Central access point for website portions of genomic research projects from the Ji Research Group including Cancer Genome Atlas Projects, Human Oligo and RNA Sequencing Projects
http://genomeportal.stanford.edu/
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Genome Portal - Ji Research Group - Stanford University | genomeportal.stanford.edu Reviews
https://genomeportal.stanford.edu
Central access point for website portions of genomic research projects from the Ji Research Group including Cancer Genome Atlas Projects, Human Oligo and RNA Sequencing Projects
genomeportal.stanford.edu
Publications - Genome Portal - Ji Research Group - Stanford University
http://genomeportal.stanford.edu/publications.html
Systematic genomic identification of colorectal cancer genes delineating advanced from early clinical stage and metastasis. A Flexible Approach for Highly Multiplexed Candidate Gene Targeted Resequencing. The Human OligoGenome Resource. A Flexible Approach for Highly Multiplexed Candidate Gene Targeted Resequencing. Systematic genomic identification of colorectal cancer genes delineating advanced from early clinical stage and metastasis. The Human OligoGenome Resource. Stanford Genome Tech Center.
About - Genome Portal - Ji Research Group - Stanford University
http://genomeportal.stanford.edu/about.html
Systematic genomic identification of colorectal cancer genes delineating advanced from early clinical stage and metastasis. A Flexible Approach for Highly Multiplexed Candidate Gene Targeted Resequencing. The Human OligoGenome Resource. A Flexible Approach for Highly Multiplexed Candidate Gene Targeted Resequencing. What is Genome Portal? We encourage you to explore our projects! The websites are developed and maintained by members of Ji Research Group, part of Stanford Genome Technology Center.
Cancer Genome Atlas Analysis of Colorectal Cancer - Ji Research Group - Stanford University
http://genomeportal.stanford.edu/tcga-crc
Stanford - Cancer Genome Atlas Analysis of Colorectal Cancer. Systematic identification of colorectal cancer genes delineating clinical stage and metastasis. We compiled multiple genomic data types (mutations, copy number alterations, gene expression and methylation status) as well as clinical meta-data from The Cancer Genome Atlas (TCGA). Our analysis of multiple genomic features identifies a number of colorectal cancer genes associated with advanced clinical stage disease and metastasis.
The Stanford-Cancer Genome Atlas Portal
http://genomeportal.stanford.edu/pan-tcga
The Cancer Genome Atlas Clinical Explorer: An Interface for Identifying Clinical Genomic Driver Associations. What Genes are associated with a Clinical Parameter of your interest? These genes are identified by Elastic-net analysis. Check if Gene/Protein/miR of your interest is associated with Clinical Parameters. Query For Outcome Summary. What Cancer Type are you interested in? HNSC-Head and Neck squamous cell carcinoma. KICH-Chromophobe renal cell carcinoma. KIRC-Kidney renal clear cell carcinoma.
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Ongoing Projects - Ji Research Group, DNA Discovery - Oncology - Stanford University School of Medicine
http://dna-discovery.stanford.edu/projects/ongoing-projects
Ji Research Group –. In The Division of Oncology. Raquo; Personal Cancer Genome Analysis. We are analyzing the cancer genome of individuals with unusual clinical presentations. This group of individuals represents outliers from the typical presentation of cancer and thus represent an opportunity to identify unique genetic characteristics that make their cancers behave different from other individuals with the same cancer. Read More ». Raquo; Identifying the Genetic Cause for Mystery Cancer Families.
Software - Ji Research Group, DNA Discovery - Oncology - Stanford University School of Medicine
http://dna-discovery.stanford.edu/software/mendelims
Ji Research Group –. In The Division of Oncology. Raquo; Ji Research Group. Navigation for This Section:. Personal Cancer Genome Initiative. Personal Cancer Genome Intiative. Pediatrician or pediatric specialist. Dial 911 in the event of a medical emergency. Learn how we are healing patients through science and compassion. Possible psoriasis drug target identified. Learn how we are fueling innovation. Summer and youth programs. Donâ t despair in the face of failure, biochemist tells grads.
Projects - Ji Research Group, DNA Discovery - Oncology - Stanford University School of Medicine
http://dna-discovery.stanford.edu/projects
Ji Research Group –. In The Division of Oncology. To accomplish this goal, our research group is developing accessible, rapid and highly cost-effective methods of "clinical" DNA sequencing" of cancer and human genomes for discovery and diagnostic validation. These approaches have the potentially to accelerate the application of clinical discoveries with diagnostic potential. Our ongoing projects. Primarily genomic sequencing technology development. Investigation of populations of individuals with cancer.
Personal Cancer Genome Initiative - Ji Research Group, DNA Discovery - Oncology - Stanford University School of Medicine
http://dna-discovery.stanford.edu/initiatives/personal-cancer-genome-initiative.html
Ji Research Group –. In The Division of Oncology. Personal Cancer Genome Initiative. Novel DNA Sequencing Technology Development. New Approaches in Computational and Statistical Analysis. Our research program is focused on:. Development of novel approaches for analyzing cancer genomes. Discovery and validation of genetic signatures portending prognosis and therapeutic prediction for individuals with cancer. The genetic analysis of complete cancer genome sequences derived from inherited cancer. How you ca...
Initiatives - Ji Research Group, DNA Discovery - Oncology - Stanford University School of Medicine
http://dna-discovery.stanford.edu/initiatives
Ji Research Group –. In The Division of Oncology. We are pursuing projects focused on personalized medicine. Specifically, we are interested in using genetic and genomic approaches in oncology to improve targeted cancer therapy development, make accurate prognosis, prediction of cancer therapy efficacy and identify clinically relevant cancer mutations. These projects are aimed towards establishing the paradigm for individualized medicine, facilitate the introduction of these approaches into valid...
Software - Ji Research Group, DNA Discovery - Oncology - Stanford University School of Medicine
http://dna-discovery.stanford.edu/software
Ji Research Group –. In The Division of Oncology. A standalone algorithm for ultrasensitive rare single nucleotide variant detection using next-generation sequencing. The RVD program takes BAM files of deep sequencing reads in as input. Using a Beta-Binomial model, the algorithm estimates the error rate at each base position in the reference sequence. User Guide and Downloads ». User Guide and Downloads ». SWAN is the first to introduce a statistically verifiable heterogeneity SV model to the community&#...
OS-Seq - Software - Ji Research Group, DNA Discovery - Oncology - Stanford University School of Medicine
http://dna-discovery.stanford.edu/software/osseq
Ji Research Group –. In The Division of Oncology. OS-Seq primer probe design. Click for larger view). Figure 1: Overview of OS-Seq method. REQUIREMENTS FOR OS-SEQ DESIGN PIPELINE. Raquo; Access to MATLAB on a linux server. Raquo; kmer.txt files for all chromosomes listing properties of all 20mers in the genome. Raquo; os seq design from coordinates v3.1.m. Raquo; coordinates to extract.txt listing the regions of interest. DIRECTIONS FOR RUNNING THE PIPELINE. Bull; At login prompt -. The scripts folder sh...
People - Ji Research Group, DNA Discovery - Oncology - Stanford University School of Medicine
http://dna-discovery.stanford.edu/people
Ji Research Group –. In The Division of Oncology. Director, Ji Research Group. Associate Professor - Division of Oncology, Stanford University School of Medicine, Dept. of Medicine. Senior Associate Director - Stanford Genome Technology Center. Raquo; email [genomics ji]. MD/PhD. Oncological Science. Director of Cancer Genomics, Intermountain Healthcare. Director of Translational Cancer Research in Ji Group / Intermountain Healthcare Cancer Initiative. Raquo; email [lnadauld]. Raquo; email [nandor].
Completed Projects - Ji Research Group, DNA Discovery - Oncology - Stanford University School of Medicine
http://dna-discovery.stanford.edu/projects/completed-projects
Ji Research Group –. In The Division of Oncology. Raquo; Targeted Genomic Circularization for Identifying Genetic Variants. A major focus of our research group has been developing numerous approaches to enable mutation discovery from any given region of the human genome. We were one of the first groups to demonstrate the integration of a novel molecular assay with next generation sequencing technology for the discovery of somatic mutations and germline polymorphisms. Read More ». What impedes the success...
LSA - Software - Ji Research Group, DNA Discovery - Oncology - Stanford University School of Medicine
http://dna-discovery.stanford.edu/software/lsa
Ji Research Group –. In The Division of Oncology. Extended Local Similarity Analysis - Finding Time-Dependent Associations in Time Series Datasets. Click for larger view). The analysis workflow of Local Similarity Analysis (LSA) tools. Users start with raw data (matrices of time series) as input and specify their requirements as parameters. The LSA tools subsequently. Download released standalone source code package at: https:/ bitbucket.org/charade/elsa/get/release.tar.gz. Check the md5sum to ensure int...
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JGI Genome Portal - Home
Skip To Main Content. For additional search capabilities please use GOLD. Without restrictions (superusers only). Export Projects to Excel. Related genome resource and analysis tools are at http:/ jgi.doe.gov/fungi. Related genome resource and analysis tools are at img.jgi.doe.gov. Related genome resource and analysis tools are at http:/ phytozome.jgi.doe.gov. Non-public resource. Access can be restricted. For access information please email to Principal investigator. Group of Fungal Genomes. Visit JGI D...
Main Page - Genomeportal.net
Welcome to openfree BiO network. BiO network is on-line information source for all the areas of biological research, technology, training, and business. Anyone is welcome to contribute to and use the content with maximum freedom. Please visit our sites that are listed in [1]. Some of our sites are:. Welcome to openfree BiO network. BiO network is on-line information source for all the areas of biological research, technology, training, and business. Please visit our sites that are listed in [1].
Genome Portal - Ji Research Group - Stanford University
Systematic genomic identification of colorectal cancer genes delineating advanced from early clinical stage and metastasis. A Flexible Approach for Highly Multiplexed Candidate Gene Targeted Resequencing. The Human OligoGenome Resource. A Flexible Approach for Highly Multiplexed Candidate Gene Targeted Resequencing. Cancer Genome Atlas Projects. The Stanford-Cancer Genome Atlas Portal. Raquo; View Site. Raquo; View Site. A database of capture oligonucleotides for conducting high-throughput targeted reseq...
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Genome Prairie
Annual Reports and Financial Information. Improving Crop Yield and Stress Resilience. The Plant Microbiome project aims to develop breakthrough microbial products that can colonize crop hosts and substantially improve seed germination, yield, and drought-and heat-stress resilience. Application of genomics to innovation in the lentil economy. Canadian Triticum Applied Genomics. Reverse vaccinology approach for the prevention of mycobacterial disease in cattle. Enhancement of canola oil and meal. As the wo...
Genome Prevention
