PXD004987

PXD004987 is an original dataset announced via ProteomeXchange.

Title	Proteomic characterization of neuromelanin granules isolated from human substantia nigra by laser-microdissection
Description	Neuromelanin is a complex polymer pigment found primarily in the dopaminergic neurons of human substantia nigra. Neuromelanin pigment is stored in granules including a protein matrix and lipid droplets. Neuromelanin granules are yet only partially characterised regarding their structure and function. To clarify the exact function of neuromelanin granules in humans, their enrichment and in-depth characterization from human substantia nigra is necessary. Previously published global proteome studies of neuromelanin granules in human substantia nigra required high tissue amounts. Due to the limited availability of human brain tissue we established a new method based on laser microdissection combined with mass spectrometry for the isolation and analysis of neuromelanin granules. With this method it is possible for the first time to isolate a sufficient amount of neuromelanin granules for global proteomics analysis from ten 10 µm tissue sections. In total 1,000 proteins were identified associated with neuromelanin granules. More than 68% of those proteins were also identified in previously performed studies. Our results confirm and further extend previously described findings, supporting the connection of neuromelanin granules to iron homeostasis and lysosomes, respectively endosomes. Hence, this method is suitable for the donor specific enrichment and proteomic analysis of neuromelanin granules.
HostingRepository	PRIDE
AnnounceDate	2017-01-17
AnnouncementXML	Submission_2017-01-17_07:36:10.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD004987
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Sarah Plum
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	Oxidation; Carbamidomethyl
Instrument	LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2016-09-16 04:59:13	ID requested
1	2016-12-22 03:57:31	announced
⏵ 2	2017-01-17 07:36:12	announced	Updated project metadata.

Plum S, Steinbach S, Attems J, Keers S, Riederer P, Gerlach M, May C, Marcus K, Proteomic characterization of neuromelanin granules isolated from human substantia nigra by laser-microdissection. Sci Rep, 6():37139(2016) [pubmed]

ProteomeXchange project tag: Human Brain Proteome Project (HUPO_HBPP) (B/D-HPP)

curator keyword: Biological

submitter keyword: neuromelanin, laser microdissection, substantia nigra, LC-MS/MS

Prof. Dr. Katrin Marcus
contact affiliation	Medizinisches Proteom-Center, Ruhr-Universität Bochum, ZKF 1.055, Universitätsstraße 150, 44801 Bochum, Germany
contact email	Katrin.Marcus@rub.de
lab head
Sarah Plum
contact affiliation	Medizinisches Proteom-Center, Ruhr-Universität Bochum, Germany
contact email	sarah.plum@rub.de
dataset submitter

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/2016/12/PXD004987

PRIDE project URI

• PRIDE
  1. PXD004987
     1. Label: PRIDE project
     2. Name: Proteomic characterization of neuromelanin granules isolated from human substantia nigra by laser-microdissection