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Developing protein markers for pregnancy induced hypertension
This is a collaborative research grant funded by the ICMR, Government of India to ICMR-Regional Medical research Centre, NE region, Dibrugarh and to IOB for the
project entitled “Proteomics and biochemical analysis for identification of novel bio-
markers for predicting pregnancy induced hypertension (PIH): In a health and
demographic cohort from Dibrugarh”. IOB will focus on the proteome analysis of urine
samples of pregnant women in different trimesters. The main objective of this project is
to develop protein markers for the early diagnosis of PIH. |
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Genomic analysis of conotruncal heart defects
This is a collaborative research grant funded by the DBT, Government of India to the IOB
and Mazumdar Shaw Medical Centre (MSMC), Narayana Hrudayalaya for the project entitled
“Genetics of syndromic and non-syndromic conotruncal heart defects”. IOB will focus on the
genetic and genomic analysis of patients with the conotruncal heart defects and bioinformatic
analysis. The main objective of this project is to investigate the genetic basis of CTDs
and identify the novel genetic causes in the patients. |
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Generation of CTD disease models to study
the disease molecular mechanisms
This is a collaborative research grant funded by the SERB-CRG, Government of
India to the IOB and Mazumdar Shaw Medical Centre (MSMC), Narayana Hrudayalaya,
Bangalore. IOB will focus on generating in vitro CTD cellular models followed
by downstream proteomics and metabolomics analyses. The main objective of the
project is to study the underlying cellular and molecular mechanisms of the cardiac development. |
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denovo whole genome and transcriptome sequencing of Asian green mussel, Perna viridis
This is a collaborative research grant funded by DBT, Government of India to IOB and ICAR-
Central Marine Fisheries Research Institute (Kochi). It is focusing on denovo whole genome
and transcriptome sequencing of Asian green mussel, Perna viridis, which is a very important
species as an aquaculture species worldwide and widely cultured along the Indian coast contributing
substantially to the Indian economy. This project aims to generate comprehensive genome assembly and
gene annotation for P. viridis using NGS genomics and transcriptomics. This will set up
genetic resources for this mussel, which will be accelerating genetic and biotechnological
applications focusing on mussels. |
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Genome wide scanning of Wuchereria bancrofti populations in India:
elucidating molecular ecology and the genetic impact of Mass Drug Administration (MDA)
This is a collaborative research grant funded by ICMR, Government of India to IOB
aIOB and ICMR-Vector Control Research Centre (Madurai). Vast ecological variations and
the repeated use of the same set of drugs creates immense pressure on the parasites like
Wuchereria bancrofti (Wb) to evolve. This study aims to apply both genomic epidemiology
and genome-wide selection scanning (GWSS) to determine W. bancrofti genetic structure in
India and how the parasite genetics changes with the continuous pressure of Mass Drug Administration
(MDA). This study is the first attempt to generate high throughput genomic data to provide a
profound conclusion on parasite diversity in India and to identify the genetic impact of MDA on W.
bancrofti populations. |
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Development of computational framework for COVID-19 multi-omics data analysis
This project is funded by ICMR, Government of India under call for proposals on
management and analysis of COVID-19 testing data. |
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An integrative genomics & bioinformatics-based biomarker
discovery platform for human diseases
This project is funded by DBT, Government of India. Under the project a central platform is developed
for assisting clinical research using genomic-based biomarker discovery and annotation.
This platform is already available for in-house and external collaborations. |
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Proteomics and Phosphoproteomics by Mass spectrometry
and Flow cytometry in Retinoblastoma
This is a collaborative research grant funded by DBT, Government
of India to IOB and Vision Research Foundation, Shankar Nethralaya
for the project entitled “Programme
support for research on Retinoblastoma”. IOB will focus mainly on the
proteomic and phosphoproteomic aspects using a combination of quantitative
proteomics and
bioinformatics analysis. The main objective of this research is to understand
tumour progression and identify biomarkers in addition to unveiling the phosphosignaling
networks that are deregulated in retinoblastoma, which will help in the early
detection and treatment of these tumours.
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Development of epitope based diagnostic gadget for
detection of Mycobacterium tuberculosis in the Indian population
This project is a joint initiative by IOB and Microtest Innovations
Pvt. Ltd., Bangalore, with financial support from DBT, Government
of India. The first step involves cloning, expression and purification
of sero-reactive antigens of Mycobacterium tuberculosis. This
would be followed by designing and chemical synthesis of peptides
corresponding to these antigens and identifying the immunoreactive
epitopes in the Indian sub-population. Subsequently, a rapid
immunochromatographic assay strip will be developed for quick
identification of sero-positivity against the MTb antigens.
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Quantitative Proteome Analysis of Human Follicular
Fluid in Polycystic Ovary Syndrome
As part of a collaborative research grant provided by DBT, Government of India;
IOB will be working closely with National Institute for Research in Reproductive
Health (ICMR), Mumbai for this proposed research. The main objective is to investigate
the underlying molecular mechanisms and the differentially expressed proteins
in follicular fluid of women with polycystic ovary syndrome (PCOS) that is a
major cause of anovulatory infertility in women. Deep proteomic profiling will
enable the identification of a list of potential biomarkers for timely therapeutic
detection.
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Proteomic Profiling of Squamous Cell Carcinoma of
Esophagus
Identification of proteins associated with Esophageal Squamous Cell Carcinoma
(ESCC) using differential proteomic strategies has been proposed as a joint collaboration
between IOB and Kidwai Memorial Institute of Oncology, Bangalore. The grant was
accorded by DBT, Government of India to facilitate the development of biomarkers
and specific targets that will aid in diagnosis, prognosis and treatment of ESCC.
Integration of transcriptomic data from DNA microarrays and differential proteomic
profiling data using quantitative high resolution mass spectrometry, in addition
to proteomic profiling of serum samples from ESCC patients, will enable the identification,
detection and post-operative management of these cancers.
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Identifying surface marker signature of oral cancer stem cells to develop a
prognosis marker for oral squamous cell carcinoma using peptide-based CSC
detection
Recently, a subset of cancerous cells namely cancer stem cells
(CSC), in Oral Squamous Cell Carcinoma (OSCC), has been implicated
in tumor initiation, metastasis, chemo- and radiation-resistance
and they were identified as candidates for prognostic prediction
and targeted therapy. In an effort to understand the underlying
mechanism and to identify the novel surface marker signatures
of CSCs this proposal was put forth as a collaborative project
between IOB and Rajiv Gandhi Centre for Biotechnology and was
funded by DBT, Government of India. A combination of 4-plex iTRAQ,
Bioplex, FACS and confocal microscopy will be used to characterize
the surface molecules in oral CSCs. Further a detection cocktail
of CSC peptides will serve as a prognostic marker which can later
be used for in vivo detection of metastasis in these cancers
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Salivary transcriptome and proteome for the diagnosis
and prognosis of oral cancer
Saliva provides a non-invasive and accessible source of biomarkers
and an excellent diagnostic tool for predicting the risk of cancer
and other systemic disorders. This collaborative project between
IOB and Mazumdar-Shaw Cancer Center, Narayana Hrudayalaya Foundations,
Bangalore focuses on assaying saliva in different OSCC patients
in an effort to understand the underlying molecular network.
The long term goal of this proposed research is to isolate salivary
biomarkers which may be used for early detection and prognosis
of Oral Squamous Cell carcinoma (OSCC). In addition to the differential
proteomic profiling of saliva, detection of RNA signatures as
a novel clinical approach will be explored for their prognostic
or diagnostic potential.
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DST Fast track grant to Dr. Aditi Chatterjee for
studying the role of miRNA in promoting lung cancer in response
to cigarette smoke
Smoking is the principle cause of lung cancer, accounting for
about 90% of the lung cancer deaths in men and almost 80% in
women. Changes in the expression of miRNAs have been associated
with a wide variety of disease conditions and miRNA based biomarkers
are being developed for identifying and monitoring various cancers.
This is a DST Fast track grant sanctioned to Dr. Aditi Chatterjee,
Faculty Scientist at IOB, to study the role of deregulated miRNA
expression in lung cancer in India, in response to cigarette
smoke. Further, identification of potential target proteins for
these candidate miRNAs, using quantitative proteomic approach
will be carried out to investigate their potential application
in lung cancer therapy.
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Establishment of National Database on Tuberculosis
(TBNet India)
This project originated as a call for proposals from DBT, Government
of India to develop a National Database on Tuberculosis.
Towards this goal, IOB proposed
to develop an integrated web-portal for TBNet India, in a multi-institutional
effort in collaboration with JALMA Institute for Leprosy and other Mycobacterial
Diseases, Agra. IOB will majorly facilitate the integration of this data
by developing a data processing pipeline and a Distributed
Annotation
System (DAS) to enable
community participation and highlight all of India’s tuberculosis
initiatives. In addition to this, a web resource will be developed that
will combine proteomic
data on tuberculosis pathogens, host-pathogen interaction database, and
a pathway resource for tuberculosis.
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Development of cancer researcher database for
India
Sanctioned by DBT, Government of India, the chief objective
of this grant proposal is create a India Cancer Researcher Database
(ICRD) that will provide information regarding scientists, physicians
and researchers who are involved in basic and applied aspects
of cancer research. This database would facilitate collaborations
among researchers and provide a snapshot of ongoing research
initiatives in India. To enable easy entry and management of
this information, a user friendly web-based tool will be developed
to query and browse the Cancer Researcher Database.
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CSIR Senior Research Fellow grant to a Research Scientist,
Babylakshmi Muthusamy
Research Title: "Development of a software suite to annotate
prokaryotes
using mass spectrometry derived data”
This project involves development of a software suite to annotate
prokaryotic genome using mass spectrometry data. This tool helps
in correcting and identifying novel genes from the existing annotation
of species of interest.
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CSIR Senior Research Fellow grant to a Research Scientist, Manoj Kumar Gupta
Research Title: “Proteomic approaches to understand malaria
vector”
The study includes quantitative proteomic profiling of salivary
glands from male and female Anopheles stephensi. This study will
identify differentially expressed proteins by high-resolution
LC-MS/MS mass spectrometry, which will lead to a better understanding
of the role of salivary gland proteins in vector-parasite interactions
and in the transmission of Malaria.
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CSIR Senior Research Fellow grant to a Research Scientist,
Nirujogi Raja Sekhar
Research Title: Identification of dysregulated miRNAs in Esophageal Squamous
Cell Carcinoma
The study includes a global profiling of microRNAs in esophageal squamous cell
carcinoma and identification of the targets of dysregulated microRNAs using quantitative
proteomic approach. A successful outcome of this study will provide a comprehensive
catalog of dysregulated miRNAs and their targets that will enable the identification
of potential mechanisms in ESCC pathogenesis.
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DBT Programme Support
on Neuroproteomics for Proteomic Investigation of Neurological
Disorders
This multi-institutional collaborative research grant is provided by
DBT, Government of India to IOB and NIMHANS to set up the genomic and
proteomic platform to investigate potential biomarkers in neurological
diseases. The state of art proteomic and computational facilities have
been established at IOB from this grant. The major goal of this research
grant is to investigate candidate protein biomarkers for 'chronic meningitis'
and 'neurological stroke' through high-throughput and high-resolution
technologies including DNA microarrays and quantitative proteomics.
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DBT multi-institutional coordinated
research grant: “Establishment of National Database on
Tuberculosis (TB)”
India accounts for about 30% of the global burden of tuberculosis - more
than any other country in the world. The objectives of this research
project include development of a Proteomic and Host-Pathogen Interaction
Database for tuberculosis. We have also developed a central website
for integrating data from ‘TBNET India programme’conceived
by DBT. It will also serve as a binding force for the various arms of
the ‘TBNET India’.
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DBT multi-institutional research grant: “Identification
of genes involved in X-linked mental retardation”
Identification of precise molecular mechanisms involved in X-linked mental
retardation will lead to better classification, diagnosis, prevention
and therapy. This research project aims to identify genes and genetic
mechanisms that may play a role in these disorders using custom designed
microarrays for comparative genomic hybridization.
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DBT research grant “Mouse Protein
Reference Database”
In the last several decades, vast amounts of genetic, genomic and proteomic
data derived from systematic experimentation in mice have become available.
Aim of this project is to develop a Mouse Protein Reference Database
(MPRD) as a comprehensive repository of information pertaining to mouse
proteins including domain architecture, protein functions, protein-protein
interactions, post-translational modifications, enzyme-substrate relationships,
sub-cellular localization and tissue expression. It will also include
a mouse knockout database as well as data on mouse models of human disease.
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DBT Young Investigator grant to a Faculty
Scientist, Dr. Keshava Prasad: “A functional analysis
of Protein Tyrosine Phosphatases in EGF Receptor signal transduction
pathway using a novel Substrate Trapping Mutant strategy”
In this proposal, we investigate the role of tyrosine phosphatases involved
with receptor kinases signaling pathways by using a variety of functional
approaches such as substrate trapping mutants and yeast two hybrid analysis.
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ICMR Senior Research Fellow grant to
a Research Scientist, Manoj Kashyap
Research Title: “mRNA and genome
copy number profiling of esophageal cancers”
Esophageal cancer is the third leading cancer in males and fourth leading
in females in India, but not much is known about the molecular etiology
of the disease. Using DNA microarray technology, we obtain gene expression
profiles in esophageal cancer. Differentially expressed molecules are
being validated using immunohistochemistry and tissue microarrays. These
studies will provide candidate biomarkers for early detection of esophageal
cancers.
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CSIR Senior Research Fellow grant to
a Research Scientist, Harrys Kishore
Research Title: “Functional analysis of Hematopoetic
SH2 domain containing protein 2D (HSH2D) in B cell Receptor
(BCR) Signaling”
Role of HSH2D an SH2 domain containing protein in the BCR pathway. Objective
of this project is to identify substrates of HSH2D in BCR signaling. |
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CSIR Senior Research Fellow grant to
a Research Scientist, Jyoti Sharma
Research Title: “Genome-wide analysis of kinome
and phosphatome of mycobacteria”
The main focus of this study is to tyrosine kinases and phosphatases
in mycobacterial genomes. Results of this analysis will be incorporated
into the Mycobacterium tuberculosis Reference Database. |
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CSIR Senior Research Fellow grant to
a Research Scientist, Rajesh Raju
Research Title: “Analysis and
curation of human receptor mediated apoptosis signaling pathways
and their integration to signaling pathway resource - NetPath”
This project involves analysis and manual curation of pathway reactions
and development of pathway maps for 10 ligand-dependent receptor-mediated
apoptosis signaling pathways. These pathways will be integrated to NetPath. |
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Wellcome Trust DBT Early Career Fellowship
to Dr. Harsha Gowda
Harsha Gowda, a research scientist at IOB has received Wellcome Trust-DBT
Early Career Fellowship for his proposal to carry out studies on "Personalized
therapy of esophageal squamous cell carcinoma by targeting activated
kinases". This fellowship is intended for the most promising young
researchers in India. The study involves phosphoproteomic profiling of
esophageal squamous cell carcinoma to identify aberrantly activated signaling
pathways that could serve as potential targets for therapy. |
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CSIR Senior Research Fellow grant to
a Research Scientist, Sutopa B Dwivedi
Research Title:"Proteomic analysis and genome
annotation of Anopheles stephensi using high resolution
mass spectrometry"
The study includes the proteomic profiling of potential malaria vectors
like Anopheles stephensi, the urban malaria vector of India,
which has not yet been fully identified and explored at the genomic,
transcriptomic and proteomic levels. It will finally lead to identification
of proteins and peptides that would have a significant role to play in
the molecular pathogenesis of the spread of this disease. |
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ICMR Senior Research Fellow grant to
a Research Scientist, Deepthi Telikicherla
Research Title: Breast Cancer Database (BCD): "A
Database of the Genomic, Transcriptomic, Proteomic and Drug-Induced
Molecular Alterations in Breast Cancer"
Breast cancer is a leading cause of morbidity and mortality in women.
Understanding the molecular basis of cancer is essential for enabling
early detection and prognosis of the disease. The Breast Cancer Database
is a unique gene-centric database of molecular alterations at the DNA,
RNA and protein levels in breast cancer including drug-induced alterations
that are reported in published literature. |
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