Dataset Information

Discovery of new cerebrospinal fluid biomarkers for meningitis in children C4PR_LIV

ABSTRACT: Bacterial meningitis is usually fatal without treatment and prompt and accurate diagnosis coupled with the timely administration of parenteral antibiotics, are necessary in order to save lives. The diagnosis can sometimes be delayed whilst samples are analysed in a laboratory using traditional methods of microscopy and antigen testing. The objective of our project is to define specific protein signatures in cerebrospinal fluid associated with Streptococcus pneumoniae infection which could lead to the development of assays or point-of-care devices to improve the speed and accuracy of diagnosis, and guide the clinicians in the treatment and prognosis of children with bacterial meningitis. The associated research paper is in preparation.

INSTRUMENT(S): LTQ Orbitrap Velos

ORGANISM(S): Homo Sapiens (human) Streptococcus Pneumoniae (strain Atcc Baa-255 / R6)

TISSUE(S): Cerebrospinal Fluid

SUBMITTER: Da Qi

LAB HEAD: Rob Beynon

PROVIDER: PXD000764 | Pride | 2014-07-22

REPOSITORIES: Pride

ACCESS DATA

Publications

How to submit MS proteomics data to ProteomeXchange via the PRIDE database.

Ternent Tobias T Csordas Attila A Qi Da D Gómez-Baena Guadalupe G Beynon Robert J RJ Jones Andrew R AR Hermjakob Henning H Vizcaíno Juan Antonio JA

Proteomics 20140821 20

The ProteomeXchange (PX) consortium has been established to standardize and facilitate submission and dissemination of MS-based proteomics data in the public domain. In the consortium, the PRIDE database at the European Bioinformatics Institute, acts as the initial submission point of MS/MS data sets. In this manuscript, we explain step by step the submission process of MS/MS data sets to PX via PRIDE. We describe in detail the two available workflows: 'complete' and 'partial' submissions, toget ...[more]

PMID: 25047258

Similar Datasets

Project description:Meningitis is a complex disease which can be caused by infection with either viral or bacterial pathogens. Viral meningitis is usually a sterile self-limiting disease with a good clinical prognosis, while bacterial meningitis is a potentially more serious disease with a higher mortality rate. Early diagnosis of bacterial meningitis is of paramount importance, as intervention with antimicrobial therapy increases the likelihood of a favourable clinical outcome. Routine diagnosis in many laboratories is still dependent to some degree on traditional methods e.g. culture, though molecular methods have been developed which can give a shorter time to diagnosis. However, there is not as yet a single test format that can detect all bacterial pathogens capable of causing meningitis. In addition, many tests e.g. real-time PCR have a finite limit for multiplexing and do not provide additional information such as strain or serogroup which is useful during outbreaks and for retrospective epidemiological surveillance. To this end we have developed a microarray probe set for detection of meningitis-associated bacterial pathogens including those in the N. meningitidis serogroups. Here we demonstrate utility of this array in specific detection of represented bacterial species and strains and in detection of pathogen signals in cerebrospinal fluid samples from patients with suspected bacterial meningitis. This method shows promise for development as a diagnostic tool; however, we discuss the technical issues encountered and suggest mechanisms to improve resolution of pathogen-specific signals in complex clinical samples. We designed as part of a larger pan-pathogen microarray a sub-set of probes to meningitis-associated bacterial pathogens. We present here data confirming the pathogen-specificity of many of these probes and their potential use in clinical diagnosis through testing on a small number of patient clinical samples using human DNA and no added nucleic acid controls. These data are from single channel Cy3-labelled nucleic acids. Four technical replicates for each feature are included on the array.

Dataset Information

Discovery of new cerebrospinal fluid biomarkers for meningitis in children C4PR_LIV

Publications

How to submit MS proteomics data to ProteomeXchange via the PRIDE database.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure