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ProteomicsONGOING CHROMOSOMAL INSTABILITY ACROSS ANEUPLOID SUBTYPES OF CHILDHOOD B-CELL ACUTE LYMPHOBLASTIC LEUKEMIA ASSOCIATES WITH DISEASE PROGRESSION
Chromosomal instability (CIN), defined as an increased occurrence of chromosome segregation errors during cell division, is a prominent form of genomic instability (Bakhoum and Avi Landau, 2017). It is the major cause of aneuploidy, an imbalanced complement of whole chromosomes or chromosome arms, w...
ORGANISM(S): Homo sapiens (Human) 
2023-09-15 | PXD042785 | Pride
Aneuploidy B-cell acute lymphoblastic leukemia Childhood b-all Chromosomal instability 
ProteomicsThe effect of cannabinoid receptor agonists on triple-negative breast cancer cell line (MDA-MB-231)
The endocannabinoid system (ECS) provides regulatory functions in several cellular and physiological processes. It has also been found to play a role in control of cancer development. Our group found that breast cancer cells responded to cannabinoid receptor (CB) agonist treatments. This leads the a...
ORGANISM(S): Homo sapiens (Human) 
2024-07-27 | PXD040666 | Pride
Breast cancer Triple-negative Proteomics Cannabinoid receptor agonists Human Endocannabinoid 
TranscriptomicsAttachment of Bacillus subtilis to the hyphae of Aspergillus niger results in altered metabolism and defense mechanisms in both partner
Transcriptome comparison of Bacillus subtilis NCIB3610 attached to the hyphae of Aspergillus niger CB 119.1 compared to Bacillus subtilis NCIB3610 cells in the supernatant of the same culture. Detailed description (other than provided below) of growth conditions, RNA preparation, cDNA synthesis and ...
ORGANISM(S): Aspergillus niger 
2014-09-09 | E-GEOD-46682 | biostudies-arrayexpress
TranscriptomicsListeria monocytogenes Sigma B, but not PrfA, shows strain specific contributions to growth under salt stress, and prolongated lag phase of a sigB null mutant across strains
Listeria monocytogenes is well known to have the ability to survive and grow under a variety of stress conditions. The ability to survive and grow under osmotic stress conditions in particular appears to be important for both growth in certain foods and food associated environments as well as for ho...
ORGANISM(S): Listeria monocytogenes 
2013-07-20 | E-GEOD-49056 | biostudies-arrayexpress
ProteomicsSingle-cell transcriptional profiling identifies a spectrum of unconventional intraepithelial T lineage cells in human cord blood
Conventional CD4 and CD8 single positive T cell lineages constitute the main differentiation pathway in the thymus. In human thymus, a minor TCRαβ differentiation pathway diverges from the early double positive stage, consisting of CD10+ PD-1+ cells. These cells are phenotypically and functionally s...
ORGANISM(S): Homo sapiens (Human) 
2023-02-10 | PXD033392 | Pride
Agonist-selection T cell lineages Shotgun proteomics Q exactive hf Human Intraepithelial t cells Cord blood Label-free Thymus 
GenomicsIn situ Hi-C study of chromatin conformation during early Drosophila development
In this experiment we examined higher order chromatin structure during early Drosophila melanogaster development. We performed in situ Hi-C for hand-sorted non-mitotic embryos at nuclear cycle number 12, 13 and 14, and for embryos at 3-4 hours post fertilisation. During this time in development, the...
ORGANISM(S): Drosophila melanogaster 
2017-04-06 | E-MTAB-4918 | biostudies-arrayexpress
ProteomicsTargeting RuvBL1 disrupts mitochondrial metabolism and structure in hepatocellular carcinoma
Huh7 cells endogenously tagged with OMP25HA and OMP25MYC were treated with the RuvBL1/2 small molecule inhibitor CB-6644 (1uM for 48h. Mitochondria were immunoprecipitated with anti-HA magnetic beads. OMP25MYC-tagged mitochondria served as negative control for IP.
ORGANISM(S): Homo sapiens (Human) 
2026-08-24 | PXD075574 | Pride
Atpsynthase Hcc Ruvbl1 Mitochondria Huh7 Cb-6644 
MetabolomicsContributions of the Microbiome-Derived Metabolome for Risk Assessment and Prognostication of Pancreatic Cancer

BACKGROUND Increasing evidence implicates microbiome involvement in the development and progression of pancreatic ductal adenocarcinoma (PDAC). Studies suggest that reflux of gut or oral microbiota can lead to colonization in the pancreas, resulting in dysbiosis that culminates ...

2023-08-09 | MTBLS7260 | MetaboLights
MetabolomicsA polyamine-centric blood-based metabolite panel predictive of poor response to CAR T-cell therapy in large B cell lymphoma

Anti-CD19 chimeric antigen receptor (CAR) T-cell therapy for relapsed or refractory (r/r) large B-cell lymphoma (LBCL) results in durable response in only a subset of patients. MYC overexpression in LBCL tumors is associated with poor response to treatment. We tested whether a MYC-driven polyamin...

2022-10-31 | MTBLS5381 | MetaboLights
ProteomicsStructural basis of paralog-specific KDM2A/B nucleosome recognition
The nucleosome acidic patch is a major interaction hub for chromatin, providing a platform for enzymes to dock and orient for nucleosome-targeted activities. In order to define the molecular basis of acidic patch recognition proteome-wide, we performed an amino acid resolution acidic patch interacto...
ORGANISM(S): Homo sapiens (Human) 
2023-02-14 | PXD032791 | Pride
Nucleosome Demethylase Kdm2b Jmjc Chromatin Acidic patch Kdm2a 
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