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TranscriptomicsPilot-study for a novel universal tool for detection of oncogenic fusion transcripts
A novel oligonucleotide microarray design is described whereby one can screen for all known oncogenic fusion transcripts by one microarray hybridization. Measurements of chimeric transcript junctions are combined with exon-wise measurements of individual fusion partners. Keywords: Nimblegen custom-...
ORGANISM(S): Homo sapiens 
2010-05-06 | E-GEOD-14435 | biostudies-arrayexpress
TranscriptomicsIdentification of a Potently Oncogenic CALM-AF10 Minimal-Fusion Mutant
This SuperSeries is composed of the following subset Series: GSE27512: Identification of a Potently Oncogenic CALM-AF10 Minimal-Fusion Mutant (miRNA) GSE27513: Identification of a Potently Oncogenic CALM-AF10 Minimal-Fusion Mutant (mRNA) Refer to individual Series
ORGANISM(S): Mus musculus 
2011-10-04 | E-GEOD-27514 | biostudies-arrayexpress
TranscriptomicsTandem duplication producing a novel oncogenic BRAF fusion gene defines the majority of pilocytic astrocytomas
Pilocytic astrocytomas (PAs), WHO Grade I, are one of the most frequently occurring childhood brain tumors. We have used microarray comparative genomic hybridization (aCGH) to study copy number changes on chromosome 7 in a series of PAs (n=44). Keywords: Comparative Genomic Hybridization Single hybr...
ORGANISM(S): Homo sapiens 
2009-04-15 | E-GEOD-11265 | biostudies-arrayexpress
ProteomicsThe oncogenic fusion protein DNAJB1-PRKACA can be specifically targeted by peptide-based immunotherapy in fibrolamellar hepatocellular carcinoma
The DNAJB1-PRKACA fusion transcript is the oncogenic driver in fibrolamellar hepatocellular carcinoma, a lethal disease lacking specific therapies. This study reports on the identification, characterization, and immunotherapeutic application of HLA-presented neoantigens specific for the DNAJB1-PRKAC...
ORGANISM(S): Homo sapiens (Human) 
2022-10-13 | PXD029882 | Pride
Cancer Hla ligands Mass spectrometry Fibrolamellar hepatocellular carcinoma Immunopeptidomics Fl-hcc 
ProteomicsInteractome of the TCF3-HLF fusion protein
Oncogenic chimeric transcription factors are central drivers in cancer. To understand how the TCF3-HLF fusion protein rewires the transcriptional landscape in t(17;19) positive leukemia, functional genetic and proteomic experiments were conducted. In this dataset, the protein-protein interactions of...
ORGANISM(S): Homo sapiens (Human) 
2020-08-05 | PXD014992 | Pride
Flag-tagged fusion protein Ap-ms 
ProteomicsNuclear Condensation of NUP98-Fusion Proteins drives leukemogenic gene expression NUP98-fusion protein drive oncogenic gene expression via nuclear/biomolecular condensation
NUP98-fusion proteins cause leukemia via unknown molecular mechanisms. All NUP98-fusion proteins share an intrinsically disordered region (IDR) featuring >35 repeats of Phenylalanine-Glycine (FG) in the NUP98 N-terminus. Conversely, C-terminal NUP98-fusion partners often have critical functions in g...
ORGANISM(S): Homo sapiens (Human) 
2020-12-23 | PXD022518 | Pride
Aml Ap-ms Fusion protein Nup98 Bicon-ms Condensate 
GenomicsOncogenic ZMYND11-MBTD1 fusion protein anchors the NuA4/TIP60 histone acetyltransferase complex to the coding region of active genes
Oncogenic ZMYND11-MBTD1 fusion protein anchors the NuA4/TIP60 histone acetyltransferase complex to the coding region of active genes
PRJNA720548 | ENA
ProteomicsO-mannosylation and protein maturation checkpoints represent therapeutic opportunities in BRAF fusion protein oncogenesis
Fusions between protein-coding genes are common oncogenic drivers across cancers, typically pairing a proto-oncogene with a partner that does not independently drive cancer. In all therapeutically actionable fusions, the proto-oncogene is the drug target, the contributions to oncogenicity of the fus...
ORGANISM(S): Homo sapiens (Human) 
2026-08-02 | PXD078059 | Pride
O-mannosylation Pomt1/2 Kiaa1549 Braf Fusion Oncogenesis 
ProteomicsFusion partners influence cellular and molecular phenotypes of oncogenic BRAF fusions
Fusion genes can be oncogenic drivers in a variety of cancer types and represent potential targets for targeted therapy. The BRAF gene is frequently involved in oncogenic fusions, with fusion frequencies of 0.2-3% throughout different cancers. However, BRAF fusions rarely occur in the same gene conf...
ORGANISM(S): Homo sapiens (Human) 
2020-01-16 | PXD013461 | Pride
Resistance Crc Fusion partner Organoids Braf Signaling Fusion genes 
TranscriptomicsThe histone H2B ubiquitin ligase RNF20 is required for MLL-rearranged leukemia
MLL-fusions are potent oncogenes that initiate aggressive forms of acute leukemia. As aberrant transcriptional regulators, MLL-fusion proteins alter gene expression in hematopoietic cells through interactions with the histone H3 lysine 79 (H3K79) methyltransferase DOT1L. Notably, interference with M...
ORGANISM(S): Mus musculus 
2013-02-19 | E-GEOD-43725 | biostudies-arrayexpress
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