A5011813928- Macrophage Migration Inhibitory Factor
- Advanced Proteomics Techniques and Applications
- Cancer-related Molecular Pathways
- Protein Tyrosine Phosphatases
- RNA modifications and cancer
- Bioinformatics and Genomic Networks
- Lung Cancer Treatments and Mutations
- Curcumin's Biomedical Applications
- HER2/EGFR in Cancer Research
- Peptidase Inhibition and Analysis
- Skin Protection and Aging
- Cancer-related gene regulation
- Metabolomics and Mass Spectrometry Studies
- Calpain Protease Function and Regulation
- Oral Health Pathology and Treatment
- Esophageal Cancer Research and Treatment
- Machine Learning in Bioinformatics
- Protein Kinase Regulation and GTPase Signaling
- Head and Neck Cancer Studies
- RNA Research and Splicing
- Cholangiocarcinoma and Gallbladder Cancer Studies
- Cell death mechanisms and regulation
- MicroRNA in disease regulation
- Air Quality and Health Impacts
- Indoor Air Quality and Microbial Exposure
Institute of Bioinformatics
2013-2024
Manipal Academy of Higher Education
2011-2024
Amrita Vishwa Vidyapeetham
2012-2018
Science & Technology Park (Czechia)
2014-2015
Kuvempu University
2011
Johns Hopkins University
2011
Savitribai Phule Pune University
2011
Pondicherry University
2011
Abstract We have developed NetPath as a resource of curated human signaling pathways. As an initial step, provides detailed maps number immune pathways, which include approximately 1,600 reactions annotated from the literature and more than 2,800 instances transcriptionally regulated genes - all linked to over 5,500 published articles. anticipate become consolidated for pathways that should enable systems biology approaches.
Plasma Proteome Database (PPD; http://www.plasmaproteomedatabase.org/) was initially described in the year 2005 as a part of Human Organization's (HUPO's) pilot initiative on Project. Since then, improvements proteomic technologies and increased throughput have led to identification large number novel plasma proteins. To keep up with this increase data, we significantly enriched information PPD. This database currently contains 10 546 proteins detected serum/plasma which 3784 been reported...
The study of the human urinary proteome has potential to offer significant insights into normal physiology as well disease pathology. information obtained from such studies could be applied diagnosis various diseases. high sensitivity, resolution, and mass accuracy latest generation spectrometers provides an opportunity accurately catalog proteins present in urine, including those at low levels. To this end, we carried out a comprehensive analysis healthy individuals using high-resolution...
Accurate annotation of protein-coding genes is one the primary tasks upon completion whole genome sequencing any organism. In this study, we used an integrated transcriptomic and proteomic strategy to validate improve existing zebrafish annotation. We undertook high-resolution mass-spectrometry-based profiling 10 adult organs, fish body, two developmental stages (SAT line), in addition six organs. More than 7,000 proteins were identified from analyses, ∼69,000 high-confidence transcripts...
Abstract Bile serves diverse functions from metabolism to transport. In addition acids and salts, bile is composed of proteins secreted or shed by the hepatobiliary system. Although there have been previous efforts catalog biliary proteins, an in‐depth analysis proteome has not yet reported. We carried out fractionation non‐cancerous samples using a multipronged approach (SDS‐PAGE, SCX OFFGEL) followed MS on LTQ‐Orbitrap Velos mass spectrometer high resolution at both MS/MS levels....
Receptor activator of nuclear factor-kappa B ligand (RANKL) is a member tumor necrosis factor (TNF) superfamily that plays key role in the regulation differentiation, activation and survival osteoclasts also cell migration bone metastasis. Osteoclast induced by RANKL regulates hematopoietic stem mobilization as part homeostasis host defense mechanisms thereby linking hematopoiesis with remodeling. Binding to its receptor, (RANK) activates molecules such NF-kappa B, mitogen activated protein...
Despite advances in clinical management, 5-year survival rate patients with late-stage head and neck squamous cell carcinoma (HNSCC) has not improved significantly over the past decade. Targeted therapies have emerged as one of most promising approaches to treat several malignancies. Though tyrosine phosphorylation accounts for a minority total phosphorylation, it is critical activation signaling pathways plays significant role driving cancers. To identify activated kinase HNSCC, we compared...
Carcinogenic effect of tobacco in oral cancer is through chewing and/or smoking. Significant differences exist development between users and non-users. However, molecular alterations induced by different forms are yet to be fully elucidated. We developed cellular models chronic exposure cigarette smoke using immortalized keratinocytes. Chronic resulted increased cell scattering invasiveness miRNA sequencing Illumina HiSeq 2500 the identification 10 significantly dysregulated miRNAs (4 fold;...
Dysregulation of protein expression is associated with most diseases including cancer. MS‐based proteomic analysis widely employed as a tool to study dysregulation in cancers. Proteins that are differentially expressed head and neck squamous cell carcinoma (HNSCC) lines compared the normal oral line could serve biomarkers for patient stratification. To understand complexity HNSCC, we carried out iTRAQ‐based MS on panel HNSCC addition keratinocyte line. LC‐MS/MS total proteome led...
Poor prognosis in gallbladder cancer is due to late presentation of the disease, lack reliable biomarkers for early diagnosis and limited targeted therapies. Early diagnostic markers novel therapeutic targets can significantly improve clinical management cancer. Proteomic analysis four cell lines based on invasive property (non-invasive highly invasive) was carried out using isobaric tags relative absolute quantitation labeling-based quantitative proteomic approach. The expression macrophage...
Chewing tobacco is a common practice in certain socio-economic sections of southern Asia, particularly the Indian subcontinent and has been well associated with head neck squamous cell carcinoma. The molecular mechanisms chewing which leads to malignancy remains unclear. In large majority studies, short-term exposure evaluated. From biological perspective, however, long-term (chronic) mimics pathogenesis oral cancer more closely. We developed line model investigate chronic effects tobacco....
ABSRTRACTSignaling plays an important role in regulating all cellular pathways. Altered signaling is one of the hallmarks cancers. Phosphoproteomics enables interrogation kinase mediated pathways biological systems. In cancers, this approach can be utilized to identify aberrantly activated that potentially drive proliferation and tumorigenesis. To alterations head neck squamous cell carcinoma (HNSCC), we carried out proteomic phosphoproteomic analysis HNSCC lines using a combination tandem...
Skin acts as a protective barrier against direct contact with pollutants but inhalation and systemic exposure have indirect effect on keratinocytes. Exposure to diesel exhaust has been linked increased oxidative stress.To investigate global proteomic alterations in particulate extract (DPE)/its vapor exposed skin keratinocytes.We employed Tandem Mass Tag (TMT)-based proteomics study of DPE/DPE primary observed an expression stress response protein NRF2, upon chronic keratinocytes DPE/its...
Epidemiological data clearly establishes cigarette smoking as one of the major cause for lung cancer worldwide. Recently, targeted therapy has become most preferred modes treatment cancer. Though certain therapies such anti-EGFR are in clinical practice, they have shown limited success patients who smokers. This demands discovery alternative drug targets through systematic investigation smoke-induced signaling mechanisms. To study events activated response to smoke, we carried out...
Tobacco in its smoke and smokeless form are major risk factors for esophageal squamous cell carcinoma (ESCC). However, molecular alterations associated with tobacco exposure poorly understood. In the Indian subcontinent, is predominantly consumed chewing form. An understanding of vital identifying markers potential targets. We developed an vitro cellular model by exposing non-transformed epithelial cells to over eight-month period. Chronic led increase proliferation, invasive ability...
We previously developed NetPath as a resource for comprehensive manually curated signal transduction pathways. The pathways in contain large number of molecules and reactions which can sometimes be difficult to visualize or interpret given their complexity. To overcome this potential limitation, we have set more stringent curation inclusion criteria pathway generate high-confidence signaling maps. NetSlim is new that contains 'core' subset each easy visualization manipulation. are freely...
TNF-related weak inducer of apoptosis (TWEAK) is a new member the TNF superfamily. It signals through TNFRSF12A, commonly known as Fn14. The TWEAK-Fn14 interaction regulates cellular activities including proliferation, migration, differentiation, apoptosis, angiogenesis, tissue remodeling and inflammation. Although TWEAK has been reported to be associated with autoimmune diseases, cancers, stroke, kidney-related disorders, downstream molecular events signaling are yet not available in any...
Cigarette smoking has been associated with multiple negative effects on human skin. Long-term physiological of cigarette smoke are through chronic and not acute exposure. Molecular alterations due to exposure remain unclear. Primary skin keratinocytes chronically exposed condensate (CSC) showed a decreased wound-healing capacity an increased expression NRF2 MMP9. Using quantitative proteomics, we identified 4728 proteins, which 105 proteins were overexpressed (≥2-fold) 41 downregulated...
Leptin, a peptide hormone, regulates endocrine function and maintains body weight homeostasis by regulating food intake energy expenditure via hypothalamus-mediated effects. Impairment in leptin signaling induces obesity, major health problem worldwide. Leptin other physiological processes such as angiogenesis, hematopoiesis also has effects on the reproductive, cardiovascular immune systems. Despite its biomedical importance, comprehensive catalog of events activated is not available public...
Curcumin, derived from the rhizome Curcuma longa, is a natural anti-cancer agent and has been shown to inhibit proliferation survival of tumor cells. Although effects curcumin are well established, detailed understanding signaling pathways altered by still lacking. In this study, we carried out SILAC-based quantitative proteomic analysis HNSCC cell line (CAL 27) investigate tyrosine in response curcumin.Using high resolution Orbitrap Fusion Tribrid Fourier transform mass spectrometer,...
Chronic exposure to arsenic is associated with dermatological and nondermatological disorders. Consumption of arsenic‐contaminated drinking water results in accumulation liver, spleen, kidneys, lungs, gastrointestinal tract. Although cleared from these sites, a substantial amount residual left keratin‐rich tissues including skin. Epidemiological studies suggest the association skin cancer upon exposure, however, mechanism arsenic‐induced carcinogenesis not completely understood. We developed...