A5051093624- Cancer Genomics and Diagnostics
- Privacy-Preserving Technologies in Data
- Algorithms and Data Compression
- Genomics and Phylogenetic Studies
- Forensic and Genetic Research
- Spectroscopy and Chemometric Analyses
- Wireless Communication Security Techniques
- Genomic variations and chromosomal abnormalities
- Genetic factors in colorectal cancer
- Molecular Biology Techniques and Applications
- Genomics and Rare Diseases
- Internet Traffic Analysis and Secure E-voting
- Statistical Methods in Clinical Trials
- Pharmacological Effects and Toxicity Studies
- Chaos-based Image/Signal Encryption
- Reproductive Health and Technologies
- Data Mining Algorithms and Applications
- DNA and Biological Computing
- CRISPR and Genetic Engineering
- Genetic Associations and Epidemiology
- Legal Systems and Judicial Processes
- Law, AI, and Intellectual Property
- Astronomy and Astrophysical Research
- Gene expression and cancer classification
- Probability and Risk Models
Broad Institute
2024-2025
Yale University
2024
Indiana University Bloomington
2017-2021
National Institutes of Health
2021
National Cancer Institute
2021
Indiana University
2019
Bilkent University
2017
Simon Fraser University
2016
Successful development and application of precision oncology approaches require robust elucidation the genomic landscape a patient's cancer and, ideally, ability to monitor therapy-induced changes in tumour an inexpensive minimally invasive manner. Thanks recent advances sequencing technologies, 'liquid biopsy', sampling bodily fluids such as blood urine, is considered one most promising achieve this goal. In many patients, especially those with advanced metastatic disease, deep circulating...
Cancer is a complex disease that involves rapidly evolving cells, often forming multiple distinct clones. In order to effectively understand progression of patient-specific tumor, one needs comprehensively sample tumor DNA at time points, ideally obtained through inexpensive and minimally invasive techniques. Current sequencing technologies make the 'liquid biopsy' possible, which sampling patient's blood or urine circulating cell free (cfDNA). A certain percentage this originates from known...
<title>Abstract</title> Background: Polygenic risk scores (PRS) have emerged as a powerful tool in precision medicine, enabling personalized assessments for complex diseases. However, using sensitive genomic data PRS calculations raises concerns about privacy and security. Fully Homomorphic Encryption (FHE) offers promising solution by allowing computations on encrypted data, preserving the of both information models. Methods: In this study, we present novel application FHE secure private...
Abstract The introduction of trusted execution environments (TEEs), such as secure enclaves provided by the Intel SGX technology has enabled and privacy-preserving computation on cloud. stringent resource limitations, memory constraints, required some TEEs necessitates development computational approaches with reduced usage, sketching. One example is SkSES method for GWAS a cohort case control samples from multiple institutions, which identifies most significant SNPs in manner without...
Stellar data, only a few years ago, measured in the .1M of objects. Now, sets are routinely 1M. With launch ESA's Gaia 2013, we expect 1000M stellar objects more precisely and with measurements. Without question, astronomy is about Big Data clustering very common task over domain. The expectation-maximization algorithm among top 10 data mining algorithms used scientific industrial applications, however, observe that astronomical community does not make use it as algorithm. In this work,...
Abstract Background Polygenic risk scores (PRS) have emerged as a powerful tool in precision medicine, enabling personalized assessments for complex diseases. However, using sensitive genomic data PRS calculations raises concerns about privacy and security. Fully Homomorphic Encryption (FHE) offers promising solution by allowing computations on encrypted data, preserving the of both information models. Results In this study, we present novel application FHE secure private CKKS protocol...
Current practices in collaborative genomic data analysis (e.g. PCAWG) necessitate all involved parties to exchange individual patient and perform locally, or use a trusted server for maintaining single site the Cancer Genome Collaboratory). Since both approaches involve sharing sequence - which is typically not feasible due privacy issues, remains be rarity medicine. In order facilitate efficient effective remote computation we introduce SkSES (Sketching algorithms Secure Enclave based...
Without question, astronomy is about Big Data and clustering a very common task over domain. The expectation-maximization algorithm among the top 10 data mining algorithms used in scientific industrial applications, however, we observe that astronomical community does not make use of it as algorithm. In this work, cluster $\sim$ 1M stellar objects (simulated Galactic spectral data) via traditional for (EM-T) our extended EM-T call EM* present experimental results.
Abstract Genotype imputation is an essential tool in genetics research, whereby missing genotypes are inferred based on a panel of reference genomes to enhance the power downstream analyses. Recently, public servers have been developed allow researchers leverage increasingly large-scale and diverse genetic data repositories for imputation. However, privacy concerns associated with uploading one’s third-party server greatly limit utility these services. In this paper, we introduce practical,...
Genomic Privacy:Advocating for the Convergence of Legal and Technical Solutions Can Kockan (bio), Dov Greenbaum Danielle Lee Mark Gerstein (bio) The economy DNA: consumer genomics its risks data collection analysis is an incredibly valuable sector within information economy, yet genomic has never been more pervasive nor publicly accessible. Just this past spring, National Institutes Health's "All Us" program announced that it would make nearly one hundred thousand unique diverse whole genome...