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GenomicsGenome-wide mapping of H3K4me3 and of PHF8 and ZNF711 binding sites in SH-SY5Y cells
We analyzed the genome wide binding sites for the potential XLMR genes PHF8 and ZNF711 in the neuroblastoma cell line SH-SY5Y using antibodies specific for PHF8 and ZNF711 and correlated this with binding pattern of H3K4me3. The total number of peaks detected for PHF8 based on 9.8 million sequence...
ORGANISM(S): Homo sapiens 
2010-03-08 | E-GEOD-20673 | biostudies-arrayexpress
ProteomicsMetaproteomic profiling of saliva in subjects with periodontitis, dental caries and orally healthy controls
The composition of the salivary microbiota has been reported to differentiate between patients with periodontitis, dental caries and orally healthy individuals. Thus, the purpose of the present investigation was to compare metaproteomic profiles of saliva in oral health and disease. Stimulated saliv...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2017-03-29 | MSV000080763 | MassIVE
Proteomics,MultiomicsmiR-625-3p regulates oxaliplatin resistance by targeting MAP2K6-p38 signaling in human colorectal adenocarcinoma cells
Oxaliplatin (oxPt) resistance in colorectal cancers (CRC) is a major unsolved problem. Consequently, predictive markers and a better understanding of resistance mechanisms are urgently needed. To investigate if the recently identified predictive miR-625-3p is functionally involved in oxPt resistance...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2017-03-29 | MSV000080762 | MassIVE
GenomicsOgt chromatin recruitment is mediated by TET proteins in mouse ES cells [ChIP-Seq]
These data include the genome wide location analysis of Ogt by ChIP of Ogt in mouse ES cells. Precipitation of formaldehyde cross-linked chromatin prepared from mouse ES cell using specific antibody against OGT and IgG as control.
ORGANISM(S): Mus musculus 
2013-01-06 | E-GEOD-39154 | biostudies-arrayexpress
TranscriptomicsLoss of TET2 in hematopoietic cells leads to DNA hypermethylation of active enhancers and induction of leukemogenesis [Agilent]
DNA methylation is tightly regulated throughout mammalian development and altered DNA methylation patterns are a general hallmark of cancer. The methylcytosine dioxygenase TET2 is frequently mutated in hematological disorders, including acute myeloid leukemia (AML), and has been suggested to protect...
ORGANISM(S): Mus musculus 
2015-04-30 | E-GEOD-68415 | biostudies-arrayexpress
ProteomicsEuPA YPIC challenge entry - proteome data analysis
Sweet Google O’ Mine - The Importance of Online Search Engines for MS-facilitated, Database-independent Identification of Peptide-encoded Book Prefaces
ORGANISM(S): artificial sequences 
2019-10-29 | PXD007693 | Pride
Maxquant de novo Eupa ypic challenge Synthetic peptides 
TranscriptomicsKDM6B-induced gene expression changes in transfected CD10-positive GC B cells
In this study, we have investigated the effect of lysine-specific demethylase 6B (KDM6B) on gene expression in normal human germinal center (GC) B cells using a non-viral vector-based system. Gene expression was compared between KDM6B-transfected and control vector-transfected GC B cells from three ...
ORGANISM(S): Homo sapiens 
2011-07-26 | E-GEOD-24044 | biostudies-arrayexpress
TranscriptomicsIdentification of DNA methylation changes in monocytes to osteoclast differentiation
Conversion of monocytes to osteoclasts is a unique terminal differentiation process within the hematopoietic system involving differentiation and massive cell fusion. Here we focused on DNA methylation changes during osteoclastogenesis. Hypermethylation and hypomethylation changes took place in seve...
ORGANISM(S): Homo sapiens 
2013-08-30 | E-GEOD-46648 | biostudies-arrayexpress
TranscriptomicsTET2 loss-of-function mutations associate with a DNA hypermethylation signature in diffuse large B-cell lymphoma (DNA methylation)
Genome wide DNA methylation profiling of patient samples with TET2 mutations and Wild type TET2 status . The Illumina Infinium HumanMethylation 450_15017482_v.1.1 was used to obtain DNA methylation profiles across approximately 482,421 CpGs in fresh frozen lymphoma samples. Samples include 19 TET2...
ORGANISM(S): Homo sapiens 
2013-10-10 | E-GEOD-37362 | biostudies-arrayexpress
TranscriptomicsTranscription profiling by array of TET2 wild type and TET2 mutant patients with diffuse large B-cell derived lymphoma
Global gene expression in TET2 mutant and Wild type patients. We performed an integrated analysis of global DNA methylation and gene expression data to investigate the effects of DNA hypermethylation on gene expression. Total RNA was isolated from 4 TET2mut and 5 TET2wt were isolated using standard...
ORGANISM(S): Homo sapiens 
2013-10-10 | E-GEOD-37363 | biostudies-arrayexpress
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