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Search Results for: microbiome services

Total Results Found: 238

Total Results Found: 238

Statistical Analysis of Microbiome Data

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Bioinformatics

11/08/2024 - Learn microbiome analysis basics in R with phyloseq. This workshop will cover different types of analysis frequently used in microbiome studies, including sample diversity, community composition, and differential taxa. The techniques we learn will 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...

Microbiome Analysis with QIIME2: QIIME2 Introduction

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Bioinformatics

Lesson 1: Toward fully reproducible microbiome multi-omics bioinformatics with QIIME 2 Lesson 1 does not include a hands on component, but rather includes an introduction to QIIME2 by guest speaker, Dr. Greg Caporaso, a leading developer of the Read More...

Microbiome Analysis with QIIME2: Meet our presenter

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Bioinformatics

Greg Caporaso, PhD Professor at Northern Arizona University A microbiome expert with 100+ related publications Lead developer of the QIIME 2 Platform Visit his lab website at https://caporasolab.us

Microbiome Analysis with QIIME2: References

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Bioinformatics

This course series primarily used information from QIIME2.org and the QIIME2 forum . Specifically, this course series focused on data and code from the QIIME2 Cancer Microbiome Intervention Tutorial . Special thanks goes to the QIIME 2 Read More...

Microbiome Analysis with QIIME2: References

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Bioinformatics

https://www.zymoresearch.com/blogs/blog/microbiome-informatics-otu-vs-asv www.drive5.com Elbrecht V, Vamos EE, Steinke D, Leese F. 2018. Estimating intraspecific genetic diversity from community DNA metabarcoding data. PeerJ 6:e4644 https://doi.org/10.7717/peerj.4644

Microbiome Analysis with QIIME2: Beta diversity

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Bioinformatics

Beta diversity is between sample diversity. This is useful for answering the question, how different are these microbial communities? Image modified from https://www.genome.gov/genetics-glossary/Microbiome Beta diversity is measured using distance and Read More...

Microbiome Analysis with QIIME2: Examining the metadata

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Bioinformatics

Let's take a look at the metadata associated with QIIME 2 Cancer Microbiome Intervention tutorial. qiime metadata tabulate \ --m-input-file /data/sample-metadata.tsv \ --o-visualization metadata-summary.qzv This command allows us to interactively explore the metadata. If 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: What is QIIME 2?

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Bioinformatics

A powerful, extensible, and decentralized microbiome analysis package with a focus on data and analysis transparency. QIIME 2 enables researchers to start an analysis with raw DNA sequence data and finish with publication-quality figures and statistical Read More...

Microbiome Analysis with QIIME2: Data import

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Bioinformatics

As mentioned previously, the first step of any QIIME 2 analysis will be to import the data. Each type of data will be stored in its own QIIME2 artifact. For example, sample metadata, ASV / OTU tables, Read More...

Microbiome Analysis with QIIME2: Learning Objectives

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Bioinformatics

Understand the difference between alpha and beta diversity Introduce several alpha diversity metrics Understand what rarefaction is and why it is important Introduce the debate regarding rarefaction and other methods of normalization Often many questions Read More...

Microbiome Analysis with QIIME2: Course Overview

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Bioinformatics

This course was designed to teach the basics of targeted amplicon data processing and analysis using the QIIME2 platform. Attendees will learn how to format data and metadata, import data, demultiplex sequences, trim sequences, denoise Read More...

Microbiome Analysis with QIIME2: Home

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Bioinformatics

Course Overview This course was designed to teach the basics of targeted amplicon data processing and analysis using the QIIME2 platform. Attendees will learn how to format data and metadata, import data, demultiplex sequences, trim Read More...

Microbiome Analysis with QIIME2: Optional filtering of samples

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Bioinformatics

If we want to retain only the samples included in our diversity analyses, we can use qiime feature-table filter-samples to drop samples with read depths less than 10,000. qiime feature-table filter-samples \ --i-table filtered-table-3.qza \ --p-min-frequency 10000 \ --o-filtered-table Read More...

NIH ORS Division of Library Services (DLS) - Resources
Bethesda, MD

Trans NIH Facility

The NIH Library is a biomedical research library, whose collection and services are available at no cost to NIH staff: Electronic Resources: Over 20,000 electronic journals, 190,000 eBooks, and 50 databases. , Training classes covering topics such as bioinformatics, Read More...

Biophysics Core Services

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Home About the Biophysics Core Biophysics Core Technologies We provide consultations and advice on the applications of biophysical methods. If you would like to discuss the requirements of a particular technique or consider selecting the Read More...

Microbiome Analysis with QIIME2: Q2-longitudinal

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Bioinformatics

Luckily, there is a q2-longitudinal plugin to handle dependent longitudinal data. The q2-longitudinal plugin includes: interactive plotting (e.g., volatility plots) linear mixed effects models paired differences and distances non-metric microbial interdependence testing ( Read More...

Microbiome Analysis with QIIME2: Lesson Objectives

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Bioinformatics

Check for primers Generate an ASV count table and representative sequence file Understand the difference between OTU picking and denoising The two primary files that will be used throughout any microbiome analysis are the feature Read More...

Microbiome Analysis with QIIME2: Feature filtering

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Bioinformatics

We can filter features observed in only a single sample. qiime feature-table filter-features \ --i-table filtered-table-1.qza \ --p-min-samples 2 \ --o-filtered-table filtered-table-2.qza Unless we explicitly remove them, removed features will remain in our FeatureData (Representative Sequences). This 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...

Microbiome Analysis with QIIME2: Practice Lesson 6

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Bioinformatics

This practice lesson is associated with Lesson 6 of the Microbiome Analysis with QIIME 2. In this practice lesson, we will view beta diversity results and determine whether our two conditions (old vs young) demonstrate significant differences Read More...

Microbiome Analysis with QIIME2: Core microbiome

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Bioinformatics

If interested in highly prevalent taxa, you could use qiime feature-table core-features , which identifies "features observed in a user-defined fraction of the samples." By default, this will return features observed in at least 50% Read More...

Microbiome Analysis with QIIME2: References

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Bioinformatics

References This course series primarily used information from QIIME2.org and the QIIME2 forum . Specifically, this course series focused on data and code from the QIIME2 Cancer Microbiome Intervention Tutorial . Special thanks goes to the Read More...

NIH Clinical Center Pharmacy Department - Pharmacy Services
Bethesda, MD

Trans NIH Facility

The NIH Clinical Center Pharmacy Department provides pharmaceutical care to inpatients and outpatients on NIH intramural research protocols at the NIH Clinical Center. The Clinical Center facility encompasses 200 inpatient beds, 93 day-hospital stations, and 15 clinics. Clinical Read More...

Microbiome Analysis with QIIME2: Lesson 5 Practice

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Bioinformatics

This practice lesson is associated with Lesson 5 of the Microbiome Analysis with QIIME 2. In this practice lesson, we will work on choosing a sampling depth to rarefy, running core-metrics, and comparing alpha diveristy between our Read More...

Microbiome Analysis with QIIME2: Metadata and importing

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Bioinformatics

Lesson 2: Getting Started with QIIME2 Lesson Objectives Obtain sequence data and sample metadata Import data and metadata Discuss other useful QIIME2 features including view QIIME2, provenance tracking, and the QIIME2 forum. DNAnexus DNAnexus provides a Read More...

Microbiome Analysis with QIIME2: Practice Lesson 4

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Bioinformatics

This practice lesson is associated with Lesson 4 of the Microbiome Analysis with QIIME 2. In this practice lesson, we will work on filtering our feature table and representative sequences, classify our features, and generate a phylogenetic Read More...

Microbiome Analysis with QIIME2: Practice Lesson 3

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Bioinformatics

This practice lesson is associated with Lesson 3 of the Microbiome Analysis with QIIME 2. In this practice lesson, we will work on generating a feature table and representative sequences. We will continue working with the data Read More...

Microbiome Analysis with QIIME2: Lesson 3: Denoising

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Bioinformatics

Practice Lesson 3 This practice lesson is associated with Lesson 3 of the Microbiome Analysis with QIIME 2. In this practice lesson, we will work on generating a feature table and representative sequences. We will continue working with Read More...

Microbiome Analysis with QIIME2: Beta Diversity

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Bioinformatics

Lesson 6 . Learning Objectives Introduce several beta diversity metrics Discover different ordination methods Learn about statistical methods that are applicable Beta diversity Beta diversity is between sample diversity. This is useful for answering the question, how Read More...

16S Amplicon Sequence Analysis with DADA2 and R

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Bioinformatics

10/23/2024 - Learn the nuts and bolts of 16S amplicon microbiome sequence analysis with DADA2. This hands-on tutorial will walk through all key steps in detail, providing understanding about each component and common pitfalls. Feel free Read More...

Microbiome Analysis with QIIME2: What have we done?

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Bioinformatics

Using a small subset of data: Imported raw fastq files using qiime tools import . Data was paired-end CASAVA format. Checked for primers using qiime cutadapt trim-paired . Denoised with qiime dada2 denoise-paired and generated summaries of Read More...

Microbiome Analysis with QIIME2: Linux help

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Bioinformatics

Introduction to Unix from the Bioinformatics Workbook Unix from Happy Belly Bioinformatics Linux Command List (from fosswire.com) Bioinformatics for Beginners: Module 1 - Linux and Biowulf

Microbiome Analysis with QIIME2: DNAnexus

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Bioinformatics

DNAnexus provides a secure cloud based platform for the analysis and sharing of next generation sequencing data. This class will use a pre-built teaching environment, the GOLD platform, which includes all of the software needed Read More...

Microbiome Analysis with QIIME2: Taxonomy

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Bioinformatics

After denoising, we have unique ASVs or sequences, which in itself can be quite revealing. However, often we want to classify our sequences to know more about the organisms represented by our ASVs, particularly regarding Read More...

Microbiome Analysis with QIIME2: Denoising

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Bioinformatics

The field has moved to denoising sequences rather than OTU clustering. In a denoising approach, the exact biological sequence is inferred and noise is removed from the dataset via error correction. This is generally done Read More...

Microbiome Analysis with QIIME2: What is rarefaction?

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Bioinformatics

Rarefaction is the process of subsampling reads without replacement to a defined sequencing depth, thereby creating a standardized library size across samples. Any sample with a total read count less than the defined sequencing depth Read More...

Microbiome Analysis with QIIME2: Phylogeny

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Bioinformatics

In addition to clasifying our organisms, we also want to reconstruct their phylogenetic relationships by generating a phylogenetic tree. We often assume that phylogenetic closeness can elucidate commonalities in phenotypic properties / functions, so it is Read More...

Microbiome Analysis with QIIME2: Rarefaction

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Bioinformatics

To rarefy or not to rarefy? Feature tables are composed of sparse and compositional data. Measuring microbial diversity using 16S rRNA sequencing is dependent on sequencing depth. By chance, a sample that is more deeply Read More...

Microbiome Analysis with QIIME2: Getting the Data

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Bioinformatics

Getting the Data The data used in this course are freely available from the Sequence Read Archive (SRA-NCBI) and qiime2.org . For your convenience, we are also including a compressed archive containing the data here .

Microbiome Analysis with QIIME2: Getting the Data

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Bioinformatics

The data used in this course are freely available from the Sequence Read Archive (SRA-NCBI) and qiime2.org . For your convenience, we are also including a compressed archive containing the data here .

Microbiome Analysis with QIIME2: PCoA

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Bioinformatics

PCoA was included by default in our core-metrics-phylogenetic pipeline. Because these are longitudinal data, we will customize the axis to include the varaible, week-relative-to-hct . qiime emperor plot \ --i-pcoa diversity-core-metrics-phylogenetic/unweighted_unifrac_pcoa_results.qza \ --m-metadata-file / Read More...

Microbiome Analysis with QIIME2: UMAP

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Bioinformatics

First, we perform the ordination. qiime diversity umap \ --i-distance-matrix diversity-core-metrics-phylogenetic/unweighted_unifrac_distance_matrix.qza \ --o-umap uu-umap.qza qiime diversity umap \ --i-distance-matrix diversity-core-metrics-phylogenetic/weighted_unifrac_distance_matrix.qza \ --o-umap wu-umap.qza Then we use emperor Read More...

Microbiome Analysis with QIIME2: Statistics

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Bioinformatics

Some typical statitstical tests applied to beta diversity metrics include the following: Adonis (PERMANOVA) Similar to a MANOVA, but is permutational and non-parametric. Sensitive to group dispersion, so it is worth running alongside a beta-dispersion Read More...

Innovation and AI in Oncology

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Bioinformatics

01/29/2025 - Join Dr. Douglas Flora, executive medical director of Oncology Services at St. Elizabeth Healthcare, to explore how artificial intelligence (AI) is revolutionizing cancer care through oncology. This event will cover: key AI terminology,& Read More...

Shotgun Metagenomics Using Nephele

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Bioinformatics

11/01/2024 - A hands-on workshop for analyzing metagenomes in the open-source microbiome application Nephele. Participants will first learn how to navigate Nephele and process their reads to trim and filter for quality. They will then learn Read More...

NIH Artificial Intelligence Symposium

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Bioinformatics

05/17/2024 - The NIH Artificial Intelligence (AI) Symposium will take place on Friday, May 17th, 2024, in Masur Auditorium in Building 10 on the Bethesda NIH campus. This event is open to all NIH members - registration and Read More...

November 2021

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CREx News & Updates November 2021 Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More Site Spotlight FACILITY HIGLIGHTS Learn more about services from the NINDS Quantitative Magnetic Resonance Imaging Core. NINDS 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 LASP Gnotobiotics Facility (GF)
Frederick, MD

Core Facility

The Laboratory Animal Sciences Program (LASP) of the Frederick National Laboratory operates a Gnotobiotics Facility (GF) to support research focused on the role of microbiota in cancer inflammation, pathogenesis, and treatment response. The GF can 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...

Class Documents

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Bioinformatics

Most BTEP courses include detailed course materials including lesson content, additional resources, and lesson associated data. These course materials are listed here so that learners can easily return to and review concepts taught in class Read More...

Resources

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Bioinformatics

BTEP strives to maintain links to resources that should be of interest to CCR Bioinformatics Community.  Some of the resources to will be accessible through more than one of these lists, but since the lists Read More...

May Data Sharing and Reuse Seminar

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Bioinformatics

05/10/2024 - Please join us for the May Data Sharing and Reuse Seminar featuring Dr. Ali Loveys and Fiona Meng from FI Consulting. They will be sharing their presentation on Laying the Foundation for AI-Ready Data. Read More...

Introduction to R and RStudio

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Bioinformatics

05/09/2024 - This is the first class in the NIH Library Introduction to R Series. This class provides a basic overview of the functionality of R programming language and RStudio. R is 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...

Defining the Need for Open Data Metrics

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Bioinformatics

03/06/2024 - Please join us on Wednesday, March 6 when Daniella Lowenberg from the University of California, California Digital Library will present “Defining the Need for Open Data Metrics.”   Widespread adoption Read More...

Introduction to R and RStudio

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Bioinformatics

01/09/2024 - This is the first class in the NIH Library Introduction to R Series. This class provides a basic overview of the functionality of R programming language and RStudio. R is a programming language and Read More...

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...

CREx News & Updates

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A monthly CREx Newsletter will help to foster sharing of knowledge of technologies and scientific resources throughout the NIH community. The newsletter will help increase awareness of CREx's capabilities and provide information for various training Read More...

Center for Inherited Disease Research (CIDR)
Bethesda, MD

Trans NIH Facility

The Center for Inherited Disease Research (CIDR)'s  mission is to support the genetics community by providing high-quality, cutting-edge genomics services and technologies in order to expand our understanding of disease and catalyze discoveries that 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...

NCI at Frederick Central Repository
Frederick, MD

Collaborative

Repositories

The Central Repository provides the research community at the NCI with various cryogenic services, including low-temperature storage from +4° C to -196° C, controlled-rate freezing, computerized inventory and distribution of samples. The Central Repository is operated Read More...

August 2024 Newsletter

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CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More New CREx User Survey The CREx Team is carrying out a CREx User Survey. If you haven’t Read More...

June 2021

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CREx News & Updates June 2021 Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More NIH Collaborative Research Exchange (CREx) News Site Spotlight FACILITY HIGHLIGHTS Visit here to learn about services from Read More...

CREx "How To" Videos

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These short videos will help users easily identify service providers, submit a request for services, communicate with with suppliers, and manage active requests. Finding Core Facilities on CREx Learn the ways in which NIH IRP 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...

Small STARS Submission Instructions

Web Page

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...

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...

September 2024 Newsletter

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CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More NIH Research Festival The NIH Research Festival highlights the groundbreaking science and the vibrant NIH community driving our Read More...

 NIH Collaborative Research Exchange (CREx)

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The NIH Intramural Research Program Collaborative Research Exchange (CREx) The Collaborative Research Exchange (CREx) is an online CCR marketplace where investigators can search, browse, and request information for research services, technologies, or custom products (antibody Read More...

October 2024 Newsletter

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CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More New NIH Resource Spotlight The NIH Lab Managers Working Group have developed a new NIH-wide database of cold Read More...

NHLBI Transgenic Core
Bethesda, MD

Core Facility

Trans NIH Facility

The NHLBI Transgenic Core’s main mission is to keep up with the latest advancements in genome engineering technologies and to provide state-of-the-art services to assist NIH scientists in generating genetically engineered animal models. In Read More...

Front page

Web Page

Our Mission The Office of Science and Technology Resources (OSTR) catalyzes the advancement of cancer research through making innovative technologies and scientific resources accessible to scientists at the Center for Cancer Research (CCR). OSTR develops Read More...

NCI Clinical Support Laboratory: Flow Cytometry Section
Frederick, MD

Core Facility

Clinical Support Laboratory – Flow Cytometry Section is a laboratory specializing in providing immunophenotyping support of NCI intramural clinical trials, though assessments may also be performed using cells from Non-human primates and other species. The CSL Read More...

NCI Research Flow Facility
NCI-Bethesda, MD

Collaborative

The NCI Research Flow Facility provides cell sorting and benchtop flow cytometry services to NCI investigators. Services are program-specific and are not available to all NCI or NIH investigators. Please inquire as to availability. Established Read More...

CCR Protein Expression Laboratory (PEL)
Frederick, Maryland

Core Facility

The Protein Expression Laboratory produces proteins to help CCR investigators achieve their research goals with the lowest possible cost in the shortest time. PEL is operated by Leidos Biomedical Research Inc. on behalf of NCI Read More...

November 2024 Newsletter

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CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More New NIH Resource Resources Derive Greater Insights and Accelerate your Research Using Bioinformatic Tools! CREx is an NIH Read More...

February 2022 Newsletter

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CREx News & Updates February 2022 Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More Site Spotlight ORS Division of Veterinary Resources (DVR) DVR is the central NIH lab animal support program Read More...

June 2022 Newsletter

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CREx News & Updates June 2022 Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More Click below to learn how easy it is to navigate the CREx platform. These short videos will Read More...

Protein Expression Laboratory

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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...

Clinical Support Laboratory –Cellular Immunology
Frederick, MD

Core Facility

Clinical Support Laboratory – Cellular Immunology offers a spectrum of bioassays to assess cellular responses to antigens and mitogens including ELISPOT, cytotoxicity assays, and proliferation assays. Established Technologies Elispot Assays, Dual or Triple Color Fluorospot Assays, Read More...

May 2022 Newsletter

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CREx News & Updates May 2022 Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More Click below to learn how easy it is to navigate the CREx platform. These short videos will Read More...

April 2022 Newsletter

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CREx News & Updates April 2022 Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More Click below to learn how easy it is to navigate the CREx platform. These short videos will Read More...

July 2021

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CREx News & Updates July 2021   Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More NIH Collaborative Research Exchange (CREx) News Site Spotlight FACILITY HIGHLIGHTS Learn more about services from the NHLBI Read More...

NIH ORS Medical Arts Branch (MAB)
Bethesda, MD

Trans NIH Facility

MAB provides visual communication solutions across all media to the entire NIH community. Our Medical Illustration section provides a complete range of biomedical visualization services, including manuscript/textbook figures, infographics, 3D modeling, animation, technical diagrams, Read More...

NCI LASP Animal Diagnostic Lab (ADL)
Frederick, MD

Core Facility

The Animal Diagnostic Laboratory (ADL) provides a full range of diagnostic capabilities, including microbiological cultures on various culture medium, microscopic screening for parasites such as mites and pinworms, molecular detection of pathogens, serological evaluation of Read More...

January 2022 Newsletter

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CREx News & Updates January 2022 Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More Site Spotlight NCI ANTIBODY CHARACTERIZATION LABORATORY (ACL) The ACL specializes in rigorously validating antibodies for signaling and Read More...

NCI CCR-Frederick Flow Cytometry Core Facility
Frederick, MD

Core Facility

The CCR-Frederick Flow Cytometry Core Facility provides research support to the Frederick-CCR community, including cytometry analysis and sorting services, instrument maintenance, new user training, and technical consultation. Typical Assays Performed by Core Instruments Immunophenotyping of Read More...

September 2021

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CREx News & Updates September 2021 Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More NIH Collaborative Research Exchange (CREx) News Site Spotlight FACILITY HIGLIGHTS Learn more about services from the CCR Read More...

CCR Electron Microscopy Laboratory (EML)
Frederick, MD

Core Facility

The EML offers investigators access to unique expertise and EM technologies that allow CCR Investigators to explore new avenues of research in order to enhance the knowledge of biological systems. To assist our customers, we Read More...

July 2022 Newsletter

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CREx News & Updates July 2022 Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More Click below to learn how easy it is to navigate the CREx platform. These short videos will Read More...

August 2021

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CREx News & Updates August 2021 Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More NIH Collaborative Research Exchange (CREx) News Site Spotlight FACILITY HIGHLIGHTS Learn more about services from the NHLBI Read More...

August 2022 Newsletter

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CREx News & Updates August 2022 Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More Site Spotlight NCATS Functional Genomics Laboratory (FGL) FGL is designed to help NIH Investigators use the latest Read More...

NCI LASP Genome Modification Core (GMC)
Frederick, MD

Core Facility

NCI LASP Genome Modification Core (GMC) is a CCR-dedicated facility that provides advice, training, and reagents to NCI scientists seeking to utilize CRISPR and other nucleases to generate genome modifications in primary cells, cell lines, Read More...

December 2021

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CREx News & Updates December 2021 Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More Site Spotlight FACILITY HIGLIGHTS Learn more about services from the STRIDES Initiative. VIEW STRIDES INITIATIVE NIH Cores Read More...

July 2023 Newsletter

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CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More NIH Cores on CREx NIBIB BEPS Micro Analytical Immunochemistry Unit The Micro Analytical Immunochemistry Unit employs a variety Read More...

Biophysics Core Facility (BCF)

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Biophysics Core Facility assists NIH investigators in measuring molecular interactions and in characterizing macromolecular properties. This includes binding studies of proteins, DNA, RNA, and their ligands in buffers, cell lysate, plasma, and other media. We Read More...

NIH Clinical Center Positron Emission Tomography (PET)
Bethesda, MD

Core Facility

Trans NIH Facility

The PET Department, CC, functions as a core facility that supports basic, translational, and clinical research using PET. It is a vertically integrated facility, with resources to produce positron-emitting radionuclides, manufacture PET radiopharmaceuticals in a Read More...

March 2022 Newsletter

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CREx News & Updates March 2022 Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More Site Spotlight NIA Nonhuman Primate Core The NIA Nonhuman Primate Core supports multi-disciplinary translational aging projects for Read More...

December 2024 Newsletter

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CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More New NIH Resource Resources Advance your research with the NIH Mouse Imaging Facility (MIF) The NIH Mouse Imaging Read More...

NIH ORS Division of Veterinary Resources (DVR)
Bethesda, MD

Trans NIH Facility

The Division of Veterinary Resources’ (DVR) mission is to contribute to the advancement of NIH biomedical research programs by providing excellence in animal care, customer service, and specialized research services to support intramural research efforts. Read More...

October 2021

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CREx News & Updates October 2021 Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More NIH Collaborative Research Exchange (CREx) News Site Spotlight FACILITY HIGLIGHTS Learn more about services from the CPTR Read More...

NIH Clinical Center Clinical Image Processing Service (CIPS)
Bethesda, MD

Trans NIH Facility

The Clinical Image Processing Service (CIPS) offers timely and accurate advanced image processing of diagnostic radiology images for clinical care, research, and training. CIPS’ functions include clinical services and scientific researches. Established Technologies: CIPS can Read More...

STRIDES Initiative
Bethesda, MD

Trans NIH Facility

The Science and Technology Research Infrastructure for Discovery, Experimentation, and Sustainability (STRIDES) Initiative The STRIDES Initiative aims to help NIH and its institutes, centers, and offices (ICOs) accelerate biomedical research by reducing barriers in utilizing Read More...

Clinical Support Laboratory
Frederick, MD

Core Facility

The Clinical Support Laboratory offers processing, tracking, and testing of a broad range of clinical samples. Support can begin at the early stages of clinical trial development to aid in developing a comprehensive strategy for Read More...

NCI LASP Small Animal Imaging Program (SAIP)
Frederick, MD

Core Facility

The function of the SAIP is to collaborate with NCI investigators in the development of mouse models, new molecular imaging probes for early detection and therapy, monitor tumors in vivo, and perform drug efficacy studies Read More...

STARS Request

Web Page

Supplemental Technology Award Review System (STARS) Overview STARS Request Form STARS System The Supplemental Technology Award Review System (STARS) is a web-based interface for submission and review of S&S supplement requests by CCR Read More...

NIA Nonhuman Primate Core
Poolesville, MD

Core Facility

Trans NIH Facility

The NIA Nonhuman Primate (NHP) Core Facility maintains a colony of rhesus macaques at the National Institutes of Health Animal Center. Established in 2012, the Core's mission is to offer research services supporting multi-disciplinary translational aging Read More...

NCI Medicinal Chemistry Accelerator (MCA)
Frederick, MD

Collaborative

The Medicinal Chemistry Accelerator (MCA) is a collaborative CCR resource that supports investigators in developing small molecule inhibitors for anticancer drug candidates. While CCR and NCATS have infrastructure to identify initial “hits” through high-throughput screening, Read More...

NCI LASP Animal Research Technology Support (ARTS)
Frederick, MD

Core Facility

NCI LASP Animal Research Technology Support (ARTS) provides customized technical support for basic and translational animal-based research to the scientific community. We offer a wide array of services ranging from expert colony management to the Read More...

NIMH Human Brain Collection Core (HBCC)
Bethesda, MD

Core Facility

Repositories

The mission of Human Brain Collection Core (HBCC) within the National Institute of Mental Health, Division of Intramural Programs (NIMH IRP) is to conduct and support research on brain and behavior, with the goal of Read More...

Molecular Modeling Core (Laboratory of Cell Biology)
Bethesda, MD

Collaborative

The CCR Molecular Modeling Core, under the direction of Dr. Stewart Durell, was established to provide a convenient way for experimentalists to take advantage of molecular modeling and computational biology. In the framework of consultations, Read More...

NCI Proteomic Data Commons (PDC)
Rockville, MD

Collaborative

Repositories

Proteomic Data Common (PDC) represents the NCI’s largest public repository of proteogenomic comprehensive tumor datasets, essentially a Proteogenomic Cancer Atlas. It was developed to advance our understanding of how proteins help shape the risk, Read More...

October Newsletter 2022

Web Page

October 6, 2022 crex.nih.gov CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More Site Spotlight NIH Center For Human Immunology, Inflammation, And Autoimmunity (CHI) CHI is a Read More...

Statistical Support at ABCS
Frederick, MD

Core Facility

The centrally funded Statistics team within the Advanced Biomedical Computational Science group at the Frederick National Lab provides statistical consultation and data analysis support for NCI laboratories. We have broad-range expertise in biomedically relevant areas Read More...

CCR Intravital Microscopy Core

Web Page

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All Scientific Resources

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Cores & Facilities From centralized laboratories to collaborative resources and technologies available to CCR Investigators. NCI Cores Centralized laboratories providing broad access to cutting-edge technologies and specialized expertise. Browse NCI Cores Collaborative Resources are technologies and Read More...

February 2024 Newsletter

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CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More New Resources on CREx Trans-NIH Metabolomics Core (TNMC) The TNMC is a shared research resource that provides targeted Read More...

March 2024 Newsletter

Web Page

CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More NIH Intramural CryoEM (NICE) Consortium NICE provides NCI, NIAID, NIEHS, NICHD, NIDCR, NEI, and NIA investigators with Read More...

NCI Genomic Data Commons (GDC)
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...

Office of Collaborative Biostatistics
Bethesda, MD

Collaborative

The Office of Collaborative Biostatistics, Office of the Clinical Director, is the statistical and data management component of CCR. The Section provides statistical leadership and data management consultation for CCR’s major clinical activities and Read More...

NIH ORS DRS Radioactive Materials Control and Analysis Branch
Bethesda, MD

Trans NIH Facility

The National Institutes of Health (NIH) Office of Research Services (ORS) Division of Radiation Safety (DRS) Radioactive Materials Control and Analysis Branch supports radioactive materials packaging/shipping. Established Technologies In accordance with Department of Transportation ( Read More...

March 2023 Newsletter

Web Page

CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More New Resources on CREx NCI CLIA Molecular Diagnostics Laboratory (CMDL) The NCI CMDL is available to assist all Read More...

April 2024 Newsletter

Web Page

CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More NIH Extramural Common Fund Resources Metabolomics Workbench Developed by the NIH Metabolomics Common Fund's National Metabolomics Data Repository ( Read More...

CHTN Mid-Atlantic Division (University of Virginia)
Charlottesville, VA

Repositories

Trans NIH Facility

The Mid-Atlantic CHTN is one of six participating divisions of the Cooperative Human Tissue Network (CHTN) and is based in the Pathology Department at the University of Virginia. While primarily a resource for cancer researchers, Read More...

About the Biophysics Core

Web Page

Home Biophysics Core Technologies Biophysics Core Services The Biophysics Core The Biophysics Core Facility (BCF) was established in 2008 in the NHLBI as an advanced service laboratory providing expertise, training, consultations, and instrument access for intramural Read More...

June 2024 Newsletter

Web Page

CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More New CREx Program Manager The CREx Team is happy to announce Deepika Velampati as the new CREx Program Read More...

Chemical Biology Laboratory (CBL): Chemical Synthesis Group
Frederick, MD

Collaborative

The Chemical Synthesis Group is a component of the Chemical Biology Laboratory. This facility provides synthetic chemistry resources and expertise to the NCI Intramural community. The facility’s capabilities include: Providing expertise, consultation, and experience Read More...

Electron Microscopy

Web Page

Electron Microscopy Laboratory (EML) The EML offers investigators access to unique expertise and EM technologies that allow our partners to explore new avenues of research to enhance the knowledge of biological systems. To assist our 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...

Molecular Pathology Unit
Bethesda, Maryland

Collaborative

The Molecular Pathology Unit is intended to spearhead opportunities for bridging basic and clinical research efforts by more precisely optimizing the development, characterization, and utilization of models of human disease. The initiative approach includes both Read More...

DTP Repository of Chemical Agents
Rockville, MD

Repositories

Trans NIH Facility

DTP maintains a repository of synthetic compounds and pure natural products that are available to investigators for non-clinical research purposes. The Repository collection is a uniquely diverse set of more than 200,000 compounds that have been Read More...

CLIA Molecular Diagnostics Laboratory (CMDL)

Web Page

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...

NCI CCR Clinical Research Correlatives Core
Bethesda, MD

Collaborative

The NCI Clinical Research Correlatives Core provides non-CLIA-certified spectral flow cytometric assays to support clinical trials conducted in the CCR. The core specializes in immunophenotyping and immune monitoring assays. Established Technologies Spectral flow cytometry (Cytek), Read More...

CCR Volume Electron Microscopy (CVEM)
Frederick, MD

Collaborative

CCR VOLUME Electron Microscopy (CVEM) aims to develop new techniques in volume electron microscopy (vEM) and, in collaboration with CCR Investigators, apply these techniques to research cell biological questions well-suited for study by high-resolution 3D Read More...

September Newsletter 2022 (3)

Web Page

September 8, 2022 crex.nih.gov CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More Science & Technology Seminars and Training Events Upcoming Seminars and Educational Opportunities The following Read More...

Nanotechnology Characterization Lab
Frederick, MD

Collaborative

NCI established the Nanotechnology Characterization Laboratory (NCL) to support the extramural research community to accelerate the progress of nanomedicine by providing preclinical characterization and safety testing of nanoparticles. It is a collaborative effort between NCI, Read More...

October Newsletter 2022-3

Web Page

October 6, 2022 crex.nih.gov CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More Science & Technology Seminars and Training Events Upcoming Seminars and Educational Opportunities The following Read More...

Protein Characterization Laboratory

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...

NCI Specimen Resource Locator (SRL)
ROCKVILLE, MD

Repositories

Trans NIH Facility

The Specimen Resource Locator (SRL) is a biospecimen resource database designed to help researchers locate resources that may have the samples needed for their investigational use. This publicly searchable database includes information about biospecimen banks Read More...

NCI LASP Mouse Modeling & Cryopreservation (MMC)
Frederick, MD

Core Facility

Repositories

The Mouse Modeling Core assists NIH investigators by generating and preserving genetically-engineered mouse strains. Services include scientific consultation, gene-targeting in mouse embryonic stem cells, micro-injection of nucleic acids, proteins, or ES cells into mouse embryos, 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...

NCI Molecular Cytogenetics Core Facility
Frederick, MD

Core Facility

Molecular Cytogenetics Core Facility facilitates the assessment of structural and numerical genomic changes in pre-cancer and cancer research models. This core provides comprehensive support for the cytogenetic analysis of cells from human and research animal Read More...

Large STARS Submission Instructions

Web Page

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...

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...

Pediatric Oncology Branch: Behavioral Health Core
Bethesda, MD

Collaborative

The Behavioral Health Core (BHC) is comprised of the two separate but interrelated components: Psychosocial Support and Research Program, and, Health Psychology and Neurobehavioral Research Program., These teams provide specialized expertise, such as patient-reported and Read More...

Differential Scanning Calorimetry (DSC) – Microcal VP-DSC

Web Page

Back Services: Biophysics Facility offers DSC as an open-access instrument. First-time users must complete training before gaining access to the instrument reservation calendar. Location: Building 50, room 3123 Description: The differential scanning calorimeter measures the constant pressure Read More...

Center for Structural Biology: Biophysics Resource
Frederick, MD

Core Facility

The Biophysics Resource (BR) was established in January 2001. Our mission is to provide CCR investigators with access to both the latest instrumentation and expertise in characterizing the biophysical aspects of systems under structural investigation. The 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...

NIH Clinical Center Department of Laboratory Medicine
Bethesda, MD

Core Facility

Trans NIH Facility

The Department of Laboratory Medicine provides state-of-the-art laboratory testing in support of Clinical Center patient care and will serve as a center of excellence in research and training in laboratory medicine, particularly in areas which Read More...

CCR Protein Characterization Laboratory (PCL)
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...

NCI Synthetic Biologics Core
Frederick, MD

Core Facility

The research conducted within the Synthetic Biologics Core (SBC) Facility has a dual role: Generate chemical biology tools and drug candidates for molecular targets identified by NCI research groups, Develop novel effective methods and tools Read More...

Mass Photometer (MP) – Refeyn OneMP

Web Page

Back Services: Biophysics Facility offers MP as an open-access instrument.  First-time users must complete a short training session before gaining access to the instrument training calendar.  Training includes mass distribution analysis of a Read More...

Fluorescence – PTI/Horiba QuantaMaster

Web Page

Back Services: Biophysics Facility offers fluorometers as open-access instruments.  First-time users must complete a short training session before gaining access to the instrument reservation calendar. Location: Building 50, room 3226 Description: Some substances reemit light after Read More...

Bloomington Drosophila Stock Center
Bloomington, IN

Repositories

Trans NIH Facility

The Bloomington Drosophila Stock Center (BDSC) collects, maintains, and distributes genetically defined strains of Drosophila melanogaster for research and education. The BDSC supports a large, worldwide community of scientists using Drosophila as a model organism Read More...

NCI Patient-Derived Models Repository (PDMR)
Bethesda, MD

Collaborative

Repositories

The National Cancer Institute (NCI) is developing a national repository of Patient-Derived Models (PDMs) comprised of patient-derived xenografts (PDXs), patient-derived organoids (PDOrg), and in vitro patient-derived tumor cell cultures (PDCs) and cancer-associated fibroblasts (CAFs). These Read More...

Technology Video Library

Web Page

The OSTR offers cutting-edge technology platforms to the CCR scientific community through centralized facilities. The videos accessed through this page are designed to introduce the various scientific methodologies OSTR makes available through the cores on Read More...

Trans-NIH Metabolomics Core (TNMC)
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...

NIH Biowulf Computational Cluster
Bethesda, MD

Trans NIH Facility

The NIH Biowulf Cluster provides researchers with a world-class system to assist in solving complex biomedical problems as diverse as gene variation in worldwide human populations, deep learning to model protein structures, and PET brain Read More...

NIBIB Biomedical Engineering and Physical Science (BEPS)
Bethesda, MD

Trans NIH Facility

The Biomedical Engineering and Physical Science (BEPS) shared resource supports NIH’s intramural basic and clinical scientists on applications of engineering, physics, imaging, measurement, and analysis. BEPS is centrally located on the main NIH campus Read More...

NHLBI Biophysics Core
Bethesda, MD

Core Facility

The Biophysics Core’s mission is to provide support in the study of macromolecular interactions, dynamics, and stability by offering consultations, training, professional collaborations, and instrument access. General Services: Multi-technique molecular interaction studies, Kinetic and Read More...

Microfluidic Diffusion Sizing (MDS) - Fluidity One-M

Web Page

Back Services: Biophysics Facility offers MDS as an open-access instrument. First-time users must complete a short training session before gaining access to the instrument reservation calendar. Training includes the KD determination of a standard molecular Read More...

Bio-Layer Interferometry (BLI) - Octet RED96

Web Page

Back Services: Biophysics Facility offers Octet as an open-access instrument.  First-time users must complete a short training session before gaining access to the instrument reservation calendar.  Training includes a full analysis of a Read More...

NCI Center for Advanced Preclinical Research (CAPR)
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...

Isothermal Titration Calorimetry (ITC) – iTC200

Web Page

Back Services: Biophysics Facility offers ITC calorimeters as open-access instruments.  First-time users must complete a short training session before gaining access to the instrument reservation calendar.  Training includes performing a test experiment and Read More...

Biophysics Core Technologies

Web Page

Home About the Biophysics Core Biophysics Core Services [tabby title="Instrumentation"] NHLBI Biophysics Core The Biophysics Core Facility: Overview Core Facilities provide scientific resources, cutting-edge technologies and novel approaches to support DIR scientists. Availability of Read More...

Multi-Angle Light Scattering (MALS)

Web Page

Back Services: We offer a limited sample processing service using standard SEC-MALS and FFF protocols.  This service is intended for the occasional users of this system.  Researchers who expect to use this instrument Read More...

BTEP Video Archive of Past Classes

Web Page

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...