PXD026942 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Comparison of LFQ and IPTL for protein identification and relative quantification |
Description | Mass spectrometry-based quantitative proteome profiling is most commonly performed by label-free quantification (LFQ), stable isotopic labeling with amino acids in cell culture (SILAC), and reporter-ion based isobaric labeling methods (TMT and iTRAQ). Isobaric peptide termini labeling (IPTL) was described as an alternative to these methods and is based on crosswise labeling of both peptide termini and MS2 quantification. High quantification accuracy was assumed for IPTL because multiple quantification points are obtained per identified MS2 spectrum. A direct comparison of IPTL with other quantification methods has not been performed yet because IPTL commonly requires digestion with endoproteinase Lys-C. To enable tryptic digestion of IPTL samples, a novel labeling for IPTL was developed which combines metabolic labeling (Arg-0/Lys-0 and Arg-d4/Lys-d4, respectively) with crosswise N-terminal dimethylation (d4 and d0, respectively). The comparison of IPTL with LFQ revealed significantly more protein identifications for LFQ above homology ion scores but not above identity ion score. However, the quantification accuracy was superior for LFQ despite the many quantification points obtained with IPTL. A reason for this outcome is probably because of the significantly higher signal intensities in MS1 compared to MS2. |
HostingRepository | PRIDE |
AnnounceDate | 2022-02-17 |
AnnouncementXML | Submission_2022-02-17_04:54:12.535.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Bernd Thiede |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | monohydroxylated residue; acetylated residue |
Instrument | Q Exactive |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2021-06-27 15:30:20 | ID requested | |
⏵ 1 | 2022-02-17 04:54:14 | announced | |
Publication List
Johannsen C, Koehler CJ, Thiede B, Comparison of LFQ and IPTL for Protein Identification and Relative Quantification. Molecules, 26(17):(2021) [pubmed] |
Keyword List
submitter keyword: IPTL, LFQ, quantitative proteomics, SILAC, TMT |
Contact List
Bernd Thiede |
contact affiliation | Department of Biosciences, University of Oslo, Norway |
contact email | bernd.thiede@ibv.uio.no |
lab head | |
Bernd Thiede |
contact affiliation | University of Oslo |
contact email | bernd.thiede@ibv.uio.no |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD026942
- Label: PRIDE project
- Name: Comparison of LFQ and IPTL for protein identification and relative quantification