PXD004910

PXD004910 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Towards an optimized workflow for middle-down proteomics
Description	Detailed description of an optimally tuned workflow for high throughput middle-down proteomics with the currently available state-of-the-art instrumentation. In this work we describe and critically evaluate the limits of an optimized workflow for the detection of middle-range peptides. First, the work compares the yield of desired longer peptides both by enzymatic and acidic digestion protocols. Second, it uses optimized conditions for sample clean-up and multidimensional LC. Third, we fine-tuned critical MS parameters for improving the detection of middle-range peptides where we comprehensively evaluated ETD, HCD and EThcD fragmentation schemes on all the digests obtained in order to choose the best sequencing method for distinct populations of peptides and with special attention paid to longer peptides.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:32:22.837.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Alba Cristobal
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion ETD

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2016-09-10 15:13:26	ID requested
1	2017-03-16 05:09:29	announced
⏵ 2	2024-10-22 04:32:30	announced	2024-10-22: Updated project metadata.

Publication List

10.1021/acs.analchem.6b03756;
Cristobal A, Marino F, Post H, van den Toorn HW, Mohammed S, Heck AJ, Toward an Optimized Workflow for Middle-Down Proteomics. Anal Chem, 89(6):3318-3325(2017) [pubmed]

10.1021/acs.analchem.6b03756;

Cristobal A, Marino F, Post H, van den Toorn HW, Mohammed S, Heck AJ, Toward an Optimized Workflow for Middle-Down Proteomics. Anal Chem, 89(6):3318-3325(2017) [pubmed]

Keyword List

curator keyword: Technical
submitter keyword: human,Middle-down proteomics, Orbitrap Fusion

curator keyword: Technical

submitter keyword: human,Middle-down proteomics, Orbitrap Fusion

Contact List

Albert J.R. Heck
contact affiliation	Biomolecular Mass Spectrometry and Proteomics Bijvoet Center for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences Utrecht University Padualaan 8, 3584 CH Utrecht, The Netherlands
contact email	a.j.r.heck@uu.nl
lab head
Alba Cristobal
contact affiliation	Utrecht University
contact email	a.cristobalgonzalezdedurana@uu.nl
dataset submitter

Full Dataset Link List

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/03/PXD004910
PRIDE project URI

Dataset FTP location
NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/03/PXD004910

PRIDE project URI

Repository Record List

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