A5022708411- Immunotherapy and Immune Responses
- Lung Cancer Treatments and Mutations
- Genomics and Chromatin Dynamics
- vaccines and immunoinformatics approaches
- Cancer Immunotherapy and Biomarkers
- Plant Molecular Biology Research
- Developmental Biology and Gene Regulation
- SARS-CoV-2 detection and testing
- Lung Cancer Diagnosis and Treatment
- COVID-19 epidemiological studies
- SARS-CoV-2 and COVID-19 Research
- Topic Modeling
- Advanced Manufacturing and Logistics Optimization
- Radiomics and Machine Learning in Medical Imaging
- Assembly Line Balancing Optimization
- Antiplatelet Therapy and Cardiovascular Diseases
- Interstitial Lung Diseases and Idiopathic Pulmonary Fibrosis
- Venous Thromboembolism Diagnosis and Management
- Biomedical Text Mining and Ontologies
- CAR-T cell therapy research
- AI in cancer detection
- Lung Cancer Research Studies
- Animal Genetics and Reproduction
- Cancer Genomics and Diagnostics
- Acute Myocardial Infarction Research
Memorial Sloan Kettering Cancer Center
2022-2024
NYU Langone Health
2018-2023
Institute for Systems Biology
2020-2022
New York University
2020
Effective public response to a pandemic relies upon accurate measurement of the extent and dynamics an outbreak. Viral genome sequencing has emerged as powerful approach link seemingly unrelated cases, large-scale surveillance can inform on critical epidemiological parameters. Here, we report analysis 864 SARS-CoV-2 sequences from cases in New York City metropolitan area during COVID-19 outbreak spring 2020. The majority had no recent travel history or known exposure, genetically linked were...
Significance Functional analysis of noncoding genomic regulatory elements, which harbor the majority common human disease and trait associations, is complicated by their cellular context sensitivity. We developed Big-IN, a method for rewriting large segments mammalian genomes, including full genes surrounding elements. demonstrate flexible verification pipeline to identify correctly engineered cells. expect Big-IN will enable technologies synthesis assembly DNAs catalyze synthetic approach genomics.
Precise Hox gene expression is crucial for embryonic patterning. Intra- transcription factor binding and distal enhancer elements have emerged as the major regulatory modules controlling expression. However, quantifying their relative contributions has remained elusive. Here, we introduce “synthetic reconstitution,” a conceptual framework studying regulation, apply it to HoxA cluster. We synthesized delivered variant rat clusters (130 170 kilobases) an ectopic location in mouse genome. found...
Abstract Effective public response to a pandemic relies upon accurate measurement of the extent and dynamics an outbreak. Viral genome sequencing has emerged as powerful approach link seemingly unrelated cases, large-scale surveillance can inform on critical epidemiological parameters. Here, we report analysis 864 SARS-CoV-2 sequences from cases in New York City metropolitan area during COVID-19 outbreak Spring 2020. The majority had no recent travel history or known exposure, genetically...
<h3>Importance</h3> Brain metastasis (BrM) in gastroesophageal adenocarcinoma (GEA) is a rare and poorly understood phenomenon associated with poor prognosis. <h3>Objectives</h3> To examine the clinical genomic features of patients BrM from GEA evaluate factors survival. <h3>Design, Setting, Participants</h3> In this single-institution retrospective cohort study, 68 diagnosed between January 1, 2008, December 31, 2020, were identified via review billing codes imaging reports electronic...
Abstract Venous thromboembolism (VTE) is a common and impactful complication of cancer. Several clinical prediction rules have been devised to estimate the risk thrombotic event in this patient population, however they are associated with limitations. We aimed develop predictive model cancer-associated VTE using machine learning as means better integrate all available data, improve accuracy allow applicability regardless timing for systemic therapy administration. A retrospective cohort was...
Computer simulation, used in the planning stage of a new AT&T electronic assembly shop, allowed us to uncover and resolve equipment operating policy problems. Concurrent simulation modeling was not simple. Planning involved most factory's engineers, whose responsibilities were segmented specialized; project team had draw together information from many sources. The gained insight into nature product flow throughout shop. It could show how an seemingly isolated area would affect elsewhere....
Abstract Background Tumor mutation burden (TMB) has been associated with melanoma immunotherapy (IT) outcomes, including survival. We explored whether combining TMB immunogenomic signatures recently identified by The Cancer Genome Atlas (TCGA) can refine prognostic models of overall survival (OS) in patients not treated IT. Methods Cox proportional-hazards (Cox PH) analysis was performed on 278 metastatic melanomas from TCGA In a discovery and two validation cohorts PH assessed the...
Abstract Precise Hox gene expression is crucial for embryonic patterning. Intra- transcription factor binding and distal enhancer elements have emerged as the major regulatory modes controlling expression. However, quantifying their relative contributions has remained elusive. Here, we introduce ‘synthetic reconstitution’, a novel conceptual framework studying regulation apply it to HoxA cluster. We synthesized delivered variant rat clusters (130-170 kilobases each) an ectopic location in...
Aims Structured reporting in pathology is not universally adopted and extracting elements essential to research often requires expensive time-intensive manual curation. The accuracy feasibility of using large language models (LLMs) extract elements, for cancer examined here. Methods Retrospective study patients who underwent sampling suspected hepatocellular carcinoma Ytrrium-90 embolisation. Five report interest were included evaluation. LLMs (Generative Pre-trained Transformer (GPT) 3.5...
9584 Background: The high tumor mutation burden (TMB) in melanoma triggers the increased presentation of neoantigens, which are required to elicit an immune response. As a result, TMB has been proposed as potential biomarker immunotherapy treatment (IT). It is highly plausible that immunogenicity also likely play role progression. Thus, we explored whether and neoantigen (NB) impact overall survival (OS), independent IT treatment. Methods: Excluding all patients treated with IT, used 356...
1559 Background: Though smoking is a major risk factor for lung cancer, it has been challenge to collect patients’ history information accurately from the EH due data inconsistency and incompleteness. To address these challenges, we utilized weak supervision methodology automatically annotate status of patients with cancer correlated tumor characteristics. Methods: We analyzed 6,355 who underwent profiling MSK-IMPACT. In total, 14,555 unstructured clinical notes were extracted EHR at...