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TranscriptomicsRole of ICOS:ICOSL interaction in acute GVHD
Inducible co-stimulator (ICOS) interaction with its ligand (ICOSL) is involved in several T cell effector functions. While blockade of ICOS:ICOSL interaction in chronic graft versus host disease (GVHD) seems benefi cial, results for acute GVHD remain controversial. To further elucidate its role in a...
ORGANISM(S): Mus musculus 
2009-09-14 | E-GEOD-17995 | biostudies-arrayexpress
GenomicsHypermutation of the inactive X chromosome is a frequent event in cancer
Mutation is a fundamental process in tumorigenesis. However the degree to which the rate of somatic mutation varies across the human genome and the mechanistic basis underlying this variation remain to be fully elucidated. As part of the ICGC PedBrain and Malignant Lymphoma (MMML-Seq) consortium we ...
EGAS00001000565 | EGA
GenomicsMINCR is a MYC-induced lncRNA able to modulate MYC’s transcriptional network in Burkitt lymphoma cells
Despite the established role of the transcription factor MYC in cancer, little is known about the involvement of lncRNAs in mediating MYC’s function. Here we have intersected RNA-sequencing data from MYC-inducible cell lines, from a cohort of 91 mature B-cell lymphomas and from sorted germinal-cente...
EGAS00001001199 | EGA
ProteomicsRobust dimethyl-based multiplex-DIA doubles single-cell proteome depth via a reference channel
Single-cell proteomics aims to characterize biological function and heterogeneity at the level of proteins in an unbiased manner. It is currently limited in proteomic depth, throughput, and robustness, which we address here by a streamlined multiplexed workflow using data-independent acquisition (mD...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2022-12-22 | MSV000090956 | MassIVE
TranscriptomicsATAC-seq of Mus musculus embryonic cell types in response to Pbx1 knockout
ATAC-seq was performed, mapped, and analyzed as previously described (PMID: 34446717: \\"ATAC-seq was performed on 50,000 cells per replicate as described in Buenrostro et al. (with modifications based on Corces et al.), on EpiSCs and PSM-differentiated cell populations at desired time-points. Libra...
ORGANISM(S): Mus musculus 
2023-12-01 | E-MTAB-13407 | biostudies-arrayexpress
MetabolomicsToxicometabolomics of the new psychoactive substances α-PBP and α-PEP studied in HepaRG cell incubates by means of untargeted metabolomics revealed unexpected amino acid adducts
Toxicometabolomics, essentially applying metabolomics to toxicology of endogenous compounds such as drugs of abuse or new psychoactive substances (NPS), can be investigated by using different in vitro models and dedicated metabolomics techniques to enhance the number of relevant findings. The presen...
2023-10-10 | MTBLS1481 | MetaboLights
GenomicsGenome-wide identification of distinct miRNA-mRNA target regulation pairs in Non-Hodgkin lymphomas: a report from the ICGC MMML-Seq consortium
We obtained miRNA profiles by miRnome sequencing from ICGC MMML-Seq patients diagnosed with Burkitt lymphoma, diffuse large B-cell lymphoma and follicular lymphoma and provide evidence of subtype-specific miRNA expression differences. We describe differentially expressed, mutated, edited and not pre...
EGAS00001001394 | EGA
Genomicsena-DATASET-DKFZ-IBIOS-16-07-2015-15:45:02:488-51 - samples
Despite the established role of the transcription factor MYC in cancer, little is known about the impact of a new class of transcriptional regulators, the long non-coding RNAs (lncRNAs), on the way MYC is able to influence cellular transcriptome. To this aim we have intersected RNA-sequencing data f...
EGAD00001001441 | EGA
GenomicsWGSeq_HealthyHuman_DATA_SET_xmas_MB_2013_07_10 - samples
HSC73_clone: Bone marrow mononuclear cells from the healthy 73 years old female were thawed and labeled with Alexa-Fluor 488-conjugated anti-CD34 (581, Biolegend), Alexa-Fluor 700-conjugated anti-CD38 (HIT2, eBioscience), a cocktail of APC-conjugated lineage antibodies consisting of anti-CD4 (RPA-T4...
EGAD00001000666 | EGA
ProteomicsGTPase driven maturation of the human mitoribosomal peptidyl transferase center
We combine genetic perturbation with cryo-electron microscopy (cryo-EM) to establish the mechanism of PTC maturation during human mitoribosome biogenesis. Cryo-EM structures of large mitoribosomal subunit (mtLSU) assembly intermediates purified from GTPBP6-deficient cells reveal that GTPBP5 acts in ...
ORGANISM(S): Homo sapiens (Human) 
2021-05-20 | PXD023502 | Pride
Ptc maturation Gtpbp5 Gtpbp6 Mitochondrial ribosome Ribosome recycling Ribosome assembly Mterf4-nsun4 Mitoribosome Obg-hflx superfamily 
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