Sort   by:  
 Page size 
ProteomicsFormic acid and Acetic acid for peptide LC-MS
Despite the general acceptance of formic acid as the additive of choice for peptide reversed-phase LC-MS/MS applications, some still argue that the selection of acetic acid represents a better option. To settle this debate, we investigated both the difference in MS sensitivity and chromatographic be...
ORGANISM(S): Homo Sapiens (human) 
2022-12-10 | PXD029416 | JPOST Repository
ProteomicsConfident identification of citrullination and carbamylation assisted by peptide retention time prediction
We used 2D-LC-MS/MS methods to examine the impact of the biologically important PTM citrullination and its analogue carbamylation on peptide retention. Three first-dimension separation systems were evaluated: high-pH, HILIC and SCX, with the instrument interface separation happening at low-pH RP for...
ORGANISM(S): Bos Taurus (ncbitaxon:9913) Sus Scrofa (ncbitaxon:9823) Gallus Gallus (ncbitaxon:9031) Homo Sapiens (ncbitaxon:9606) Mus Musculus (ncbitaxon:10090) 
MSV000086214 | MassIVE
TranscriptomicsTranscriptomic and proteomic analyses of Clostridium termitidis CT1112 during growth on ?-cellulose, xylan, cellobiose and xylose.
High throughput “omics technologies” such as transcriptomics and proteomics provide insights into the metabolic potential of an organism and have been used to understand the genetic and the central carbon metabolism mechanisms for the production of desired end products in various cellulolytic clostr...
ORGANISM(S): [Clostridium] termitidis CT1112 
2015-05-01 | E-GEOD-66125 | biostudies-arrayexpress
ProteomicsRetention Time Prediction for Glycopeptides in Reversed Phase Chromatography for Glycoproteomic Applications
The Sequence-Specific Retention Calculator algorithm was adapted for the prediction of retention times of N-glycopeptides separated by reversed-phase high performance liquid chromatography (RPLC). Retention time shifts (dHI = HI glyco - HI deglyco, where HI is hydrophobicity index, measured in aceto...
ORGANISM(S): Bos Taurus (ncbitaxon:9913) Homo Sapiens (ncbitaxon:9606) 
2019-08-07 | MSV000084174 | MassIVE
ProteomicsPeptide Retention Time Prediction for Electrostatic Repulsion-Hydrophilic Interaction Chromatography
Electrostatic Repulsion-Hydrophilic Interaction Chromatography (ERLIC) is a legacy separation tools developed by Dr. Andrew Alpert and has been used for developing unique separation methods of hydrophilic compounds, including peptides. We employed a proteomics-derived ~170,000 peptide retention data...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
MSV000095965 | MassIVE
ProteomicsTowards an ultimate solution for peptide retention time prediction: the effect of column temperature on separation selectivity
The effect of the column temperature on the selectivity of reversed-phase peptide separation in standard separation settings applied in bottom-up proteomics has been evaluated. Tryptic digests of A549, MCF7, Jurkat and HCT116 human cells in non-labeled and TMT-labeled formats have been analyzed by 1...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2023-11-22 | MSV000093468 | MassIVE
ProteomicsA multi factor comparison of seven reversed-phase C18 separation media for proteomic applications
This study examines the differences in separation selectivity and carryover characteristics for seven popular C18 columns used in bottom-up proteomics. Identical linear water:acetonitrile gradients (0.48 %ACN per minute) were applied to all separations at 300 nL/min flow rate. Both buffers A (water)...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2024-12-11 | MSV000096640 | MassIVE
ProteomicstimsTOF Pro datasets for CCS prediction with Mascot-Percolator.
Tryptic digested E. coli dataset fractionated by SCX stagetip and applied to test the CCS prediction model. The Peaklist from the MS/MS spectra as mascot generic format (MGF) was created by compass DataAnalysis 5.2.216.271.5315. Protein and peptides were identified by by Mascot-Percolator.
ORGANISM(S): Escherichia Coli 
2021-09-06 | PXD026087 | JPOST Repository
ProteomicstimsTOF Pro datasets for CCS prediction
Tryptic digested E. coli dataset fractionated by SCX stagetip and applied to test the CCS prediction model.
ORGANISM(S): Escherichia Coli 
2021-09-06 | PXD022800 | JPOST Repository
ProteomicstimsTOF Pro datasets for CCS prediction
The contribution of peptide amino-acid sequence to collision cross-section values (CCS) has been investigated using a dataset of ~134,000 peptides of four different charge states (1+ to 4+). The migration data collection was acquired using a two-dimensional LC/trapped ion mobility spectrometry/quadr...
ORGANISM(S): Homo Sapiens (human) 
2021-09-06 | PXD021440 | JPOST Repository
Sort   by:  
 Page size