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TranscriptomicsUnprecedented alternative splicing and 3 Mb of novel transcribed sequence leads to significant transcript diversity in the transcriptome of the human retina
The mRNA repertoire is specific to a given tissue type. This specificity, whether it is in the levels of gene expression or the splicing pattern of the transcripts, is important to study to increase our general knowledge of transcription and alternative splicing, as well as to identify novel coding...
ORGANISM(S): Homo sapiens 
2013-07-30 | E-GEOD-40524 | biostudies-arrayexpress
Proteomics4-Oxo-2-nonenal Adductions in Cells
4-Oxo-2-nonenal (ONE) derived from lipid peroxidation modifies nucleophiles and transduces redox signaling by its reactions with proteins. However, the molecular interactions between ONE and complex proteomes and their dynamics in situ remain largely unknown. Here we de-scribe a quantitative chemopr...
ORGANISM(S): Homo sapiens (Human) 
2017-08-25 | PXD007149 | Pride
4-oxo-2-nonenal 
ProteomicsChemoproteomics Reveals Chemical Diversity and Dynamics of 4-Oxo-2-nonenal Modifications in Cells
4-Oxo-2-nonenal (ONE) derived from lipid peroxidation modifies nucleophiles and transduces redox signaling by its reactions with proteins. However, the molecular interactions between ONE and complex proteomes and their dynamics in situ remain largely unknown. Here we de-scribe a quantitative chemopr...
ORGANISM(S): Homo sapiens (Human) 
2022-02-24 | PXD006680 | Pride
Chemoproteomics Click chemistry 4-oxo-2-nonenal 
ProteomicsMudPIT analyses of the proteins co-purified with FLAG-HA Non-Stop FLAG-IPed from Drosophila melanogaster S2 cells
Protein Complexes Purification- Drosophila S2 cells were stably-transfected with pRmHa3-based inducible expression vectors to produce epitope-tagged Non-stop-2xFLAG-2xHA (Non-stop-FH). Cells stably transfected with empty vector served as negative control. Protein complexes containing Non-stop were p...
ORGANISM(S): Drosophila Melanogaster (ncbitaxon:7227) 
2018-07-17 | MSV000082625 | MassIVE
ProteomicsTemporal proteomic analysis of BK polyomavirus infection reveals virus-induced G2 arrest and highly effective evasion of innate immune sensing
BK polyomavirus (BKPyV) is a small DNA virus that establishes a life-long persistent infection in the urinary tract of most people. BKPyV is known to cause severe morbidity in renal transplant recipients and can lead to graft rejection. The simple 5.2 kilobase pair dsDNA genome expresses just seven ...
ORGANISM(S): Homo sapiens (Human) BK polyomavirus MM 
2019-05-23 | PXD013940 | Pride
Quantitative proteomics  tandem mass tag  systems virology  polyomavirus  interferon  immune evasion  innate immunity  cell cycle 
ProteomicsDiscovery Proteomics Identifies a Molecular Link between the Coatomer Protein Complex I and Androgen Receptor-dependent Transcription
Aberrant activation of androgen receptor (AR)-dependent transcriptional programs is a hallmark of human prostate cancers. At the molecular level, ligand-mediated AR activation is coordinated through spatial and temporal protein-protein interactions (PPIs) involving AR-interacting proteins, which we ...
ORGANISM(S): Homo sapiens (Human) 
2016-07-20 | PXD002861 | Pride
Androgen Transcription Intracellular trafficking Prostate cancer Protein trafficking Mass spectrometry-based proteomics Androgen receptor Golgi membrane 
ProteomicsMudPIT analyses of the proteins associated with the CRWN-like protein isolated from mixed stages of Plasmodium falciparum intraerythrocytic development cycle
Protein pull-down assay- Mixed erythrocytic stage 3D7 Plasmodium falciparum parasite cultures were collected and lysed using 0.15% saponin for 10 min on ice. After subsequent washes, the parasite pellet was resuspended in 2.5X volume of IP buffer (0.65% Igepal CA-360 (Sigma-Aldrich), 50 mM Tris-HCl ...
ORGANISM(S): Plasmodium Falciparum 3d7 (ncbitaxon:36329) 
2019-12-10 | MSV000084671 | MassIVE
ProteomicsMudPIT analyses of the proteins associated with SMC3 isolated from mixed stages of Plasmodium falciparum intraerythrocytic development cycle
Protein pull-down assay- Mixed erythrocytic stage 3D7 Plasmodium falciparum parasite cultures were collected and lysed using 0.15% saponin for 10 min on ice. After subsequent washes, the parasite pellet was resuspended in 2.5X volume of IP buffer (0.65% Igepal CA-360 (Sigma-Aldrich), 50 mM Tris-HCl ...
ORGANISM(S): Plasmodium Falciparum 3d7 (ncbitaxon:36329) 
2018-06-28 | MSV000082521 | MassIVE
ProteomicsIdentification of interaction partners of novel polyacetylene
To elucidate molecular interaction partners of a novel plant-derived polyacetylene, we used a biotin-labelled polyacetylene in two cell lines (HEK293 and HepG2) and performed biotin-pulldown assays and proteomic analyses via LC-MSMS.
ORGANISM(S): Homo sapiens (Human) 
2024-01-26 | PXD037671 | Pride
Lc-msms Biotin-label compound Human cell lines 
ProteomicsAndrogen-sensitive glycomembrane protein expression in LNCaP prostate tumor cells
Aberrant androgen receptor (AR)-mediated transcription is a critical driver in progression of human prostate cancer. It's known that different doses of androgens can elicit differential transcriptional and proliferative responses in prostate-tumor cells. Here, we set out to examine the androgenic re...
ORGANISM(S): Homo sapiens (Human) 
2022-03-01 | PXD002913 | Pride
Androgen Human prostate cancer cells Lectin affinity purification 
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