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Bioinformatics
12/13/2017 - PLEASE NOTE: This workshop is a BYOC ( Bring Your Own LapTop Computer ) class, and requires installation of Partek Genomics Suite on your laptop ahead of the workshop. Government issued or personal computers are permitted. Read More...
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Bioinformatics
04/10/2025 - This one hour online training introduces participants to the tools and techniques for analyzing and quantifying microscopy images using MATLAB’s low-code algorithms. Participants will learn how to preprocess images, segment regions Read More...
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Bioinformatics
By using the metacharacter asterisk "*" we can run feature counts on all the HBR and UHR samples in one command line. featureCounts -a refs/ERCC92.gtf -g gene_name -o counts.txt bam/ Read More...
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Bioinformatics
By using the metacharacter asterisk "*" we can run feature counts on all the HBR and UHR samples in one command line. featureCounts -a refs/ERCC92.gtf -g gene_name -o counts.txt bam/ Read More...
Web Page
Bioinformatics
By using the metacharacter asterisk "*" we can run feature counts on all the HBR and UHR samples in one command line. featureCounts -a refs/ERCC92.gtf -g gene_name -o counts.txt bam/ Read More...
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Bioinformatics
11/07/2024 - In the era of renewed space exploration, understanding female health risks during spaceflight is essential. This talk focuses on leveraging NIAID's ImmPort and NASA's GeneLab data using computational and systems biology to Read More...
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Bioinformatics
Mostly Computational intensive task requiring signigicant computer hardware. Quality Control Sample quality and consistency Is Trimming appropriate - quality/adaptors Alignment/Mapping Reference Target (Sequence and annotation) Alignment Program Alignment Parameters Mark Duplicates Post-Alignment Quality Read More...
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Bioinformatics
06/15/2020 - Participants will learn about data loading, quality control, statistical analysis as well as biological contextualization of miRNA microarray data.
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Bioinformatics
10/02/2012 - Microarray Technology and Preprocessing Quality Control Normalization Using MAS5 and RMA Filtering Batch Effect Correction Basic Statistical Tests for Differentially Expressed Genes T-test ANOVA SAM Calculating False Discovery Rate Principal Components Analysis and Clustering Read More...
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Bioinformatics
Ingenuity Pathway Analysis (IPA) (Qiagen) IPA works with differential expression data (derived from RNA sequencing, miRNA sequencing, microarray, proteomics, phosphoproteomics, or metabolomics) or genetic variant data to extract various biological insights. {{Sdet}}{{Ssum}}Listing of Read More...
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Bioinformatics
The diagram below shows a basic workflow for RNA sequencing analysis, which starts with FASTQ files as input. Quality check is performed on the FASTQ files ensure that sequencing quality is good and that there Read More...
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Bioinformatics
The diagram below shows a basic workflow for RNA sequencing analysis, which starts with FASTQ files as input. Quality check is performed on the FASTQ files ensure that sequencing quality is good and that there Read More...
Bethesda, MD
Core Facility
The CCR Genomics Core is located in Building 41 on the NIH Bethesda campus. The primary goal of the Core is to provide investigators from CCR/NCI and other NIH Institutes access to genomic technologies and Read More...
Frederick, MD
Core Facility
The Genomics Technology Laboratory is an integrated, high-throughput molecular biology laboratory focusing on the development of genetics and genomics technologies, data analysis, and information management tools, in support of CCR Investigators. The laboratory develops integrated Read More...
Web Page
Bioinformatics
RNA-Seq (RNA sequencing), uses next-generation sequencing (NGS) to reveal the presence and quantity of RNA in a biological sample at a given moment. (Wikipedia) Strictly speaking this could be any type of RNA (mRNA, rRNA, Read More...
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Bioinformatics
Getting the data Unpacking the data QA/QC with FASTQC and MULTIQC Adapter trimming Alignment Getting a Reference Genome Genome Indexing Spliced reads Non-spliced reads No Reference Genome? Working with a Transcriptome (non-model organisms) Pseudo-alignment ( Read More...
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Bioinformatics
Pathway Analysis IPA (Qiagen - CCR License) Future talk Functional Analysis Gene Set Enrichment Analysis (GSEA) https://www.gsea-msigdb.org/gsea/index.jsp DAVID https://david.ncifcrf.gov/ Enrichr https://maayanlab.cloud/Enrichr/ Other Types Read More...
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Bioinformatics
03/23/2023 - Learn how scientists are using ddPCR technology for absolute quantification of copy number variation, pathogen detection, detection of rare mutations, genome editing, and NGS data validation. We will go over ddPCR basics, and workflow Read More...
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Bioinformatics
06/16/2022 - For the Advanced Training, topics covered depend upon survey results: find key hubs using over-connectivity analysis; using Microarray repository for gene comparisons against public data; building networks with MetaCore; constructing your own pathway maps; Read More...
Web Page
Bioinformatics
10/19/2021 - For the Advanced Training, topics covered depend upon survey results: find key hubs using over-connectivity analysis; using Microarray repository for gene comparisons against public data; building networks with MetaCore; constructing your own pathway maps; Read More...
Web Page
Bioinformatics
02/19/2013 - Ingenuity Pathways Analysis (IPA) is software that helps researchers model, analyze, and understand the complex biological and chemical systems at the core of life science research. This training session will cover: Large Scale (gene Read More...
Web Page
Bioinformatics
rMATS is a computational tool for detection and quantification of differential alternative splicing events. rMATS stands for "replicate Multivariate Analysis of Transcript Splicing". After its initial release in 2011, it saw continuous development and Read More...
Web Page
Bioinformatics
rMATS is a computational tool for detection and quantification of differential alternative splicing events. rMATS stands for "replicate Multivariate Analysis of Transcript Splicing". After its initial release in 2011, it saw continuous development and Read More...
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Bioinformatics
06/06/2024 - The Brooks Lab developed a computational tool called FLAIR (Full-Length Alternative Isoform Analysis of RNA) to produce confident transcript isoforms from long-read RNA-seq data with the aim of alternative isoform detection and quantification. With Read More...
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Bioinformatics
11/16/2023 - This class will provide a demonstration of how to identify cell types based on statistics, visualization, and canonical markers. One Peripheral blood mononuclear cells (PBMCs) sample will be used to illustrate a basic Single Read More...
Web Page
Bioinformatics
10/23/2023 - QIAGEN Ingenuity Pathway Analysis (IPA) is the leading pathway analysis application among the life science research community and is cited in tens of thousands of articles for the analysis, integration and interpretation of data Read More...
Web Page
Bioinformatics
We will analyze these data by doing: 1. Alignment (hisat2) 2. Quantification (featureCounts) 3. Differential expression (DESeq) Use of a spike-in control Using a spike-in allows us to determine how well we can measure and reproduce data with Read More...
Web Page
Bioinformatics
We will analyze these data by doing: 1. Alignment (hisat2) 2. Quantification (featureCounts) 3. Differential expression (DESeq) Use of a spike-in control Using a spike-in allows us to determine how well we can measure and reproduce data with Read More...
Web Page
Bioinformatics
We will analyze these data by doing: 1. Alignment (hisat2) 2. Quantification (featureCounts) 3. Differential expression (DESeq) Use of a spike-in control Using a spike-in allows us to determine how well we can measure and reproduce data with Read More...
Web Page
Bioinformatics
Data Analysis Overview RNASEQ - Data Analysis WorkFlow Mostly Computational intensive task requiring signigicant computer hardware. Quality Control Sample quality and consistency Is Trimming appropriate - quality/adaptors Alignment/Mapping Reference Target (Sequence and annotation) Read More...
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Bioinformatics
03/30/2023 - Partek Flow provides a singular web based point and click environment for analyzing and visualizing high dimensional multi-omics sequencing data, making bioinformatics easily accessible to all researchers. Partek Flow software is available to NCI Read More...
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Bioinformatics
01/19/2022 - For our next CDSL Webinar we will have a guest lecture by Dr. Russell Rockne from Beckman Research Institute, City of Hope National Medical Center. Abstract: Temporal dynamics of gene expression inform cellular and Read More...
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Bioinformatics
04/28/2021 - Register/Join This month’s Cancer Genomics Cloud (CGC) webinar welcomes two bioinformaticians, Dr. Vesna Pajic and Nevena Vukojicic, to show attendees how CGC features can be used to perform multi-omics analysis. Dr. Pajic Read More...
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Bioinformatics
11/10/2020 - This two-part lecture will provide an overview of RNA-Seq technology, its various application and shortcomings, as well as detailing the steps involved in analyzing the resulting data. Part II This second part of the Read More...
Web Page
Bioinformatics
11/05/2020 - Register Learn how to get started on using QIAGEN’s Ingenuity Pathway Analysis (IPA) to quickly identify biological relationships, mechanisms, pathways, functions and diseases most relevant to experimental datasets. IPA is cited in tens Read More...
Web Page
Bioinformatics
09/24/2020 - For the Advanced Training, topics covered depend upon survey results: find key hubs using over-connectivity analysis; using Microarray repository for gene comparisons against public data; building networks with MetaCore; constructing your own pathway maps; Read More...
Web Page
Bioinformatics
07/27/2020 - The GDC RNA-Seq Analysis pipeline quantifies protein-coding gene expression. RNA-Seq data is aligned to the reference genome to detect splice junctions and then re-aligned to increase quality. Gene expression quantification and fusion detection are Read More...
Web Page
Bioinformatics
05/28/2020 - Learn how to get started on using QIAGEN’s Ingenuity Pathway Analysis (IPA) to quickly identify biological relationships, mechanisms, pathways, functions and diseases most relevant to experimental datasets. IPA is cited in tens of Read More...
Web Page
Bioinformatics
09/27/2017 - UCSC Xena ( http://xena.ucsc.edu ) is a web-based, visual exploration tool for all modes of multi-omic data and associated annotations. Xena has several seminal cancer datasets pre-loaded and ready for visualization including TCGA, Read More...
Web Page
Bioinformatics
03/29/2017 - The CCR Bioinformatics Training and Education Program (BTEP) is pleased to organize a workshop on Partek Flow for scientists at NCI-Frederick . Partek Flow software is designed specifically for the analysis needs of next generation Read More...
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Bioinformatics
06/02/2015 - This workshop will cover some basic concepts involved in the integration of different types of NGS data in order to obtain a better overall picture of the underlying biology. Specifically, the course will examine Read More...
Web Page
Bioinformatics
09/17/2013 - Ingenuity Pathways Analysis (IPA) is software that helps researchers model, analyze, and understand the complex biological and chemical systems at the core of life science research. Agenda for Day 1 (Tuesday September 17th) Large Scale ( Read More...
Web Page
Bioinformatics
02/05/2013 - This training session will focus on Gene Expression analysis and the rich set of results possible from RNA-Seq based studies. In addition to differential gene expression, researchers also have the opportunity to discover SNPs, Read More...
Web Page
Bioinformatics
Use Partek Quantification to Model (E/M) algorithm since a gtf annotation is available Uses statistics to assign expression to multi-mappers rather than discarding them Output includes gene and transcript level expression quantifications Summary table Read More...
Web Page
Bioinformatics
Gene expression table can be generated from the read alignment. Options for generating an expression table. Because there a GTF annotation file is avaialable, this exercise will use the Quantify to annotation model (Partek E/ Read More...
Web Page
Bioinformatics
Qlucore Omics Explorer (Qlucore) is a graphical user interface (GUI) based package used to generate visualizations, elucidate biological function, and classify samples as well as cells for omics data. {{Sdet}}{{Ssum}}Listing of Analysis Functions{{ Read More...
Web Page
Software that offers simple yet powerful tools for copy number (CNV) and sequence variation analysis and visualization from aCGH, SNP arrays as well as NGS WES/WGS and expression data. Nexus Copy Number – Accelerating Copy Read More...
Rockville, MD
Core Facility
Trans NIH Facility
The Functional Genomics Laboratory (formerly, the RNAi Screening Facility) of the National Center for Advancing Translational Sciences (NCATS) assist investigators with all stages of project planning and execution, beginning with assay development through genome-wide siRNA Read More...
Bethesda, MD
Repositories
Trans NIH Facility
The NCI Genomic Data Commons (GDC) was established by the NCI Center for Cancer Genomics (CCG) to support the receipt, harmonization, distribution, and analysis of genomic and clinical data from cancer research programs. The GDC Read More...
Bethesda, MD
Collaborative
The CCR Collaborative Bioinformatics Resource (CCBR) is a centrally funded resource group which provides a mechanism for CCR researchers to obtain many different types of bioinformatics assistance to further their research goals. The group has Read More...
Web Page
Protein Characterization Laboratory (PCL) offers various technologies to CCR investigators to characterize proteins and metabolites. The laboratory develops and applies state-of-the-art analytical technologies, primarily mass spectrometry, liquid chromatography, and Surface Plasmon Resonance (SPR), to advance Read More...
Research Training Park, NC
Core Facility
Trans NIH Facility
The Trans-NIH Metabolomics Core (TNMC) is a shared research resource that performs metabolomics analysis (and related small molecule research) for investigators at all Institutes and Centers across the NIH Intramural Research Program. The TNMC is Read More...
Frederick, MD
Core Facility
Protein Characterization Laboratory (PCL) offers various technologies to CCR investigators to characterize proteins and metabolites. The laboratory develops and applies state-of-the-art analytical technologies, primarily mass spectrometry, liquid chromatography, and Surface Plasmon Resonance (SPR), to advance Read More...
Rockville, MD
Collaborative
We are a bioinformatics team within the Center for Biomedical Informatics and Information Technology’s (CBIIT’s) Cancer Informatics Branch (CIB)—soon to be referred to as the Informatics and Data Science (IDS) Program. Headed Read More...
Web Page
Protein Expression Laboratory The Protein Expression Laboratory develops, improves, and delivers protein-centric services. Our goal is to help client investigators achieve their research goals with the lowest possible cost in the shortest time. All PEL Read More...
Web Page
Bioinformatics
Long read sequencing was recently named 2022’s method of the year by Nature Methods . Long read sequencing technologies, those that generate sequence reads with lengths of 10s of kilobases or longer have several advantages over Read More...
Web Page
Bioinformatics
12/03/2024 - This one and a half hour online training will provide a demonstration of how to build a Bulk RNA-Seq data analysis pipeline using a fastq file. Partek Flow Read More...
Web Page
Bioinformatics
10/23/2024 - Please send any questions and/or specific topic areas that you’re interested in hearing about for this presentation by Friday, 10/18 to Kayla Strauss . QIAGEN Ingenuity Pathway Analysis (IPA) is the leading Read More...
Web Page
Bioinformatics
The Advanced Biomedical Computational Science (ABCS) group focuses on applications of bioinformatics, computational and data science, and artificial intelligence to support NCI researchers. ABCS provides: • Subject matter expertise in genomics, proteomics, and imaging. • Machine learning/ Read More...
Web Page
Bioinformatics
03/05/2024 - This in-person workshop will show participants how to identify cell types based on statistics, visualization, and canonical markers. One Peripheral blood mononuclear cells (PBMCs) sample will be used to illustrate a basic Single Cell Read More...
Web Page
Bioinformatics
10/11/2023 - Partek Flow is your start-to-finish solution for analyzing high dimensional multi-omics sequencing data. It is a point-and-click software and is suitable for those who wish to avoid the steep learning curve associated with analyzing Read More...
Web Page
Bioinformatics
Course setup Intro to DNAnexus and the GOLD learning system Learning Objectives Unix Bootcamp Brief Review of R (for R scripts in later analyses) Introduction to RNA Sequencing Central Dogma of Molecular Biology What is Read More...
Web Page
Bioinformatics
STAR 2-pass mode --sjdbGTFfile is the path to the file with annotated transcripts in standard GTF format, STAR extracts splice junctions from this file, improves accuracy of mapping. Using annotations is highly recommended whenever they Read More...
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Bioinformatics
Resources Tertiary Analysis - Biological Meaning Pathway Analysis IPA (Qiagen - CCR License) Future talk Functional Analysis Gene Set Enrichment Analysis (GSEA) https://www.gsea-msigdb.org/gsea/index.jsp DAVID https://david.ncifcrf.gov/ Enrichr Read More...
Web Page
Bioinformatics
The test data consists of two commercially available RNA samples: Universal Human Reference (UHR) and Human Brain Reference (HBR) . The UHR is total RNA isolated from a diverse set of 10 cancer cell lines. The HBR Read More...
Web Page
Bioinformatics
The test data consists of two commercially available RNA samples: Universal Human Reference (UHR) and Human Brain Reference (HBR) . The UHR is total RNA isolated from a diverse set of 10 cancer cell lines. The HBR Read More...
Web Page
Bioinformatics
This page uses content directly from the Biostar Handbook by Istvan Albert. Obtain RNA-seq test data. The test data consists of two commercially available RNA samples: Universal Human Reference (UHR) and Human Brain Reference (HBR) . Read More...
Web Page
Bioinformatics
This page uses content directly from the Biostar Handbook by Istvan Albert. Obtain RNA-seq test data. The test data consists of two commercially available RNA samples: Universal Human Reference (UHR) and Human Brain Reference (HBR) . Read More...
Web Page
Bioinformatics
The test data consists of two commercially available RNA samples: Universal Human Reference (UHR) and Human Brain Reference (HBR) . The UHR is total RNA isolated from a diverse set of 10 cancer cell lines. The HBR Read More...
Web Page
Bioinformatics
This page contains content taken directly from the Biostar Handbook by Istvan Albert. Always remember to start the bioinformatics environment. conda activate bioinfo We will be analyzing differential expression of genes on Chr22 from the Read More...
Web Page
Bioinformatics
This page contains content taken directly from the Biostar Handbook by Istvan Albert. Always remember to start the bioinformatics environment. conda activate bioinfo We will be analyzing differential expression of genes on Chr22 from the Read More...
Web Page
Bioinformatics
11/01/2022 - Learn how to get started on using QIAGEN’s Ingenuity Pathway Analysis (IPA) to quickly identify biological relationships, mechanisms, pathways, functions and diseases most relevant to experimental datasets. IPA is cited in tens of Read More...
Web Page
Bioinformatics
09/15/2022 - Learn how to get started on using QIAGEN’s Ingenuity Pathway Analysis (IPA) to quickly identify biological relationships, mechanisms, pathways, functions and diseases most relevant to experimental datasets. IPA is cited in tens of Read More...
Web Page
Bioinformatics
09/01/2022 - Learn how to get started on using QIAGEN’s Ingenuity Pathway Analysis (IPA) to quickly identify biological relationships, mechanisms, pathways, functions and diseases most relevant to experimental datasets. IPA is cited in tens of Read More...
Web Page
Bioinformatics
06/15/2022 - Learn how to get started on using QIAGEN’s Ingenuity Pathway Analysis (IPA) to quickly identify biological relationships, mechanisms, pathways, functions and diseases most relevant to experimental datasets. IPA is cited in tens of Read More...
Web Page
Bioinformatics
02/07/2022 - Learn how to get started on using QIAGEN’s Ingenuity Pathway Analysis (IPA) to quickly identify biological relationships, mechanisms, pathways, functions and diseases most relevant to experimental datasets. IPA is cited in tens of Read More...
Web Page
Bioinformatics
09/01/2021 - Learn how to get started on using QIAGEN’s Ingenuity Pathway Analysis (IPA) to quickly identify biological relationships, mechanisms, pathways, functions and diseases most relevant to experimental datasets. IPA is cited in tens of Read More...
Web Page
Bioinformatics
04/14/2021 - Register Session Description Learn how to get started on using QIAGEN’s Ingenuity Pathway Analysis (IPA) to quickly identify biological relationships, mechanisms, pathways, functions and diseases most relevant to experimental datasets. IPA is cited Read More...
Web Page
Bioinformatics
02/20/2020 - Learn how to easily analyze your gene expression data yourself - using Qlucore Omics Explorer NCI/CCR:To get access to Qlucore, put a request into NCI at Your Service under Get Help https:// Read More...
Web Page
Bioinformatics
09/19/2018 - TOPIC: Single Cell RNA-Seq Data Analysis in Partek Flow Partek (partek.com) Flow software provides a point-and-click interface for analysis of next -gen sequencing data. Users can customize analysis pathways for sequence alignment, differential Read More...
Web Page
Bioinformatics
06/19/2017 - Harvesting the Wealth of TCGA Data The Cancer Genome Atlas (TCGA) is a large-scale study that has catalogued genomic data accumulated from more than 20 different types of cancer including mutations, copy number variation, mRNA Read More...
Web Page
Bioinformatics
03/20/2017 - BTEP Workshop on RNA-Seq Data Analysis (2-day) This 2-day workshop, which includes both lecture and hands-on components, will cover the fundamentals of and best practices for RNA-Seq Data Analysis. Learn everything from experimental design Read More...
Web Page
Bioinformatics
12/19/2016 - iPathwayGuide is a gene and protein expression analysis tool that uses a systems biology approach to identify significantly impacted pathways, gene ontology terms, diseases, and predicted microRNAs based on the given gene or protein Read More...
Web Page
Bioinformatics
12/07/2015 - This 2-day course, which includes both lecture and hands-on components, will teach the basic concepts and practical aspects of RNA-Seq Data Analysis. Learn everything from experimental design to statistical analysis. This workshop will include Read More...
Web Page
Bioinformatics
12/01/2015 - REGISTRATION FULL - Please signup for Session 2 December 7/8 This 2-day course, which includes both lecture and hands-on components, will teach the basic concepts and practical aspects of RNA-Seq Data Analysis. Learn everything from experimental Read More...
Web Page
Bioinformatics
02/19/2015 - This 2-day course, which includes both lecture and hands-on components, will teach the basic concepts and practical aspects of RNA-Seq Data Analysis. Learn everything from experimental design to statistical analysis. This workshop will include Read More...
Web Page
Bioinformatics
02/18/2014 - This 2-day course, which includes both lecture and hands-on components, will teach the basic concepts and practical aspects of RNA-Seq Data Analysis. Learn everything from experimental design to statistical analysis. This workshop will include Read More...
Web Page
Bioinformatics
Data collected for a specific case in TCGA may have differed according to sample quality and quantity, cancer type, or technology available at the time of analysis. --- https://www.cancer.gov/ccg/research/genome-sequencing/ Read More...
Web Page
Bioinformatics
Normalization of gene expression estimates obtained from the quantification step is important as this will remove technical or non-biological variants in the data such as: Differences in sequencing depth between samples (ie. not all samples Read More...
Web Page
Bioinformatics
The CCR Collaborative Bioinformatics Resource (CCBR) is a resource group which provides a mechanism for CCR researchers to obtain many different types of bioinformatics assistance to further their research goals. The group has expertise in Read More...
Web Page
Bioinformatics
CLC Genomics Workbench (Qiagen) is a graphical user interface (GUI) based bioinformatics software. It houses tools for molecular biology and Next Generation Sequencing (NGS) analysis (see Listing of Analysis Functions below). {{Sdet}}{{Ssum}}Listing of Read More...
Web Page
Bioinformatics
Navigate to the GDC Data Portal at https://portal.gdc.cancer.gov/ To select your cases of interest, you can navigate to "Projects" or "Cohort Builder" Let's use breast cancer Read More...
Web Page
Bioinformatics
The Advanced Biomedical Computational Science (ABCS) group focuses on applications of bioinformatics, computational and data science, and artificial intelligence to support NCI researchers. ABCS provides: Subject matter expertise in genomics, proteomics, and imaging. Machine learning/ Read More...
Web Page
Bioinformatics
Go back to /data/user/hcc1395_b4b. cd /data/user/hcc1395_b4b Create a directory called hcc1395_featurecounts. mkdir hcc1395_featurecounts Go back into /data/user/hcc1395_b4b/hcc1395_hisat2 for this Read More...
Web Page
Bioinformatics
The module featureCounts from the subread package will be used to quantify gene expression. In the featureCounts command below: -p: specifies the presence of paired end data. --countReadPairs: specifies to count both reads in a Read More...
Web Page
The Genomics Laboratory (formerly Laboratory of Molecular Technology) is an integrated, high-throughput molecular biology laboratory focusing on the development of genetics and genomics technologies, together with associated laboratory automation systems, data analysis, and information management Read More...
Frederick, MD
Collaborative
The Antibody Characterization Laboratory (ACL) is the laboratory responsible for the development of well-characterized monoclonal antibody reagents. The NCI’s Office of Cancer Clinical Proteomics Research funds ACL as a resource to the entire cancer Read More...
Frederick, MD
Collaborative
The Center for Advanced Preclinical Research (CAPR) specializes in evaluating the efficacy of preclinical compounds, existing drugs, or biologics (therapeutics) in genetically engineered mouse models, GEM-derived allograft (GDA) models, or patient-derived mouse xenografts (PDX). We Read More...
Bethesda, MD
Core Facility
The Genomics and Pharmacology Facility is part of the NCI's Center for Cancer Research (CCR), within the Developmental Therapeutics Branch. Its mission is to manage and assess molecular interaction data obtained through multiple platforms, increase Read More...
Bethesda, MD
Collaborative
The Spatial Imaging Technology Resource (formerly the Nanoscale Protein Analysis Section of the Collaborative Protein Technology Resource or CPTR) provides expertise and service in state-of-the-art protein analysis technologies to advance CCR research in basic discovery Read More...
Web Page
Bioinformatics
RNA-SEQ Overview What is RNASEQ ? RNA-Seq (RNA sequencing), uses next-generation sequencing (NGS) to reveal the presence and quantity of RNA in a biological sample at a given moment. (Wikipedia) Strictly speaking this could be any Read More...
Web Page
Bioinformatics
Retrieve R "helper" scripts developed for Biostars environment. curl -O http://data.biostarhandbook.com/rnaseq/code/deseq1.r curl -O http://data.biostarhandbook.com/rnaseq/code/deseq2.r curl -O http://data.biostarhandbook. Read More...
Web Page
Bioinformatics
This page contains content taken directly from the Biostar Handbook (Istvan Albert). Always remember to activate the class bioinformatics environment. conda activate bioinfo For this data analysis, we will be using: Two commercially available RNA Read More...
Web Page
Bioinformatics
This page contains content taken directly from the Biostar Handbook (Istvan Albert). Always remember to activate the class bioinformatics environment. conda activate bioinfo For this data analysis, we will be using: Two commercially available RNA Read More...
Web Page
Bioinformatics
This page uses content directly from the Biostar Handbook by Istvan Albert. Obtain RNA-seq test data. The test data consists of two commercially available RNA samples: Universal Human Reference (UHR) and Human Brain Reference (HBR) . Read More...
Web Page
Bioinformatics
How to download data from the Sequence Read Archive (NCBI/SRA) to your account on NIH HPC Biowulf You will need: active, unlocked Biowulf account (hpc.nih.gov) active Globus account for transferring files OR Read More...
Web Page
Bioinformatics
02/21/2017 - This BTEP Workshop will cover the fundamentals and best practices of Exome-Seq analysis, including downstream interpretation of variants using a variety of in-house and NCI-licensed software solutions. There will be hands-on training on CCBR Read More...
Web Page
Bioinformatics
10/03/2016 - The maximum number of registrations (25) allowed has been reached for this workshop. You will be put on the waitlist and informed if any cancellations do occur. You are welcome to come on the morning Read More...
Web Page
Bioinformatics
04/04/2016 - This 2-day course, which includes both lecture and hands-on components, will teach the basic concepts and practical aspects of RNA-Seq Data Analysis. Learn everything from experimental design to statistical analysis. This workshop will include Read More...
Web Page
Bioinformatics
01/07/2016 - REGISTRATION IS FULL FOR THIS WORKSHOP (25 ATTENDEES; 6 WAITLIST) The Cancer Genome Atlas (TCGA) is a large-scale study that has cataloged genomic data accumulated for many different types of cancers, and includes mutations, copy number Read More...
Web Page
Bioinformatics
03/18/2014 - The Cancer Genome Atlas (TCGA) is a large-scale study that has catalogued genomic data accumulated from more than 20 different types of cancer including mutations, copy number variation, mRNA and miRNA gene expression, and DNA Read More...