1. What is GCPDB?
Gastric Cancer Proteomics DataBase
(GCPDB) is resource of manually curated data on differentially expressed
proteins identified through mass spectrometry experiments for
identifying biomarkers for gastric cancers. Data is carefully curated
from publicly available research articles related to gastric cancer. It
includes data for over 6900 proteins in different clinical samples.
These events have been carefully analysed to understand important
functional aspects of gastric cancers. To employ these markers into
their clinical utility, explicit protein panels have been created using
gastric cancer biomarker index analysis. The database also holds a demo
repository of tryptic proteotypic peptides of the these proteins which
can be used in a targeted proteomics experiment.
2. Why GCPDB?
Gastric cancer is a global health concern, mainly because of late
diagnosis and poor prognosis. Discovery of protein biomarkers for
diagnosing, predicting the prognosis and for therapeutic usage in
gastric cancers is on the rise, especially with the discovery of
high-throughput mass spectrometry. Due to the size and complexity of
such data, markers are largely scattered and are not compiled from the
current literature. Therefore, we compiled all altered proteins involved
in gastric cancer manifestation which can be a one-point-resource for
proteomics researchers working on gastric cancer. Also, the usage of
such proposed markers in a targeted proteomics assay is desirable to
develop molecular diagnostics for gastric cancer detection and
management. We have therefore included explicit protein panels and a
demo resource of tryptic proteotypic peptides which can be used in a
targeted proteomics experiment. This is a one-of-its-kind database with
utility in clinical mass spectrometry of gastric cancer management.
3. How to search the data?
We provide a user-friendly Browse, Batch Query, and Proteotypic Peptide
options for fetching data from GCPDB. Data can be retrieved from Browse
interface through searching the protein identifier in all the tabs.
Information of functional analysis of proteins included in GCPDB and
explicit proteins panels suitable for developing targeted proteomics
assays can be accessed through corresponding portals. Additionally users
can also access functional analysis module to perform functional
analysis using their own list of proteins.
4. How to download the GCPDB data?
The data resulting from browse/batch query, functional analysis, protein
panels, biomarker index and proteotypic peptide browsing can be
downloaded from the result page. Complete curation data can be
downloaded
here.
5. How to cite GCPDB?
Please cite the following article
"Ramesh, P. et al., 2024".