PXD007873

PXD007873 is an original dataset announced via ProteomeXchange.

Title	TDP-43 in ALS/FTLD studied by a novel aggregate extraction method
Description	Accumulation of abnormally phosphorylated TDP-43 (pTDP-43) is the main pathological finding characterizing affected neurons in most patients with amyotrophic lateral sclerosis (ALS) and frontotemporal lobar degeneration (FTLD). At least four different subtypes of FTLD-TDP have been described, based on the morphology and neuroanatomical distribution of pathological TDP-43 accumulations. To understand the molecular basis of this heterogeneity that correlates with clinical presentations, we developed SarkoSpin, a new method for the biochemical isolation of pathological TDP-43 from complex tissues. Using postmortem samples of 79 patients and controls, we show that SarkoSpin allows the physical separation of pTDP-43 from ~99.8% of total proteins, including the extreme bulk of physiological TDP-43. Pathological TDP-43 extracted from different disease subtypes forms large and buoyant assemblies of distinct densities and 3-dimentional shapes that correlate with specific neuropathological classifications.
HostingRepository	PRIDE
AnnounceDate	2019-12-13
AnnouncementXML	Submission_2019-12-13_07:31:58.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Paul Boersema
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	TripleTOF 5600; Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2017-09-29 05:42:15	ID requested
1	2018-10-10 04:07:38	announced
⏵ 2	2019-12-13 07:32:00	announced	2019-12-13: Updated publication reference for PubMed record(s): 30559480.

Laferri, è, re F, Maniecka Z, P, é, rez-Berlanga M, Hruska-Plochan M, Gilhespy L, Hock EM, Wagner U, Afroz T, Boersema PJ, Barmettler G, Foti SC, Asi YT, Isaacs AM, Al-Amoudi A, Lewis A, Stahlberg H, Ravits J, De Giorgi F, Ichas F, Bezard E, Picotti P, Lashley T, Polymenidou M, TDP-43 extracted from frontotemporal lobar degeneration subject brains displays distinct aggregate assemblies and neurotoxic effects reflecting disease progression rates. Nat Neurosci, 22(1):65-77(2019) [pubmed]

ProteomeXchange project tag: Protein Misfolding and Aggregation (B/D-HPP), Biology/Disease-Driven Human Proteome Project (B/D-HPP), Human Proteome Project

curator keyword: Biological, Biomedical

submitter keyword: TDP-43, ALS, FTLD

Paola Picotti
contact affiliation	ETH Zurich
contact email	paola.picotti@bc.biol.ethz.ch
lab head
Paul Boersema
contact affiliation	ETH Zurich, Inst. of Biochemistry
contact email	paul.boersema@bc.biol.ethz.ch
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/2018/10/PXD007873

PRIDE project URI

• PRIDE
  1. PXD007873
     1. Label: PRIDE project
     2. Name: TDP-43 in ALS/FTLD studied by a novel aggregate extraction method