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ProteomicsCharacterization of human sperm protamine proteoforms through a combination of top-down and bottom-up mass spectrometry approaches
Protamine 1 (P1) and protamine 2 family (P2) are the most abundant nuclear basic spermspecific proteins, packing 85-95% of the paternal DNA. P1 is synthesized as a mature form, whereas P2 components (HP2, HP3 and HP4) arise from the proteolysis of the precursor (pre-P2). Due to the particular protam...
ORGANISM(S): Homo sapiens (Human) 
2019-11-11 | PXD014618 | Pride
Protamines  sperm  post-translational modifications  phosphorylation  nonannotated proteins  male infertility. Top-down proteomics  bottom-up proteomics  proteoforms  electron transfer dissociation 
ProteomicsProteoCombiner: integrating bottom-up with top-down proteomics data for improved proteoform assessment
Here we present a high-performance software for proteome analysis that combines different mass spectrometric approaches, such as, top-down for intact protein analyses and both bottom-up and middle-down, for proteolytic fragment characterization.
ORGANISM(S): Escherichia coli 
2020-11-02 | PXD017618 | Pride
Bottom-up Bioinformatics Top-down 
ProteomicsIntegrated bottom-up and top-down proteomics of patient-derived breast tumor xenografts

Ntai, I., LeDuc, R.D., Fellers, R.T., et al., (2015) Molecular and Cellular Proteomics, Manuscript M114.047480

Bottom-up proteomics relies on the use of proteases and is the method ...

ORGANISM(S): Homo Sapiens (ncbitaxon:9606) Mus Musculus (ncbitaxon:10090) 
2019-08-28 | MSV000084247 | MassIVE
ProteomicsStructural aspects of FOXO4 binding to DAF16 investigated with FPOP using both bottom-up and top-down MS.
A combination of covalent labelling techniques and mass spectrometry (MS) is currently a progressive approach for the de-riving insights relating to the mapping of protein surfaces or protein-ligand interactions. In this study, we mapped an interac-tion interface between DNA binding domain (DBD) of ...
ORGANISM(S): Homo sapiens (Human) 
2022-02-14 | PXD027624 | Pride
Bottom-up proteomics Dna Transcription factors Protein Foxo4 Fast photochemical oxidation of proteins Top-dow proteomics 
ProteomicsSulfolobus islandicus top-down LC-MSMS
Protein posttranslational methylation and acetylations have been reported to occur in archaea, including members of the genus Sulfolobus, but have not been characterized on a proteome-wide scale. Sulfolobus chromatin proteins are known to be methylated and acetylated on lysine side chains, resemblin...
ORGANISM(S): Sulfolobus islandicus LAL14/1 
2016-09-13 | PXD003074 | Pride
Archaea Top-down Lc-msms Orbitrap fusion 
ProteomicsTop-down detection of oxidative protein footprinting by Collision-Induced Dissociation, Electron-Transfer Dissociation and Electron-Capture Dissociation
Fast photochemical oxidation of proteins (FPOP) footprinting is a structural mass spectrometry method that maps proteins by fast and irreversible chemical reactions. The position of oxidative modification reflects solvent accessibility and site reactivity and thus provides information about protein ...
ORGANISM(S): Bos taurus (Bovine) Equus caballus (Horse) 
2023-07-20 | PXD031926 | Pride
Electron-transfer dissociation Fast photochemical oxidation of proteins Top-down Collision-induced dissociation Mass spectrometry. Electron-capture dissociation 
ProteomicsTop-Down and Bottom-Up Proteomics Strategies for Characterization of Brazilian Pampa Snake, Bothrops pubescens, venom.
The genus Bothrops is responsible for most part of envenomation accidents in Brazil. Bothrops pubescens is an endemic and neglected species in the Brazilian Pampa Biome. The characterization of its venom is essential since there is no data about it and can be helpful in the discovery of active biomo...
ORGANISM(S): Bothrops pubescens 
2024-01-26 | PXD027650 | Pride
Bothrops Snake Proteome 
UnknownIntegrated Bottom-Up and Top-Down Proteomics of Patient-Derived Breast Tumor Xenografts.
Not available
S-EPMC4762530 | biostudies-literature
ProteomicsSulfolobus islandicus PTM and quantitative study using bottom-up proteomics
Protein posttranslational methylation and acetylation have been reported to occur in archaea, including the genus Sulfolobus, but have never been characterized on a proteome-wide scale. Among important Sulfolobus proteins carrying such modifications are the chromatin proteins that have been describe...
ORGANISM(S): Sulfolobus islandicus LAL14/1 Escherichia coli 
2016-09-13 | PXD004179 | Pride
Methylation Archaea Sulfolobus islandicus Label-free quantitation Orbitrap fusion Posttranslational modification 
UnknownReconciling Assumptions in Bottom-Up and Top-Down Approaches for Estimating Aerosol Emission Rates From Wildland Fires Using Observations From FIREX-AQ.
Not available
S-EPMC9286562 | biostudies-literature
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