrayexpress
TranscriptomicsAmplicon sequencing of different regions of metastatic melanomas
Genetic heterogeneity can provide tumors with opportunities for therapy evasion, however the degree of genetic heterogeneity within metastatic melanomas has not been thoroughly investigated. We therefore isolated DNA from different regions of formalin fixed paraffin embedded metastatic melanoma tiss...
ORGANISM(S): Homo sapiens 
2013-09-08 | E-MTAB-1794 | biostudies-arrayexpress
ProteomicsA protein standard that emulates homology for the characterization of protein inference algorithms
A natural way to benchmark the performance of an analytical experimental setup is to use samples of known content, and see to what degree one can correctly infer the content of such a sample from the data. For shotgun proteomics, one of the inherent problems of interpreting data is that the measured...
ORGANISM(S): Escherichia Coli (ncbitaxon:562) 
MSV000084315 | MassIVE
TranscriptomicsRegulation of male germ cell cycle arrest and differentiation by DND1 is modulated by genetic background
Transcriptional profiling of E14.5 XY germ cells (marked with Oct4-EGFP transgene) from two strain backgrounds (C57BL/6J and 129S1/SvImJ) that differ in their susceptibility to testicular teratomas. Two condition experiment. For each sample, Oct4-EGFP+ germ cells from all XY embyos within a litter w...
ORGANISM(S): Mus musculus 
2010-12-22 | E-GEOD-24340 | biostudies-arrayexpress
ProteomicsADAPT identifies an ESCRT complex composition that discriminates VCaP from LNCaP prostate cancer cell exosomes
Libraries of single-stranded oligodeoxynucleotides (ssODNs) can be enriched for sequences that specifically bind molecules on naïve complex biological samples like cells or tissues. Depending on the enrichment strategy, the ssODNs can identify molecules specifically associated with a defined biologi...
ORGANISM(S): Homo sapiens (Human) 
2020-01-13 | PXD011496 | Pride
Prostate cancer cells Escrt complex Aptamers Adapt Exosomes 
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