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ProteomicsUPS2 Orbitrap data from Dicker, Lin and Ivanov (PMID: 20823122)
These raw data were first introduced in "Increased Power for the Analysis of Label-free LC-MS/MS Proteomics Data by Combining Spectral Counts and Peptide Peak Attributes" by Lee Dicker, Xihong Lin, and Alexander R. Ivanov (PubMed ID 20823122) (doi 10.1074/mcp.M110.002774). They represent the Sigma ...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2014-01-10 | MSV000078520 | MassIVE
ProteomicsA comprehensive portrait of tissue-, age- and sex-specific DNA modifications in rodents and humans
DNA damage causes genomic instability underlying many diseases, with traditional analytical approaches providing minimal insight into the spectrum of DNA lesions in vivo. Here we used untargeted chromatography-coupled tandem mass spectrometry-based adductomics (LC-MS/MS) to define the landscape of D...
ORGANISM(S): Homo sapiens (Human) Rattus norvegicus (Rat) 
2023-09-12 | PXD045311 | Pride
Adductomics Strp mrm 
GenomicsCo-dependency of H2B monoubiquitination and nucleosome re-assembly on Chd1
Monoubiquitination of histone H2B on lysine 123  (H2BK123ub) is a transient histone modification considered to be essential for establishing H3K4 and H3K79 trimethylation by Set1/COMPASS and Dot1, respectively.  Many of the factors such as Rad6/Bre1, the Paf1 complex, and the Bur1/Bur2 complex were ...
ORGANISM(S): Saccharomyces cerevisiae 
2012-05-01 | E-GEOD-36334 | biostudies-arrayexpress
TranscriptomicsThe SEC family of RNA Polymerase II elongation factors: gene target specificity and transcriptional output
The elongation stage of transcription is a highly regulated in metazoan. We previously purified the AFF1/AFF4-containing Super Elongation Complex (SEC) as a major regulator of development and cancer pathogenesis. Here, we report the biochemical isolation of SEC-like 2 (SEC-L2) and SEC-like 3 (SEC-L3...
ORGANISM(S): Homo sapiens 
2012-05-01 | E-GEOD-34097 | biostudies-arrayexpress
MetabolomicsAn Unbiased Lipid Phenotyping Approach To Study the Genetic Determinants of Lipids and Their Association with Coronary Heart Disease Risk Factors
Direct infusion high-resolution mass spectrometry (DIHRMS) is a novel, high-throughput approach to rapidly and accurately profile hundreds of lipids in human serum without prior chromatography, facilitating in-depth lipid phenotyping for large epidemiological studies to reveal the detailed associati...
2024-02-02 | MTBLS4461 | MetaboLights
GenomicsHistone H3 lysine 9 di-methylation as an epigenetic signature of the interferon response (sequencing)
Effective anti-viral immunity depends on the ability of infected cells or cells triggered with virus-derived nucleic acids to produce type I interferon (IFN), which activates transcription of numerous antiviral genes. However, disproportionately strong or chronic IFN expression is a common cause of ...
ORGANISM(S): Mus musculus 
2012-03-02 | E-GEOD-22102 | biostudies-arrayexpress
MetabolomicsELAPOR1 induces the classical/progenitor subtype and contributes to reduced disease aggressiveness through metabolic reprogramming in pancreatic cancer
Pancreatic ductal adenocarcinoma (PDAC) is a heterogeneous disease with distinct molecular subtypes described as classical/progenitor and basal-like/squamous PDAC. We hypothesized that integrative transcriptome and metabolome approaches can identify candidate genes whose inactivation contributes to ...
2024-04-02 | MTBLS9418 | MetaboLights
MetabolomicsSpatially-guided metabolomics profiling of heterogeneous human tumor tissues

Bulk high-resolution mass spectrometry can provide sensitive and global snapshots of metabolites involved in cancer metabolism. However, intra-tumor heterogeneity (IntraTH) convolutes the cellular origins and tumor pathologies associated with the detected metabolites, thus making the elucidation ...

2026-04-15 | MTBLS13432 | MetaboLights
TranscriptomicsChIP-chip with antibodies for histone 3 lysine 4 trimethylation, histone 3, and PolII in Mll1+/+ and Mll1-/- MEFs
Global analysis of H3K4 methylation defines MLL family member targets and points to a role for MLL1-mediated H3K4 methylation in the regulation of transcriptional initiation by RNA polymerase II A common landmark of activated genes is the presence of trimethylation on lysine 4 of histone H3 (H3K4) ...
ORGANISM(S): Mus musculus 
2010-06-21 | E-GEOD-18264 | biostudies-arrayexpress
UnknownHIV-Nef and ADAM17-Containing Plasma Extracellular Vesicles Induce and Correlate with Immune Pathogenesis in Chronic HIV Infection.
Not available
S-EPMC4856776 | biostudies-literature
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