Priti Kumari
A5011878961- Cancer Genomics and Diagnostics
- Radiomics and Machine Learning in Medical Imaging
- Natural Language Processing Techniques
- Advanced Breast Cancer Therapies
- Genetics, Bioinformatics, and Biomedical Research
- Bioinformatics and Genomic Networks
- Lung Cancer Treatments and Mutations
- Ferroptosis and cancer prognosis
- Biomedical and Engineering Education
- Machine Learning in Healthcare
- Carbohydrate Chemistry and Synthesis
- Epigenetics and DNA Methylation
- Health and Medical Research Impacts
- Cancer Immunotherapy and Biomarkers
- Colorectal Cancer Treatments and Studies
- Genomics and Rare Diseases
- Acute Myeloid Leukemia Research
- Breast Cancer Treatment Studies
- RNA modifications and cancer
- Neuroblastoma Research and Treatments
- Vector-borne infectious diseases
- Genomics and Phylogenetic Studies
- Complex Network Analysis Techniques
- Scientific Computing and Data Management
- Vector-Borne Animal Diseases
Caris Life Sciences (United States)
2023-2025
Dow University of Health Sciences
2025
Hamdard University
2025
Jinnah Postgraduate Medical Center
2025
University of Ulster
2025
Altnagelvin Area Hospital
2025
Liaquat National Hospital
2025
Karachi Medical and Dental College
2025
Dana-Farber Cancer Institute
2016-2024
Banaras Hindu University
2020-2024
The AACR Project GENIE is an international data-sharing consortium focused on generating evidence base for precision cancer medicine by integrating clinical-grade genomic data with clinical outcome tens of thousands patients treated at multiple institutions worldwide. In conjunction the first public release from approximately 19,000 samples, we describe goals, structure, and standards report conclusions high-level analysis initial phase data. We also provide examples utility data, such as...
Abstract International cancer registries make real-world genomic and clinical data available, but their joint analysis remains a challenge. AACR Project GENIE, an international registry collecting from 19 centers, makes >130,000 patients publicly available through the cBioPortal for Cancer Genomics (https://genie.cbioportal.org). For 25,000 patients, additional longitudinal data, including treatment outcome are being collected by GENIE Biopharma Collaborative using PRISSMM curation...
PIWI-interacting RNAs (piRNAs) are thought to silence transposon and gene expression during development. However, the roles of piRNAs in somatic tissues largely unknown. Here we report identification 555 human lung bronchial epithelial (HBE) non-small cell cancer (NSCLC) lines, including 295 that do not exist databases termed as piRNA-like sncRNAs or piRNA-Ls. Distinctive piRNA/piRNA-L patterns observed between HBE NSCLC cells. piRNA-like-163 (piR-L-163), top downregulated piRNA-L cells,...
Cancer classification is foundational for patient care and oncology research. Systems such as International Classification of Diseases Oncology (ICD-O), Systematized Nomenclature Medicine Clinical Terms (SNOMED-CT), National Institute Thesaurus (NCIt) provide large sets cancer terminologies but they lack a dynamic modernized platform that addresses the fast-evolving needs in clinical reporting genomic sequencing results associated research.To meet these needs, we have developed OncoTree, an...
The American Association for Cancer Research (AACR) Project Genomics Evidence Neoplasia Information Exchange (GENIE) is an international pan-cancer registry with the goal to inform cancer research and clinical care worldwide. Founded in late 2015, milestone GENIE 9.1-public release contains data from >110,000 tumors >100,000 people treated at 19 centers United States, Canada, Kingdom, France, Netherlands, Spain. Here, we demonstrate use of these real-world data, harmonized through a...
Babesia microti, a tick-transmitted, intraerythrocytic protozoan parasite circulating mainly among small mammals, is the primary cause of human babesiosis. While most cases are transmitted by Ixodes ticks, disease may also be through blood transfusion and perinatally. A comprehensive analysis genome composition, genetic diversity, gene expression profiling seven B. microti isolates revealed that variation in from Northeast United States almost exclusively associated with genes encoding...
Drosophila melanogaster activates a variety of immune responses against microbial infections. However, information on the response to entomopathogenic nematode infections is currently limited. The Heterorhabditis bacteriophora an insect parasite that forms mutualistic relationship with gram-negative bacteria Photorhabdus luminescens. Following infection, nematodes release quickly multiply within and produce several toxins eventually kill host. Although we know system interacts Photorhabdus,...
Real-world data sets that combine clinical and genomic may be subject to left truncation (when potential study participants are not included because they have already passed the milestone of interest at time recruitment). The lapse between diagnosis molecular testing can present analytic challenges threaten validity interpretation survival analyses.Effects ignoring when estimating overall illustrated using from American Association for Cancer Research (AACR) Project Genomics Evidence...
Widespread, comprehensive sequencing of patient tumors has facilitated the usage precision medicine (PM) drugs to target specific genomic alterations. Therapeutic clinical trials are necessary test new PM advance medicine, however, abundance data coupled with complex trial eligibility made it challenging match patients trials. To facilitate enrollment onto trials, we developed MatchMiner, an open-source platform computationally genomically profiled cancer Here, describe MatchMiner's...
In contrast to recurrence after initial diagnosis of stage I-III breast cancer [recurrent metastatic (rMBC)], de novo (dnMBC) represents a unique setting elucidate drivers in the absence treatment selection. We present genomic landscape dnMBC and association with overall survival (OS).Targeted DNA sequencing (OncoPanel) was prospectively performed on either primary or tumors from 926 patients (212 714 rMBC). Single-nucleotide variants, copy-number variations, tumor mutational burden (TMB)...
In the pursuit of novel therapeutic agents, we present a comprehensive study on design, synthesis, and evaluation diverse library triazole bridged
Abstract Capturing the full complexity of clinical experiences metastatic breast cancer (MBC) patients treated in a variety settings is needed to better understand this disease and develop new treatment modalities. Yet, challenges exist establish share large MBC dataset that integrates genomic, clinical, patient-reported data as it requires collecting information samples from many geographically dispersed institutions. We explored whether patient-partnered research approach uses online...
Background Lymph node staging is a critical component in managing lung cancer, as it determines prognosis and guides treatment decisions. Fluorodeoxyglucose (FDG) positron emission tomography-computed tomography (PET-CT) has emerged highly sensitive specific imaging modality for evaluating nodal involvement, surpassing conventional techniques. Therefore, this study evaluated the diagnostic accuracy of PET-CT lymph using histopathology gold standard. Methodology This cross-sectional was...
Abstract cBioPortal for Cancer Genomics is a widely used platform exploratory, interactive visualization and analysis of large-scale clinico-genomic datasets. provides range visualizations analyses including cohort exploration, OncoPrints, mutation “lollipop” plots, survival analysis, alteration enrichment detailed patient-level visualizations. also integrates variant annotations from variety sources to facilitate interpretation. The public (https://www.cbioportal.org) accessed by...
Abstract Background The apicomplexan parasite Theileria parva causes a livestock disease called East coast fever (ECF), with millions of animals at risk in sub-Saharan and Southern Africa, the geographic distribution T. . Over million bovines die each year ECF, tremendous economic burden to pastoralists endemic countries. Comprehensive, accurate genome annotation can facilitate discovery novel chemotherapeutic targets for treatment, as well elucidate biology parasite. However, remains...
Abstract The cBioPortal for Cancer Genomics provides intuitive visualization and analysis of complex cancer genomics data. public site (http://cbioportal.org/) is accessed by more than 1,500 researchers per day, there are now dozens local instances the software that host private data sets at centers around globe. We have recently released under an open source license, making it free to use modify anybody. detailed documentation available https://github.com/cBioPortal/cbioportal. establishing...
Abstract Patients with non-small cell lung cancer (NSCLC) who have distant metastases a poor prognosis. To determine which genomic factors of the primary tumor are associated metastasis, we analyzed data from 759 patients originally diagnosed stage I–III NSCLC as part AACR Project GENIE Biopharma Collaborative consortium. We found that TP53 mutations were significantly development new metastases. also more prevalent in history smoking, suggesting these may be at increased risk for...
Abstract Background Molecular profiling of cancers is now routine at many cancer centers, and the number precision medicine clinical trials, which are informed by profiling, steadily rising. Additionally, these trials becoming increasingly complex, often having multiple arms genomic eligibility criteria. Currently, it a challenging for physicians to match patients relevant using patient’s profile, can lead missed opportunities. Automated matching against uniformly structured encoded criteria...
Abstract To inform clinical trial design and real-world precision pediatric oncology practice, we classified diagnoses, assessed the landscape of mutations, identified genomic variants matching trials in a large unselected institutional cohort solid tumors patients sequenced at Dana-Farber / Boston Children’s Cancer Blood Disorders Center. Tumors were with OncoPanel, targeted next-generation DNA sequencing panel. Diagnoses according to International Classification Diseases for Oncology...
Abstract The cBioPortal for Cancer Genomics is an open source software platform that enables interactive, exploratory analysis of large-scale cancer genomics data sets. It integrates genomic and clinical data, provides a suite visualization options, including cohort patient-level visualization, mutation survival analysis, alteration enrichment network analysis. user interface user-friendly, responsive, makes easily accessible to scientists clinicians. public site (http://www.cbioportal.org)...
The yield of comprehensive genomic profiling in recruiting patients to molecular-based trials designed for small subgroups has not been fully evaluated. We evaluated the likelihood enrollment a clinical trial that required identification specific change based on our institute-wide tumor profiling.Using from archived tissue samples derived with metastatic breast cancer treated between 2011 and 2017, we assessed impact systematic characterization an ongoing phase II (ClinicalTrials.gov...
Abstract cBioPortal for Cancer Genomics is an open-source platform interactive, exploratory analysis of large-scale clinico-genomic data sets. provides a suite user-friendly visualizations and analyses, including OncoPrints, mutation “lollipop” plots, variant interpretation, group comparison, survival analysis, expression correlation alteration enrichment cohort patient-level visualization. The public site (https://www.cbioportal.org) accessed by >35,000 unique visitors each month...
Prominence of Computer Science (CS) research articles in journals and conferences has been a topic research. Major issues regarding these publications are pros. cons. review process scientometric data which is sub-fields specific. Therefore, we adopt different approach, define metrics based on authors their affiliations study the patterns publications. We consider publication key CS three past five years, during that have stabilized.