PXD001960

PXD001960 is an original dataset announced via ProteomeXchange.

Title	Epigenetics and Proteomics join Transcriptomics on the quest towards TB Biomarkers
Description	Even though recent reports estimate a reduction in the spread and contraction of Tuberculosis (TB), 30 % of the world population are currently being latently infected by Mycobacterium tuberculosis (Mtb). This latent infection can at any time develop into active disease. Biomarkers to monitor this process as well as biomarkers for disease susceptibility and TB diagnosis is urgently needed in order to facilitate a more drastic decrease in the spread of Mtb and better care for TB patients. Our understanding of biology combined with evolving technical advances in high-throughput techniques, led us to investigate the possibility of additional role players (epigenetics and proteomics) in the quest to (a) understand the biology of TB host response and (b) search for biomarkers in TB diagnostics and –susceptibility. We engaged in a pilot study, using a relatively small sample set to interrogate the DNA methylome, transcriptome and proteome in monocytes and granulocytes of TB patients and healthy latently infected participants. The observations in this study provide a first glimpse at the level- and sources of diversity in the epigenome and proteome amongst TB patients and latently infected controls despite limitations due to small sample size. Functionally the differences between the disease phenotypes observed in the different platforms were congruent and suggest regulation of function not only at the transcriptional level, but also by DNA methylation and microRNA. We conclude that the current data support the notion to develop a large scale study of especially the DNA methylome while care should be taken in the study design to account for variation based on gender, age and cell type.
HostingRepository	PRIDE
AnnounceDate	2015-08-26
AnnouncementXML	Submission_2015-08-26_04:22:34.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Etienne Caron
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2015-03-24 06:55:21	ID requested
⏵ 1	2015-08-26 04:22:35	announced

Dataset with its publication pending

curator keyword: Biomedical

submitter keyword: Epigenetics, transcriptomics, proteomics, tuberculosis, biomarkers

Ruedi Aebersold
contact affiliation	ETH Zurich Institute of Molecular Systems Biology Switzerland
contact email	aebersold@imsb.biol.ethz.ch
lab head
Etienne Caron
contact affiliation	ETH Zurich
contact email	caron@imsb.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/2015/08/PXD001960

PRIDE project URI

• PRIDE
  1. PXD001960
     1. Label: PRIDE project
     2. Name: Epigenetics and Proteomics join Transcriptomics on the quest towards TB Biomarkers