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TranscriptomicsTranscription profiling of Cockayne Syndrome human fibroblasts lacking functional CSB, a SWI/SNF-like ATPase, to determine the molecular defect in CS
Cockayne syndrome (CS) is an inherited neurodevelopmental disorder with progeroid features. Although the genes responsible for CS have been implicated in a variety of DNA repair- and transcription-related pathways, the nature of the molecular defect in CS remains mysterious. We sought to define this...
ORGANISM(S): Homo sapiens 
2007-07-03 | E-GEOD-3407 | biostudies-arrayexpress
ProteomicsSFB-tagged(S-protein tag, Flag epitope tag, and streptavidin-binding peptide tag) RNF4 wild-type and CS mutant LC-MSMS
To elucidate the role of RNF4 in DNA replication and fork reversal, we performed tandem affinity purification (TAP) using a HEK293T cell line that stably expresses SFB-tagged(S-protein tag, Flag epitope tag, and streptavidin-binding peptide tag) wild-type and CS mutant to isolate proteins that assoc...
ORGANISM(S): Homo sapiens (Human) 
2022-08-11 | PXD028397 | Pride
Human rnf4 wt and cs lc-msms 
TranscriptomicsProteomic profiling by array of yeast E2Bmin, mRNA and total RNA on fuctional protein microarrays to identify RNA-binding proteins
Application of different sorts of RNAs (E2Bmin, mRNA, total RNA) on functional protein micorarrays to identify RNA-binding proteins.
ORGANISM(S): Saccharomyces cerevisiae 
2011-09-01 | E-MEXP-2897 | biostudies-arrayexpress
ProteomicsCigarette smoke induces changes in the basement membrane proteins of the corneal endothelium
Proteome profiling was performed to investigate changes at a molecular level in the mouse corneal endothelium (CE) along with the basement membrane exposed to cigarette smoke (CS). Pregnant mice (gestation days 18-20) were placed in a whole-body exposure smoking chamber and a few days later pups wer...
ORGANISM(S): Mus musculus (Mouse) 
2021-09-09 | PXD020036 | Pride
Mass-spectrometry Corneal endothelium Basement membrane Proteome Cigarette smoke 
MetabolomicsExamining the effects of cigarette smoke on mouse lens through a multi OMIC approach
Here, we report a multi OMIC (transcriptome, proteome, and metabolome) approach to investigate molecular changes in lens fiber cells (FC) of mice exposed to cigarette smoke (CS). Pregnant mice were placed in a whole-body smoke chamber and a few days later pups were born, which were exposed to CS for...
2024-03-24 | MTBLS207 | MetaboLights
TranscriptomicsTranscription profiling of human Cockayne Syndrome CS-B cells exposed to UV irradiation
Cockayne syndrome B (CSB) protein is a member of the SWI/SNF family and has DNA-dependent ATPase and ATP-dependent chromatin remodeling activities. The CSB protein is missing or altered in CS-B cells. CS-B cells are hypersensitive to UV light and defective in transcription-coupled DNA repair (TCR)...
ORGANISM(S): Homo sapiens 
2008-06-17 | E-GEOD-8939 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of human haptocytes infected with plasmodium reveals circumsporozoite protein promotes the development of the liver stages of the Parasite
The liver stages of malaria sporozoites develop in the hepatocyte cytoplasm inside a parasitophorous vacuole (PV). The circumsporozoite (CS) protein, the major surface protein of sporozoites, traverses the PV membrane and enters the cytoplasm and nucleus of hepatocytes. CS export into the cytoplasm ...
ORGANISM(S): Homo sapiens 
2008-06-16 | E-GEOD-8784 | biostudies-arrayexpress
TranscriptomicsA High-Fat Diet and NAD+ Rescue Premature Aging in Cockayne Syndrome
Cockayne syndrome (CS) is an accelerated aging disorder characterized by progressive neurodegeneration caused by mutations in the genes encoding the DNA repair proteins CSA or CSB. Csbm/m mice were given a high-fat, caloric-restricted or resveratrol-supplemented diet. The high-fat diet rescued the p...
ORGANISM(S): Mus musculus 
2014-12-22 | E-GEOD-62194 | biostudies-arrayexpress
ProteomicsMapping the human chondroitin sulfate glycoproteome reveals an unexpected correlation between glycan sulfation and attachment site characteristics
Chondroitin sulfate proteoglycans (CSPGs), an important class of carbohydrate-modified proteins, are composed of chondroitin sulfate (CS) polysaccharide(s) attached to different core proteins. CS polysaccharides interact with a multitude of protein ligands to control key events in homeostasis and de...
ORGANISM(S): Homo sapiens (Human) 
2023-10-24 | PXD037990 | Pride
Glycosaminoglycans  proteoglycans  glycoproteomics  glycopeptides 
ProteomicsCharacterization of human aging and Parkinson’s disease pre-frontal cortex by multi-omics: a glycomics, proteomics study.
This study identifies the age and PD related changes in glycans (HS and CS disaccharides) and proteomics in human aging and Parkinson’s disease. We analyzed the prefrontal cortex for changes in HS, CS and proteomic signatures in young versus aged as well as aged and PD in two cohorts. These studies ...
ORGANISM(S): Homo sapiens (Human) 
2020-07-16 | PXD018736 | Pride
Chondroitin sulfate Mass spectrometry Reverse phase Hilic-wax Multi-omics Label-free proteomics Pre-frontal cortex Heparan sulfate Lc-msms. Proteomic Parkinson’s disease Glycomic Aging 
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