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ProteomicsGlobal Landscape of Cell Envelope Protein Complexes in Escherichia coli
After extraction with mild non-denaturing detergents, we affinity-purified 785 endogenously-tagged CEPs and then identified stably-associated polypeptides by precision mass spectrometry. The resulting high-quality physical interaction network, comprising most (77%) of all targeted CEPs, revealed hu...
ORGANISM(S): Escherichia coli (strain K12 / W3110 / ATCC 27325 / DSM 5911) 
2017-11-30 | PXD006247 | Pride
Escherichia coli Multi-protein complexes Macromolecues Protein-protein interactions Cell envelope Cell envelope proteins Cell envelope protein complexes 
ProteomicsA Map of Human Mitochondrial Protein Interactions Linked to Neurodegeneration Reveals New Molecular Determinants in Redox Homeostasis and NF-κB Signaling
Mitochondrial protein (MP) dysfunction has been linked to neurodegenerative disorders (NDs), however, the discovery of molecular mechanisms underlying NDs has been impeded by the limited characterization of interactions governing MP function. Here, using 109 affinity-purified mitochondrial fractions...
ORGANISM(S): Homo sapiens (Human) 
2017-12-05 | PXD006690 | Pride
Parkinson's disease Autism Mitochondria Nf-kb signaling Mitochondrial proteins Neurodegeneration Protein-protein interactions Proteomics 
GenomicsGenome wide promoter methylation analysis of mouse macrophages and endothelial cells isolated from ischemic hindlimbs using RRBS sequencing
Purpose: The goal of this study was to compare the genome-wide promoter methylation alterations in macrophages and endothelial cells during hindlimb ischemia among normal, hyperlipidemic and type-2 diabetic mice. Methods: Unilateral hindlimb ischemia was induced by ligating femoral artery proximal t...
ORGANISM(S): Mus musculus 
2015-12-21 | E-GEOD-65759 | biostudies-arrayexpress
GenomicsGenome wide DNA methylation sequencing of ischemic skeletal muscle from normal, hyperlipidemic and type 2 diabetic mice
Objective: To define the role of epigenetics, particularly DNA methylation in adaptive vascular growth in hyperlipidemic and type 2 diabetic mouse models of hind limb ischemia Methods: Unilateral hindlimb ischemia was induced by ligating femoral artery proximal to the bifurcation of superficial and ...
ORGANISM(S): Mus musculus 
2015-12-21 | E-GEOD-42092 | biostudies-arrayexpress
UnknownCT scan pancreatic cancer segmentation and classification using deep learning and the tunicate swarm algorithm.
Not available
S-EPMC10627451 | biostudies-literature
UnknownPostoperative outcomes after preoperative ustekinumab exposure in patients with Crohn's disease: a systematic review and meta-analysis.
Not available
S-EPMC8375651 | biostudies-literature
ProteomicsThe Conserved Tpk1 Regulates Non-Homologous End Joining Double-Strand Break Repair by Phosphorylation of Nej1, a Homolog of the Human XLF
The yeast cyclic-AMP dependent protein kinase A (PKA) is a ubiquitous serine-threonine kinase, encompassing three catalytic (Tpk1-3) and one regulatory (Bcy1) subunits. Evidence suggests PKA involvement in DNA damage checkpoint response, but how DNA repair pathways are regulated by PKA subunits rema...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2021-09-10 | PXD024695 | Pride
Genomic instability Prkacb Nhej Tpk1 Dsb repair Nej1 Kinase 
ProteomicsThe Conserved Tpk1 Regulates Non-Homologous End Joining Double-Strand Break Repair by Phosphorylation of Nej1, a Homolog of the Human XLF
The yeast cyclic-AMP dependent protein kinase A (PKA) is a ubiquitous serine-threonine kinase, encompassing three catalytic (Tpk1-3) and one regulatory (Bcy1) subunits. Evidence suggests PKA involvement in DNA damage checkpoint response, but how DNA repair pathways are regulated by PKA subunits rema...
ORGANISM(S): Homo sapiens (Human) Saccharomyces cerevisiae (Baker's yeast) 
2021-09-10 | PXD024768 | Pride
Genomic instability Prkacb Nhej Tpk1 Dsb repair Nej1 Kinase 
ProteomicsMitochondrial Network Organization during Neuronal Reprogramming, MT_UDF_WAX
The study focuses on an extensive biochemical fractionation with in-depth quantitative mass spectrometric profiling in the mitochondrial (mt) extracts of cultured human NTera2 embryonal carcinoma stem cells (i.e. ECSCs or undifferentiated state) and upon exposure to retinoic acid-induced differentia...
ORGANISM(S): Homo sapiens (Human) 
2020-01-09 | PXD009832 | Pride
Biochemical fractionation  ci and civ deficiencies  differentiated neuronal cells  human ntera2 embryonal carcinoma stem cells  mass spectrometry  mitochondrial proteins  mitochondrial interaction landscape  proteomics  protein complexes  patient fibroblasts  neurodegeneration  orphans 
ProteomicsMitochondrial Network Organization during Neuronal Reprogramming, MT_UDF_SEC
The study focuses on an extensive biochemical fractionation with in-depth quantitative mass spectrometric profiling in the mitochondrial (mt) extracts of cultured human NTera2 embryonal carcinoma stem cells (i.e. ECSCs or undifferentiated state) and upon exposure to retinoic acid-induced differentia...
ORGANISM(S): Homo sapiens (Human) 
2020-01-09 | PXD009834 | Pride
Biochemical fractionation  ci and civ deficiencies  differentiated neuronal cells  human ntera2 embryonal carcinoma stem cells  mass spectrometry  mitochondrial proteins  mitochondrial interaction landscape  proteomics  protein complexes  patient fibroblasts  neurodegeneration  orphans 
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