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ProteomicsE. coli Proteoform Families and G-PTM-D Database Expansion
E. coli (KL334) lysate data of a) intact-mass proteomics using NeuCode-labeled SILAC across 3 biological replicates, 10 molecular weight fractions, and 2 technical replicates, for elucidating proteoform families; b) bottom-up proteomics using label-free culture across 10 molecular weight fractions a...
ORGANISM(S): Escherichia Coli (ncbitaxon:562) 
2017-06-06 | MSV000081144 | MassIVE
ProteomicsConstructing Human Proteoform Families Using Intact-Mass and Top-Down Proteomics with a Multi-Protease G-PTM-D Database
This data set contains the following: 1) 66 raw files for NeuCode-labeled human proteoforms from the Jurkat cell line analyzed via "intact-mass" (i.e., LC-MS, with no precursor fragmentation). Three biological replicates were performed (files from the different replicates are labeled with 022317, 0...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2019-05-13 | MSV000083768 | MassIVE
ProteomicsThe resistance response of Klebsiella pneumoniae against the antimicrobial peptide PaDBS1R1
Klebsiella pneumoniae is an antibiotic-resistant bacteria associated with severe infections, which has led to the search for new antimicrobial drugs to face these infections. Antimicrobial peptides (AMPs) are antimicrobials that exert anti-K. pneumoniae activity. Consequently, AMPs have been explore...
ORGANISM(S): Klebsiella pneumoniae 
2024-01-26 | PXD033020 | Pride
Normalyzerde Metamorpheus Mplex G-ptm-d Proteomics Mass spectrometry 
UnknownGlobal Post-Translational Modification Discovery.
Not available
S-EPMC5387672 | biostudies-literature
UnknownAplysia allatotropin-related peptide and its newly identified d-amino acid-containing epimer both activate a receptor and a neuronal target.
Not available
S-EPMC6204918 | biostudies-literature
UnknownSystematic Analysis of the Lysine Crotonylome and Multiple Posttranslational Modification Analysis (Acetylation, Succinylation, and Crotonylation) in Candida albicans.
Not available
S-EPMC7842366 | biostudies-literature
UnknownA Hybrid Spectral Library and Protein Sequence Database Search Strategy for Bottom-Up and Top-Down Proteomic Data Analysis.
Not available
S-EPMC9869658 | biostudies-literature
ProteomicsAPEX2 and TurboID Define Unique Subcellular Proteomes
Proximity labeling has emerged as a prominent, reliable tool for obtaining local proteomes from a wide range of cell-types. Two major classes of labeling reagents, peroxidase based (APEX family), or biotin-ligase based (BioID family) have been developed in parallel. These two approaches are often us...
ORGANISM(S): Homo sapiens (Human) 
2025-12-15 | PXD068036 | Pride
Proteomics Apex Cellular compartments Turboid Proximity labeling 
ProteomicsComparison of matched formalin-fixed paraffin embedded and fresh frozen tissue reveals bias in proteomic profiles
Tissue biopsies are most commonly archived in a paraffin block following tissue fixation with formaldehyde (FFPE) or as fresh frozen tissue (FFT). While both methods preserve biological samples, little is known about how they affect the quantifiable proteome. We performed a ‘bottom-up’ proteomic ana...
ORGANISM(S): Homo sapiens (Human) 
2024-02-12 | PXD032108 | Pride
Fresh frozen Cancer Tissue Ffpe 
UnknownRNA-Seq Reveals That Multiple Pathways Are Involved in Tuber Expansion in Tiger Nuts (Cyperus esculentus L.).
Not available
S-EPMC11121407 | biostudies-literature
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