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OtherJUMP: a tag-based database search tool for peptide identification with high sensitivity and accuracy.
Data from authors [[http://stjuderesearch.org/site/lab/peng web site]]. Experiment: dataset3, file: pl08.mzXML. Published as part of Mol Cell Proteomics. 2014 Sep 8 . From the Abstract: {{i}} ... Here we present JUMP, a new hybrid database search program that generates amino acid tags and ranks pep...
ORGANISM(S): Homo_sapiens_viruses, Human 
GPM32320003491 | GPMDB
ProteomicsBipolar and schizophrenia risk gene AKAP11 encodes an autophagy receptor coupling the regulation of PKA kinase network homeostasis to synaptic transmission
AKAP11 deficiency is associated with autophagy-regulated PKA and neuronal activity in mouse brains. We hypothesized that the differentially expressed proteins (DEPs) and phospho-proteins (pDEPs) in AKAP11 conditional KO mice and human iPSC-induced neurons (iNs) could be identified as potential AKAP1...
ORGANISM(S): Mus musculus (Mouse) Homo sapiens (Human) 
2025-12-08 | PXD067156 | Pride
Mouse models Synaptic transmission Er-resident autophagy-related proteins vapa/b Bipolar disorder (bd) Protein kinase a (pka) Pka-ri. Electrophysiology Akap11 Multi-omics Cell biology Schizophrenia (scz) Human induced neurons Gsk3a/b Sphkap 
ProteomicsAcute proteome responses to de novo sphingolipid synthesis inhibition suggest cancer combination therapies
Sphingolipids are essential structural and signaling lipids that support membrane integrity and govern cell fate decisions. Whereas the consequences of chronic sphingolipid inhibition have been extensively explored, the immediate cellular responses to reduced sphingolipid levels remain poorly define...
ORGANISM(S): Homo sapiens (Human) 
2026-06-08 | PXD079016 | Pride
Cancer Myriocin Proteome De novo sphingolipid synthesis 
ProteomicsCharacterize proteome-wide changes in protein abundance and ubiquitination during glucose starvation in wild-type and HOIL-1mut AC16 cardiomyocytesCharacterize proteome-wide changes in protein abundance and ubiquitination during glucose starvation in wild-type and HOIL-1mut AC16 cardiomyocytes
The cells expressing a truncated form of the E3 ubiquitin ligase HOIL-1 are hypersensitive to lethal metabolic stress. We hypothesize that alterations in ubiquitination or abundance of key substrates constitutes a mechanistic underpinning of this phenotype.
ORGANISM(S): Homo sapiens (Human) 
2026-03-13 | PXD046661 | Pride
Tmtpro Hoil-1 Ubiquitination 
ProteomicsJUMPg: an Integrative Proteogenomics Pipeline Identifying Unannotated Proteins in Human Brain and Cancer Cells
Proteogenomics is an emerging approach to improve gene annotation and interpretation of proteomics data. Here we present JUMPg, an integrative proteogenomics pipeline including customized database construction, tag-based database search, peptide-spectrum match filtering, and data visualization. JUMP...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2017-03-16 | MSV000080641 | MassIVE
ProteomicsDeep Multilayer Tissue Proteomics Identifies Molecular Networks in Alzheimer’s Disease Progression, human data
The molecular networks underlying Alzheimer’s disease (AD) are not well-defined. We present temporal profiling of >14,000 proteins and >34,000 phosphosites at the asymptomatic and symptomatic stages of AD, deep proteomics analysis of transgenic mouse models.
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2024-10-17 | MSV000096123 | MassIVE
OtherRefined phosphopeptide enrichment by phosphate additive and the analysis of human brain phosphoproteome.
Data from ProteomeXchange, PXD ID: PXD001180. File: tio2_250ug.mzml. Published as part of Proteomics. 2015 Jan;15(2-3):500-7 . From the Abstract: {{i}} Here, we report a pilot investigation of AD phosphoproteome by titanium dioxide enrichment coupled with high resolution LC-MS/MS. During the optimi...
ORGANISM(S): Homo_sapiens_viruses, Human 
GPM11210034774 | GPMDB
Resource Reanalysis 
ProteomicsHs_Brain_Phospho
Human brain phosphoproteome analyzed by refined phosphopeptide enrichment
ORGANISM(S): Homo Sapiens (human) 
2015-12-31 | PAe005247 | PeptideAtlas
ProteomicsIntegrated multi-omics analysis of zinc deficiency
Zinc is an essential trace micronutrient and exerts important physiological and biochemical roles. Zinc deficiency is a global public-health problem. Standing untreated zinc deficiency can cause series adverse effects, including growth retardation, poor appetite, delayed sexual development, impaired...
ORGANISM(S): Rattus Norvegicus 
2019-06-05 | PXD014079 |
ProteomicsThe Analysis of Plasma Metabolome and Lipidome of Patients with COVID-19
The ongoing outbreak of novel coronavirus (SARS-CoV-2) disease 2019 (COVID-19) has been declared a pandemic by the World Health Organization. This disease is marked by its rapid progression from mild to severe conditions, particularly in the absence of adequate medical care. And the mortality rate o...
ORGANISM(S): Homo Sapiens 
2020-03-31 | PXD018307 |
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