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TranscriptomicsGain of chromatin loops marks the exit from naïve pluripotency – in-situ Hi-C data
In-situ Hi-C data for mouse embryonic stem cells (ES cells, grown in the presence of FBS and LIF) and for NS cells.
ORGANISM(S): Mus musculus 
2018-11-08 | E-MTAB-6591 | biostudies-arrayexpress
GenomicsTCC in pluripotent and differentiated cells
Regulation of gene expression underlies the establishment and maintenance of cell identity. Chromatin structure and gene activity are linked. Recently CTCF anchored loops have been described as major features of chromatin organisation. However, the dynamics and role for these structures in differ...
ORGANISM(S): Mus musculus 
2018-11-08 | E-MTAB-4870 | biostudies-arrayexpress
MetabolomicsSpecific decorations of 17-hydroxygeranyllinalool diterpene glycosides solve the autotoxicity problem of chemical defense in Nicotiana attenuata
The native diploid tobacco Nicotiana attenuata produces abundant, potent anti-herbivore defense metabolites known as 17-hydroxygeranyllinalool diterpene glycosides (HGL-DTGs) whose glycosylation and malonylation biosynthetic steps are regulated by jasmonate signaling. To characterize the biosyntheti...
2021-10-06 | MTBLS1819 | MetaboLights
TranscriptomicsExpression RNA-Seq data of matched cases of pre-treatment Fine-needle aspiration (FNA) and the respective post neo-adjuvant treatment operative sample of breast cancer patients.
Neoadjuvant treated patients were selected from the Genomstudy of the University Women`s Clinic Heidelberg (2009-2016). This study includes primary breast cancer cases that were newly diagnosed at the University women's clinic of Heidelberg and had given their informed consent for participating in t...
ORGANISM(S): Homo sapiens 
2017-05-15 | E-MTAB-4632 | biostudies-arrayexpress
GenomicsMapping mitochondrial DNA recombination in yeast
In this study, we present the first genome-wide recombination map for mitochondrial DNA in yeast. We also assess the impact of the genetic background and of several gene deletions on the recombination profiles.
ORGANISM(S): Saccharomyces cerevisiae 
2014-10-22 | E-MTAB-2474 | biostudies-arrayexpress
ProteomicsExpression of transport proteins in the rete mirabile of European silver and yellow eel
This dataset consists of 33 raw MS files, an associated peak list and result file, acquired on an Q Exactive plus mass spectrometer operated in Data Dependent Acquisition mode. The files are associated with a manuscript submitted for publication. Publication title: " Expression of transport proteins...
ORGANISM(S): Anguilla anguilla 
2022-01-14 | PXD025435 | Pride
Proteomics Rete mirabile Anguilla anguilla Itraq European eel 
GenomicsGain of chromatin loops marks the exit from naive pluripotency - ChIP seq for CTCF and Rad21
ChIP-seq to map the binding sites for CTCF and cohesin subunit Rad21 in the naive mES cells (46C cell line grown in the 2i/LIF condition) and in the neural stem cells (derived from the 46C ES cells using the mono-layer differentiation protocol, grown in the N2B27 medium these cells are Nestin+)....
ORGANISM(S): Mus musculus 
2018-11-08 | E-MTAB-5732 | biostudies-arrayexpress
TranscriptomicsTemporal Transcriptional Profiling in response to cMYC and KrasG12D Expression and Inactivation in In Vitro Cultured Primary Mammary Epithelial Cells of Adult Virgin Mice
Mammary glands from 8 week old, female, virgin GEMM MMTV-rtTA/TetO-MYC/TetO-KrasG12D mice were dissociated into single cells and seeded into matrigel matrix for in vitro culture. To determine the gene expression changes which occur upon oncogene induction 5 days after seeding doxycycline was added ...
ORGANISM(S): Mus musculus 
2017-05-22 | E-MTAB-3038 | biostudies-arrayexpress
TranscriptomicsTemporal Transcriptional Profiling in response to cMYC and Her2/NEU Expression and Inactivation in In Vitro Cultured Primary Mammary Epithelial Cells of Adult Virgin Mice
Mammary glands from 8 week old, female, virgin GEMM MMTV-rtTA/TetO-MYC/TetO-Neu mice were dissociated into single cells and seeded into matrigel matrix for in vitro culture. To determine the gene expression changes which occur upon oncogene induction 5 days after seeding doxycycline was added to th...
ORGANISM(S): Mus musculus 
2017-05-22 | E-MTAB-3039 | biostudies-arrayexpress
GenomicsDynamic alterations of 3D chromatin structure during differentiation
Regulation of gene expression underlies the establishment and maintenance of cell identity. Chromatin structure and gene activity are linked at long-range via positioning of loci to transcriptionally permissive (euchromatin) or repressive (heterochromatin) environments and at short-range by connecti...
ORGANISM(S): Mus musculus 
2019-08-27 | E-MTAB-2063 | biostudies-arrayexpress
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