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Search Results for: NGS

Total Results Found: 136

Total Results Found: 136

NGS Series Open Forum

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Bioinformatics

06/27/2017 - NGS Series Open Forum: Meet the Bioinformatics Experts You are invited to a Q & A session with a panel of bioinformatics analysts, most of whom were presenters at the BTEP NGS Workshop Read More...

NGS Applications with Geneious

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Bioinformatics

04/02/2013 -   Geneious is an integrated and extensible software platform for the organization, visualization and analysis of DNA and protein sequence information. Researchers can analyze any NGS data alongside traditional Sanger data and combine technologies in Read More...

NGS Applications with Geneious (POSTPONED)

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Bioinformatics

03/06/2013 -   Geneious is an integrated and extensible software platform for the organization, visualization and analysis of DNA and protein sequence information. Researchers can analyze any NGS data alongside traditional Sanger data and combine technologies in Read More...

NGS Visualization Tool

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Bioinformatics

09/27/2024 - This session describes the application of the web-based interactive OmicCircos in R Shiny to construct circular plots with desired biological features. Example data from human and mouse genomes will be used to demonstrate over Read More...

Organizing and documenting NGS pipelines on GitHub

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Bioinformatics

04/16/2024 - GitHub is a powerful platform for tracking, sharing, and collaborating on software projects of all kinds. Whether you’re a bioinformatics analyst, a software engineer, or a biologist who sometimes codes, GitHub Read More...

NGS Visualization Tool

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Bioinformatics

11/17/2023 - This session describes the application of the web-based interactive OmicCircos in R Shiny to construct circular plots with desired biological features. Example data from human and mouse genomes will be used to demonstrate over Read More...

Illumina seminar: DNA Methylation NGS and Microarrays

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Bioinformatics

06/29/2022 - The CCR Genomics, Sequencing and Single Cell Analysis Core Facilities are pleased to host a virtual technology seminar with Illumina. Presentation overview : For decades cancer methylation studies have provided insights into tumorigenic pathways and Read More...

Introduction to Geneious Prime

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Bioinformatics

03/20/2024 - Geneious Prime is a comprehensive software suite of molecular biology and NGS analysis tools. In this presentation, a Field Application Scientist with Geneious Prime, Dr. Evan Starr will discuss a general introduction to the Read More...

Introduction to Next-Generation Sequencing Analysis on FRCE

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Bioinformatics

10/24/2023 - In this session, we will provide an overview of the Next-Generation Sequencing (NGS) capabilities and applications. We will present the workflows and analyses for Illumina short-read, PacBio, and Oxford Nanopore long-read sequencing on Frederick Read More...

Introduction to Geneious Prime

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Bioinformatics

11/30/2022 - Helen Shearman, PhD, Senior Application Scientist, will be presenting a one-hour overview demonstration on Geneious Prime. Geneious Prime is a comprehensive software suite of molecular biology and NGS analysis tools. It is built to Read More...

Next Generation Sequencing using MacVector

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Bioinformatics

04/21/2021 - Register Description: MacVector is a sequence analysis application for macOS computers that provides users with a variety of tools and functions to simplify the analysis, manipulation, assembly, and documentation of DNA and protein sequences. Read More...

Large STARS Submission Instructions

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Large STARS can be used to request supplemental funding exceeding $8,000 to offset experimental costs (e.g., core or vendor services or specialized reagents).  Applications require detailed scientific and budgetary justification and must be proposed in Read More...

Small STARS Submission Instructions

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Small STARS can be used to request supplemental funding to offset exceptional costs (e.g., core or vendor services or specialized reagents).  All requests must be approved for funding before work can commence. Provides 50% cost Read More...

CLIA Molecular Diagnostics Laboratory (CMDL)

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The CLIA Molecular Diagnostics Laboratory (CMDL) provides an array of services for groups at the NIH Clinical Center, Fort Detrick, and Hood College, among others. They support cancer- and disease-related research by making Read More...

Scientific Software

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OSTR provides CCR investigators with access to a variety of software licenses for genomic, proteomic, pathway analysis and data visualization tools. These software are funded by OSTR and made available at no cost to CCR Read More...

Bulk RNA-Seq Data Analysis in Partek Flow

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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...

Join us for a Webinar on Geneious Prime

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Bioinformatics

12/06/2023 - This presentation will provide a one-hour overview demonstration on Geneious Prime, a software platform for molecular biology and sequence analysis. It is built to be highly visual, easy to use, and collaborative. & Read More...

Bioinformatics for Beginners 2022: Schedule

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Bioinformatics

Course One – Why learn Bioinformatics? And Beginner Unix. Course Two- Working with NGS data, bulk RNA-Seq example Course Three – Visualizing RNA-Seq data, pathway analysis, and intro to Biowulf and Globus

Bioinformatics for Beginners 2022: Read Choices

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Bioinformatics

For any NGS experiment you will have to make choices about the following sequencing options. Unfortunately, there is and inverse relationship between accuracy and cost. Read Depth More depth needed for lowly expressed genes Detecting Read More...

Bio-Rad Technology Seminar

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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...

Partek Flow Introductory Webinar

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Bioinformatics

10/26/2022 - Multiomics Data Analysis in Partek Flow® bioinformatics software which is available to NCI researchers provides a singular environment that enables the analysis and visualization of NGS data with no programming or command-line expertise. Join Read More...

CLIA Molecular Diagnostics Laboratory
Frederick, Maryland

Core Facility

CLIA-Certified Technologies Offered: Fragment Analysis for Micro-satellite Instability Detection, Pharmacoscan Array for Pharmacogenomics, Mutation Detection for PCR and Sanger Sequencing, DNA extraction from whole blood, saliva, FFPE tissues, buccal swabs, nails, hair, PBMCs, buffy coats, Read More...

CCR Genomics Technology Laboratory (GTL)
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...

NCI Genetics Branch: OMICS Technology Facility
Bethesda, MD

Collaborative

Our operational objectives are to provide state-of-the-art OMICS technologies in support of the Genetics Branch (GB) investigators and collaborators. Research Services Wet Lab Single cell isolation from fresh, frozen, and FFPE tissue, DNA/RNA extractions Read More...

CCR Collaborative Bioinformatics Resource (CCBR)
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...

Genetics, Genomics, and Epigenetics

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NanoString Technology The nCounter® Analysis System is an automated, multi-application, digital detection and counting system which directly profiles up to 800 molecules simultaneously from a single sample using a novel barcoding technology. Profile hundreds of mRNAs, Read More...

Bulletins

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Bioinformatics

This archive contains past and present issues of the  BTEP BioInformatics Bulletin. The BTEP Bioinformatics Bulletin features select upcoming bioinformatics events offered across NIH and is distributed monthly via email to the Center Read More...

Visualizing Genomic Data: Preparing Files

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Bioinformatics

03/13/2025 - This session will introduce participants to visualizing alignment results from Next Generation Sequences using the Integrative Genomics Viewer (IGV). This step is important as scientists may want to highlight results from certain genomic locations Read More...

Contacts

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Bioinformatics

General questions or comments about the BTEP program or classes should be addressed to: NCIBTEP@nih.gov Desiree Tillo, Ph.D . Staff Scientist desiree.tillo@nih.gov I have a broad research background in bioinformatics Read More...

R Introductory Series: Course Materials

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Bioinformatics

::: columns ::: {.column width="75%"} - No install of R or RStudio required. We will access RStudio server through the DNAnexus platform. Course documentation available at https://bioinformatics.ccr.cancer.gov/docs/rintro/index.html . ::: ::: {. Read More...

Microbiome Analysis with QIIME2: Methods in QIIME 2

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Bioinformatics

ANCOM (Analysis of Composition of Microbiomes) additive log ratio approach assumes that less than 25 % of features change between groups q2-composition plugin Need to filter rare taxa w-statistic - the number of null hypotheses rejected Read More...

Microbiome Analysis with QIIME2: Course Outline

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Bioinformatics

Work through DNAnexus? Find a nice cancer data set for 16S and shotgun Divide into two workshops or courses? Course structure or workshop structure? Amplicon processing and analysis (5 week course) (4 weeks) 1. Talk by Greg Caparaso? 1. Read More...

Microbiome Analysis with QIIME2: Microbiome Course

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Bioinformatics

Microbiome Course Course Outline Work through DNAnexus? Find a nice cancer data set for 16S and shotgun Divide into two workshops or courses? Course structure or workshop structure? Amplicon processing and analysis (5 week course) (4 weeks) 1. Read More...

Bioinformatics for Beginners 2022: Course Two

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Bioinformatics

Working with NGS data, bulk RNA-Seq example Who should take this course: Learners who want to understand bulk RNA-Seq experimental and analysis techniques. Pre-requisites: Learners should: be familiar with the GOLD learning environment have beginner Read More...

Bioinformatics for Beginners 2022: Data Analysis Overview

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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...

Bioinformatics for Beginners 2022: RNA-SEQ Overview

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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...

Bioinformatics for Beginners 2022: Syllabus

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Bioinformatics

Syllabus for “Bioinformatics for Beginners" Instructors: Co-Instructors: To participate in these courses, you need a computer, reliable internet connection and a web browser. All classes and help sessions will be held online. This class Read More...

Bioinformatics for Beginners 2022: Resources

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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...

Introduction to Unix on Biowulf Lesson 4

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Bioinformatics

06/06/2023 - Welcome to Learning Unix on Biowulf. This course consists of four one-hour lessons that will run weekly on Tuesdays from 1 -2 PM starting May 16. Subsequent lessons will be held on May 23, May 30, and June 6. Read More...

Introduction to Unix on Biowulf Lesson 3

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Bioinformatics

05/30/2023 - Welcome to Learning Unix on Biowulf. This course consists of four one-hour lessons that will run weekly on Tuesdays from 1 -2 PM starting May 16. Subsequent lessons will be held on May 23, May 30, and June 6. Read More...

Introduction to Unix on Biowulf Lesson 2

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Bioinformatics

05/23/2023 - Welcome to Learning Unix on Biowulf. This course consists of four one-hour lessons that will run weekly on Tuesdays from 1 -2 PM starting May 16. Subsequent lessons will be held on May 23, May 30, and June 6. Read More...

Introduction to Unix on Biowulf Lesson 1

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Bioinformatics

05/16/2023 - Welcome to Introduction to Unix on Biowulf. This course consists of four one-hour lessons that will run weekly on Tuesdays from 1 -2 PM starting May 16. Subsequent lessons will be held on May 23, May 30, and Read More...

On-line Classes

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Bioinformatics

BTEP is currently running on-line classes to enable CCR scientists to learn computer and bioinformatics skills remotely.  We are using two on-line resources as the basis of each class and have added bi-weekly interactive learning Read More...

February Data Sharing and Reuse Seminar

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Bioinformatics

02/11/2022 - The seminar is open to the public and registration is required each month. Dr. Hunter Mosely plans to discuss the richness of open data resources in biology and how they can support machine learning Read More...

Single Cell RNA-Seq Data Analysis in Partek Flow

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Bioinformatics

06/30/2021 - Registration is required to join this event. If you have not registered, please do so now. Register Speaker: Uchenna Emechebe, Ph.D., Field Application Scientist, Partek Incorporated. Partek® Flow® bioinformatics software which is available Read More...

Bulk RNA-Seq Data Analysis in Partek Flow

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Bioinformatics

06/23/2021 - Registration is required to join this event. If you have not registered, please do so now. Register Speaker: Uchenna Emechebe, Ph.D., Field Application Scientist, Partek Incorporated Partek® Flow® bioinformatics software which is available Read More...

Next Generation Sequence Analysis using MacVector

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Bioinformatics

04/21/2021 - Registration: https://cbiit.webex.com/cbiit/onstage/g.php?MTID=e51f19be5660107b4b92118dc48be1781 Presenter: Kevin Kendal PhD CEO of MacVector Description: This workshop will focus on the analysis of Next Read More...

Personnel

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CRTP

No summary available.

CCR Genomics Core
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...

CCR Sequencing Facility
Frederick, MD

Core Facility

The introduction of DNA sequencing instruments capable of producing millions of DNA sequence reads in a single run has profoundly altered the landscape of genetics and cancer biology. Complex questions can now be answered at Read More...

NCI Genomic Data Commons (GDC)
Bethesda, MD

Collaborative

Repositories

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...

NIH Intramural Sequencing Center (NISC)
Rockville, MD

Trans NIH Facility

NISC’s role within NHGRI, and more broadly across NIH, aims to advance genome sequencing and its many applications, with a goal not simply to produce sequence data, but to produce the infrastructure required to Read More...

Genomics Technology Laboratory

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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...

Publications

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Confocal

2016-2024 Publications using images obtained in OMC

Policies

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Confocal

General Usage Policies Principal investigators should read this document and sign it. PI’s/postdocs should attach a short-written summary of the project to the signed doc. If the project changes, Read More...

Publications

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Confocal

2024 L. Balagopalan, T. Moreno, H. Qin, B. C. Angeles, T. Kondo, J. Yi, K. M. McIntire, N. Alvinez, S. Pallikkuth, M. E. Lee, H. Yamane, A. D. Tran, P. Youkharibache, R. E. Cachau, N. Taylor, Read More...

Policies

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Confocal

Our Policy Guidelines: To use the Core please contact Sandeep Pallikkuth

Policies

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Confocal

Sign-Up for Microscopes and Computers Sign-up for EIB Microscopy Facility microscopes and image processing workstations is mandatory – please e-mail facility manager (“Contact” tab) and include your preferred date/time etc. Your request will be confirmed Read More...

Publications

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Confocal

2024 Coutinho, L. L., Femino, E. L., Gonzalez, A. L., Moffat, R. L., Heinz, W. F., Cheng, R. Y. S., Lockett, S. J., Rangel, M. C., Ridnour, L. A. & Wink, D. A. NOS2 and Read More...

Training & Support

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Confocal

Training We recommend that users become familiar with the principals of fluorescence labeling and optical microscopy before arranging for training. We recommend the following sites for learning about microscopy: Introductions to Fluorescence Microscopy Fluorescence Labeling Read More...

Contact Us

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Confocal

Our Team Michael Kruhlak, Ph.D.Core Headkruhlakm@nih.govBuilding 37, Room B114E240-858-3342 Dr. Kruhlak received his Ph.D. from the Department of Biochemistry and Molecular Biology at The University of Calgary Medical Read More...

Image Analysis

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Confocal

Image Processing Capabilities: Please contact Michael Kruhlak if you have any questions regarding image analysis.

Getting Started

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Confocal

BookIt The NCI Microscopy Core is using a new system to reserve a microscope. Use this link to access the BookIt software. Click on the NIH Login to sign in using your NIH PIV ID Read More...

Resources

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Confocal

General Microscopy Resources Confocal Listserv Email discussion list focused on confocal microscopy, but also including topics on fluorescence microscopy and digital imaging. MicroscopyU Online learning platform by Nikon.  An online source for Microscopy education. Leica Read More...

Past Seminars

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Confocal

2024 Date: Tuesday, October 15, 2024 Time and Location: 11 am EST, ZOOM (INVITATION BY LMIG LIST SERVER) Speaker: Dr. Diego Presman (U Buenos Aires) Title: “Insights on Glucocorticoid Receptor Activity Through Live Cell Imaging” Summary: Eucaryotic transcription factors ( Read More...

BTEP Video Archive of Past Classes

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Bioinformatics

Listed below are the video recordings of past BTEP events (classes, seminars, workshops). Videos are hosted on various servers and may play slightly differently. Some videos may be downloaded for local viewing. Recorded Videos of Read More...

The Advanced Biomedical Computational Science (ABCS) Group

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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...

Microbiome Analysis with QIIME2: Course Wrap-Up

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Bioinformatics

Lesson 7: Course Wrap-Up Learning Objectives Introduce the QIIME2 microbiome workflow for Biowulf Review key concepts Showcase additional plugins QIIME 2 on Biowulf As mentioned previously, QIIME 2 is installed on Biowulf. To see available versions use module Read More...

Bioinformatics for Beginners 2022: Home

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Bioinformatics

Bioinformatics for Beginners: RNA-Seq Course Description: This course was designed to teach the basic skills needed for bioinformatics, including working on the Unix command line. This course primarily focuses on RNA-Seq analysis. All steps of Read More...

Introduction to Bioinformatics Summer Series: Lesson Topics

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Bioinformatics

Introduction to Bioinformatics Resources at NCI (06/13, Instructor Amy Stonelake, PhD (BTEP)) In this lesson, attendees will be introduced to the different bioinformatics resources available to them at NCI. This includes: Bioinformatics Training Classes and Events Read More...

FAQ

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CRTP

No summary available.

Services

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CRTP

No summary available.