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ProteomicsProteome profiling of mouse germinal center B cells
Productive B cell responses are critical to protect a host from infection. The spleen and lymph nodes are populated by resting follicular B cells, which can enter germinal centers upon antigen encounter. Once in the germinal center, B cells migrate between the dark and light zones, where they underg...
ORGANISM(S): Mus musculus (Mouse) 
2020-04-06 | PXD015524 | Pride
Mouse B cells 
ProteomicsU1 Small Nuclear Ribonucleoprotein Complex and RNA Splicing Alterations in Alzheimer Disease
Comprehensive study of the human brain-insoluble proteome in AD by mass spectrometry. Mass spectrometry analysis of detergent insoluble fractions was processed based on our optimized LC-MS/MS protocol. Protein concentration was determined by bicinchoninic acid (BCA) assay (Thermo Scientific) using b...
ORGANISM(S): Homo sapiens (Human) 
2013-08-28 | PXD000067 | Pride
Human Splicing U170k Lc-ms/ms 
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
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
ProteomicsUltra Deep Mouse cerebrospinal fluid (CSF) profiling in Alzheimer’s disease
Alzheimer's disease (AD) is a neurodegenerative disease, the most common cause of dementia in elderly persons. Accumulation of amyloid plaques in the brain is a characteristic of AD. The requirements for a biomarker include the ability to measure a pathologic process, predict outcome, distinguish di...
ORGANISM(S): Mus musculus (Mouse) 
2021-09-09 | PXD018658 | Pride
Proteomics Alzheimer’s disease Mass spectrometry Mouse Csf Proteome Tandem mass tag Biomarker 
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
ProteomicsTMT analysis of MOLM-13 cells treated with SJ001007095
Targeted Protein Degradation (TPD) encompasses two approaches that generate small molecules with similar proteasome-dependent mechanisms of action: Proteolysis-Targeting Chimeras (PROTACs) and Molecular Glues (MGs). Our goal is to develop novel MG approaches that exploit the E3 ubiquitin ligase Cere...
ORGANISM(S): Homo sapiens (Human) 
2023-12-01 | PXD045170 | Pride
Acute leukemia Targeted protein degradation Tmt Molecular glues Lc-ms/ms 
ProteomicsTMT analysis of MOLM-13 cells treated with series 3 CK1a degraders
Targeted Protein Degradation (TPD) encompasses two approaches that generate small molecules with similar proteasome-dependent mechanisms of action: Proteolysis-Targeting Chimeras (PROTACs) and Molecular Glues (MGs). Our goal is to develop novel MG approaches that exploit the E3 ubiquitin ligase Cere...
ORGANISM(S): Homo sapiens (Human) 
2023-12-01 | PXD045230 | Pride
Acute leukemia Targeted protein degradation Tmt Molecular glues Lc-ms/ms 
ProteomicsProteome profiling of MOLM-13 cells treated with proposed CK1α degraders
Targeted Protein Degradation (TPD) encompasses two approaches that generate small molecules with similar proteasome-dependent mechanisms of action: Proteolysis-Targeting Chimeras (PROTACs) and Molecular Glues (MGs). Our goal is to develop novel MG approaches that exploit the E3 ubiquitin ligase Cere...
ORGANISM(S): Homo sapiens (Human) 
2023-12-01 | PXD045228 | Pride
Acute leukemia Targeted protein degradation Tmt Molecular glues Lc-ms/ms 
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 (Human) 
2017-02-20 | PXD004010 | Pride
Proteomics Proteogenomics Database search Mass spectrometry Genomics Multistage analysis Rna-seq Spectrum quality control 
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