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ProteomicsReanalysis of Thermal Proteome Profiling in Zebrafish Reveals Effects of Napabucasin on Retinoic Acid Metabolism in Proteome Discoverer 2.5
This is a reanalysis of PXD017419 performed in Proteome Discoverer version 2.5
ORGANISM(S): Danio Rerio (ncbitaxon:7955) 
2021-12-06 | MSV000088522 | MassIVE
ProteomicsMS Annika: A new Cross-Linking Search Engine
A cross linking mass spectrometry search engine was developed and implemented into Thermo Proteome Discoverer. The search engine is capable to handle several linker types as well as data input formats. To demonstrate its ability processing Bruker -ion mobility data, synthetic peptides (Beveridge, et...
ORGANISM(S): Streptococcus pyogenes ABC020006030 
2021-05-27 | PXD022772 | Pride
Xl-ms Proteome-discoverer Ion-mobility Search-engine 
ProteomicsLabeled quantitative proteomics dataset of optogenetics induced axon regeneration
This labeled quantitative proteomics dataset was collected from a transgenic channel rhodopsin mouse model (Chr2) subjected to light stimulation after traumatic optic nerve crush (ONC) was performed. Mouse models expressing channel rhodopsin were subjected to therapeutic light stimulation promoting ...
ORGANISM(S): Mus musculus (Mouse) 
2022-08-12 | PXD032788 | Pride
Rhythmic light stimulation Quantitative proteome Axon regeneration Optogenetic stimulation 
ProteomicsLC-MS of the VTC Complex BioID from Leishmania tarentolae
Acidocalcisomes are evolutionarily conserved acidic organelles that are rich in cations and inorganic phosphate, primarily polyphosphates. In kinetoplastid parasites, acidocalcisomes and their polyphosphate content are essential for osmoregulation and environmental adaptation during host switching. ...
ORGANISM(S): Leishmania tarentolae 
2026-05-21 | PXD075501 | Pride
Proteome discoverer 2.5 Lc-ms Vtc complex Leishmania tarentolae Vtc binding partners Acidocalcisomes Bioid 
ProteomicsProteome of mouse striatal dopamine synaptosomes purified by fluorescence sorting
Dopamine transmission is a monoaminergic system involved in reward processing and motor control. Volume transmission is thought to be the main mechanism by which monoamines modulate effector transmission though synaptic structures are scarcely described. In the present work we aimed to unravel the c...
ORGANISM(S): Mus musculus (Mouse) 
2022-06-09 | PXD027534 | Pride
Synapse Dopamine Striatum Fass Synaptosome Mouse Proteome 
ProteomicsThe urinary proteome differs with the presence and type of breast cancer
Despite the advancements in screening and treatment, the incidence of breast cancer (BC) and associated mortalityare projected to increase. Therefore, developing a companion diagnostic for BC remains important. To explore the urinary proteome for potential biomarkers for BC.  A total of 130 partic...
ORGANISM(S): Homo sapiens (Human) 
2025-12-15 | PXD061502 | Pride
Proteomic Breast cancer Urine 
ProteomicsLabeling Escherichia coli to saturation with 2.5 % of 15N ammonium in two conditions (aerobic and anaerobic) for benchmarking of protein-based stable isotope probing proteomics (Protein-SIP)
This dataset is part of a study aimed at developing algorithms for the quantification of stable isotope content in microorganisms after labeling them with stable isotope-labeled substrates. For this dataset Escherichia coli cultures were labeled with 2.5 % of 15N-labeled NH4Cl and grown either anaer...
ORGANISM(S): Escherichia coli 
2022-02-16 | PXD024288 | Pride
Nitrogen 15 Stable isotope probing Stable isotope 15n Protein-sip 1d-lc Metaproteomics Lc-ms/ms 
ProteomicsH358 single cell proteomics by SCOPE2 on a TIMSTOF Flex
Single H358 cells analyzed using SCOPE2 on a TIMSTOF Flex mass spectrometer. Bruker .d folders, MGFs, Proteome Discoverer 2.5 and MaxQuant 1.6.17 results are uploaded.
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
MSV000088144 | MassIVE
ProteomicsHOPE-fixation of lung tissue allows retrospective proteome and phosphoproteome studies
Hepes-glutamic acid buffer mediated Organic solvent Protection Effect (HOPE)-fixation has been introduced as an alternative to formalin fixation of clinical samples. Beyond preservation of morphological structures for histology, HOPE-fixation was demonstrated to be compatible with recent methods for...
ORGANISM(S): Homo sapiens (Human) 
2014-05-22 | PXD000836 | Pride
Post-translational modifications Hope-fixation technique Phosphorylation Biobank Proteome Lung tissues Lc-ms/ms 
UnknownLabeled quantitative proteomics dataset of optogenetics induced axon regeneration in mice.
Not available
S-EPMC9167879 | biostudies-literature
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