Kyle Ellrott

Latest

• Bridge2AI
• Inverting the model of genomics data sharing with the NHGRI Genomic Data Science Analysis, Visualization, and Informatics Lab-space
• recountmethylation enables flexible analysis of public blood DNA methylation array data
• Exploring integrative analysis using the BioMedical evidence graph
• Neoepiscope improves neoepitope prediction with multivariant phasing
• Reproducible biomedical benchmarking in the cloud: lessons from crowd-sourced data challenges
• Combining accurate tumor genome simulation with crowdsourcing to benchmark somatic structural variant detection
• Germline contamination and leakage in whole genome somatic single nucleotide variant detection
• Multi-center mutation calling in multiple cancers: the MC3 project
• Population-level distribution and putative immunogenicity of cancer neoepitopes
• Scalable open science approach for mutation calling of tumor exomes using multiple genomic pipelines
• TBIO-27. GABRIELLA MILLER KIDS FIRST DATA RESOURCE CENTER ADVANCING GENETIC RESEARCH IN CHILDHOOD CANCER AND STRUCTURAL BIRTH DEFECTS THROUGH LARGE SCALE INTEGRATED DATA-DRIVEN DISCOVERY AND CLOUD-BASED PLATFORMS FOR COLLABORATIVE ANALYSIS
• Valection: design optimization for validation and verification studies
• G2P Whitepaper
• Large-scale uniform analysis of cancer whole genomes in multiple computing environments
• Prophetic Granger Causality to infer gene regulatory networks
• TumorMap: exploring the molecular similarities of cancer samples in an interactive portal
• Reproducible Science: Cancer Researchers Embrace Containers in the Cloud
• Abstract B1-37: A signature catalog to classify tumor mixtures: application to recognition of metastatic disease in prostate cancer
• Abstract PR02: Multiple Pathway Learning accurately predicts gene essentiality in the Cancer Cell Line Encyclopedia
• Combining accurate tumour genome simulation with crowd-sourcing to benchmark somatic variant detection
• Combining tumor genome simulation with crowdsourcing to benchmark somatic single-nucleotide-variant detection
• Global optimization of somatic variant identification in cancer genomes with a global community challenge
• Enabling transparent and collaborative computational analysis of 12 tumor types within The Cancer Genome Atlas
• The cancer genome atlas pan-cancer analysis project
• The UCSC cancer genomics browser: update 2013
• Predicting the impact of mutations in cancer using an integrated pathway approach
• UCSC Cancer Genomics Browser 2.0
• Abstract A39: The UCSC Cancer Genomics Browser
• Expansion of the protein repertoire in newly explored environments: human gut microbiome specific protein families
• TOPSAN: a dynamic web database for structural genomics
• A historical perspective of template-based protein structure prediction
• Improving the performance of protein threading using insertion/deletion frequency arrays
• Improvement in protein sequence-structure alignment using insertion/deletion frequency arrays
• A Generalized Threading Model Using Integer Programming that Allows for Secondary Structure Element Deletion
• PROSPECT-PSPP: an automatic computational pipeline for protein structure prediction
• A computational pipeline for protein structure prediction and analysis at genome scale
• PROSPECT II: protein structure prediction program for genome-scale applications
• Identifying transcription factor binding sites through Markov chain optimization