Search Results for: high resolution viscoelastic property mapping

Most alignment algorithms rely on the construction of auxiliary data structures, called indices, which are made for the sequence reads, the reference genome sequence, or both. Mapping algorithms can largely be grouped into two categories Read More...

09/17/2024 - This hour and half online training will explore the topics of perception and cognition, and how these apply to data visualization. This class will also teach you how to visualize your data using ggplot2. Read More...

06/20/2024 - Clustered heat maps are widely used for visualizing patterns in molecular profiling data. But traditional, static heat maps have significant limitations when applied to large datasets (1000s of elements per axis). Presented in this Read More...

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...

05/18/2022 - During the May Accelerating Therapeutics for Opportunities in Medicine (ATOM) Webinar Series, discover how computing and machine learning can accelerate molecular optimization for cancer and infectious disease therapeutics. The  ATOM Consortium  is a public-private Read More...

11/19/2021 - High-resolution, whole-brain microscopy provides unprecedented new insights into the brain’s structural organization, molecular diversity and connectivity. The Brain Image Library (BIL) provides infrastructure that facilitates the sharing of this valuable data, enabling investigators Read More...

02/22/2021 - coming Monday we'll be having a guest lecture by Dr. Jian Peng from UIUC. Abstract: Recent advances in functional genomics have enabled large-scale measurements of molecular interactions, functional activities, and the impact of Read More...

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...

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...

11/29/2012 -   The Integrative Genomics Viewer (IGV) is a high-performance viewer that efficiently handles large heterogeneous data sets, while providing a smooth and intuitive user experience at all levels of genome resolution. A key characteristic of Read More...

Widespread popularity. Used to create informative plots quickly. Used to create high resolution plots. Used to customize many package specific plots. Over 100 related extensions Outside of base R plotting, one of the most popular packages Read More...

Widespread popularity. Used to create informative plots quickly. Used to create high resolution plots. Used to customize many package specific plots. Over 100 related extensions ::: {.notes} Outside of base R plotting, one of the most popular Read More...

Lesson 8 introduced the FASTQ file, which is the format used to store NGS data. Participants also learned about assessing quality of the sequences in FASTQ files using FASTQC. This step is essential as it will Read More...

Lesson 7 introduced the FASTQ file, which is the format used to store Next Generation Sequencing (NGS) data. Participants also learned about assessing quality of the sequences in FASTQ files using the tool FASTQC. This step Read More...

QIAGEN  Ingenuity Pathway Analysis (IPA) works with differential expression data (NGS, microarray, proteomics, and others) or genetic variant data to extract various biological insights. QIAGEN Ingenuity Pathway Analysis (IPA) High Impact Features and Functionality in Read More...

07/24/2025 - The "Data Vi ualization in R" erie focu e on u ing ggplot and the broader tidyver e eco y tem to create in ightful and cu tomizable vi ualization . It cover Read More...

01/21/2025 - The "Data Visualization in R" series focuses on using ggplot and the broader tidyverse ecosystem to create insightful and customizable visualizations. It covers key principles of data visualization, from basic plots to Read More...

07/25/2024 - This hour and half in-person training will explore the topics of perception and cognition, and how these apply to data visualization. There will also be a discussion on “pre-attentive” properties Read More...

07/24/2024 - This hour and half in-person training will explore the topics of perception and cognition, and how these apply to data visualization. There will also be a discussion on “pre-attentive” properties Read More...

Transformed data will be available in the SCT assay, which is set as the default after running sctransform. During normalization, we can also remove confounding sources of variation, for example, mitochondrial mapping percentage The glmGamPoi Read More...

Alignment RNASeq Mapping Challenges The majority of mRNA derived from eukaryotes is the result of splicing together discontinuous exons, and this creates specific challenges for the alignment of RNASEQ data. Mapping Challenges Reads not perfect Read More...

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...

High resolution single cell profiling assays have provided an unprecedented view of many biological systems and processes, but the spatial context in which this biology is occurring is often crucial. Spatial profiling, including spatial transcriptomic Read More...

Data visualization with ggplot2 Objectives To learn how to create publishable figures using the ggplot2 package in R. By the end of this lesson, learners should be able to create simple, pretty, and effective figures. Read More...

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...

04/08/2021 - https://nih-irp-singlecell.github.io/SC-UsersGroup/ Presenter: George Emanuel PhD, Co-founder Vizgen, Director of Technology and Partnerships. Abstract: Biological systems are comprised of numerous cell types, intricately organized to form functional tissues and organs. Cell Read More...

10/28/2020 - Register The Sequencing Facility (https://ostr.cancer.gov/resources/fnl-cores/sequencing-facility) is a second and third generation high-throughput sequencing core established by the Center for Cancer Research (CCR). Sequencing Facility’s (SF’s) primary Read More...

09/10/2020 - Speaker: Shai Shen-Orr, Ph.D., Associate Professor, Israel Institute of Technology Registration Recent technological advances allow us to probe the immune system at high resolution and explore its variation between individuals. Yet the question Read More...

06/28/2020 - The overarching goal of our work is to implement data analysis and informatics tools for integration of biological mass spectrometry data (proteomics and metabolomics) with genomic / transcriptomic information to advance cancer research. We are Read More...

The core provides access to several different state-of-the-art 3D microscopes as well as computers to visualize and process image data. The facility houses equipment for 2D or 3D imaging of fixed and living specimens. High Read More...

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...

OMAL focuses its research and development activities to quantitatively understand the molecular basis of three-dimensional (3D) cell organization, motility, invasion, and differentiation using fixed samples and live, 3D tissue culture models (i.e., translational models). Read More...

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...

The Biological Products Core provides the AIDS research community with high-quality purified preparations of various strains of Human Immunodeficiency Virus (HIV) and Simian Immunodeficiency Virus (SIV), economically prepared by leveraging the economy of scale. Materials Read More...

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...

The CCR Microscopy Core provides NCI investigators access to state-of-the-art imaging tools and techniques, including light sheet fluorescence, high-resolution confocal, multi-photon, and super-resolution microscopy. The mission of the CCR Microscopy Core Facility is to support Read More...

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...

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...

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...

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...

The NMR Facility for Biological Research operates six NMR spectrometers with proton resonance frequencies from 850 to 500 MHz. Three of the highest field spectrometers (850, 700, 600) are equipped with higher sensitivity cryoprobes optimized for high-resolution multi-dimensional and relaxation Read More...

Employing spatial biology techniques enables acquisition of transcript and protein data from intact tissue sections, and in turn, spatial distribution information and cellular interaction patterns are revealed.

LCMB Microscopy Core offers live cell imaging technologies as well as super-resolution, fluorescence lifetime and confocal imaging systems for immunofluorescence. Our confocal instruments are a Leica SP8 laser scanning confocal microscope and a Nikon spinning Read More...

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...

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...

The facilities at AIM are available for use by the entire NIH intramural research community. While we welcome users with any size imaging project, AIM specializes in large, yearlong (or longer), collaborative research efforts with Read More...

What is Xenium? Xenium is a high-resolution, imaging-based in situ spatial profiling technology from 10x Genomics that allows for simultaneous expression analysis of RNA targets (currently in range of 100’s) within the same tissue section. Read More...

Employing spatial biology techniques enables acquisition of transcript and protein data from intact tissue sections, and in turn, spatial distribution information and cellular interaction patterns are revealed.

What is bioinformatics? Bioinformatics integrates biology, statistics, and computer science to develop and apply theory, methods, and tools for the collection, storage, and analysis of biological and related data. Bioinformatics plays a critical role in Read More...

Learning Objectives This tutorial was designed to demonstrate common secondary analysis steps in a scRNA-Seq workflow. We will start with a merged Seurat Object with multiple data layers representing multiple samples. Throughout this tutorial we Read More...

Data visualization with ggplot2 Objectives To learn how to create publishable figures using the ggplot2 package in R. By the end of this lesson, learners should be able to create simple, pretty, and effective figures. Read More...

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...

10/03/2023 - Multiplexed antibody-based imaging enables the detailed characterization of molecular and cellular organization in tissues. Significant advances in the field now allow high-parameter data collection (60+ targets); however, considerable expertise and capital are needed to validate Read More...

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...

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...

Lesson 13: Aligning raw sequences to reference genome Before getting started, remember to be signed on to the DNAnexus GOLD environment. Lesson 11 Review In Lesson 11 we learned to aggregate multiple FASTQC reports into one using MultiQC, Read More...

Visualizing clusters with heatmaps Objectives Introduce the heatmap and dendrogram as tools for visualizing clusters in data. Learn to construct cluster heatmap using the package pheatmap . Learn how to save a non-ggplot2 plot. Introduce ggplotify Read More...

10/19/2022 - Speaker: Ron Germain, M.D., Ph.D. NIH Distinguished Investigator NIAID, NIH Dr. Germain received his Sc.B. and Sc.M. from Brown University in 1970 and his M.D. and Ph.D. from Harvard Read More...

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...

03/08/2016 - BTEP Workshop on Exome-Seq Data Analysis and Variant Annotation (2-day) This workshop will cover the basics and best practices of exome-seq analysis including downstream interpretation of variants using a variety of in-house, open-source and Read More...

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...

There are a number of core facilities available to NCI researchers. See more information from the Office of Science and Technology Resources. We most commonly see data from the following cores: CCR Sequencing Facility (CCR-SF) Read More...

08/07/2025 - Thi one-hour online training will provide a high-level overview of Python coding concept , a well a ome of the integrative development environment (IDE ,&nb p; uch a Jupyter notebook ) u ed for Python Read More...

07/29/2025 - Globus is a GUI-based software suitable for efficiently transferring large datasets such as those generated from Next Generation Sequencing (NGS) to and from high performance computing systems  (ie. NIH’s Read More...

07/21/2025 - Profe or Angela Brook i a leader in the development and application of high-throughput genomic and computational approache to inve tigate gene regulation. Her re earch focu e on characterizing mutation impacting RNA expre Read More...

07/10/2025 - Diagno tic error remain a leading cau e of preventable harm in healthcare, particularly in high- take , time-pre ured environment like the emergency department. Large Language Model (LLM ) offer promi ing new capabilitie for Read More...

07/02/2025 - Thi 45-minute online training provide a high-level overview of recent development in artificial intelligence (AI). Each e ion highlight emerging trend , tool , and u e ca e in the evolving AI land cape, with Read More...

06/18/2025 - This one-hour online training will provide a high-level overview of Python coding concepts, as well as some of the integrative development environments (IDEs,  such as Jupyter notebooks ) used for Python coding. Python is a Read More...

06/17/2025 - Explore tran cription factor binding ite analy i and peak calling. Thi training will introduce ChIP- eq data analy i followed by a tep-by- tep live demon tration of a ChIP- eq analy i Read More...

06/17/2025 - Due to the growing popularity of high-plex patial proteomic and tran criptomic technique , many analy i platform have been propo ed to make en e of the re ulting data. Nonethele , mo t platform Read More...

06/16/2025 - In 2017, Dr. Rol joined the World Health Organization' International Agency for Re earch on Cancer (IARC-WHO), motivated to improve equal acce to high-quality healthcare for everyone. Currently, he lead an IARC team dedicated to Read More...

06/13/2025 - Dr. Fuhai Li,&nb p;A ociate Profe or at the chool of Medicine and Computer cience & Engineering, Wa hington Univer ity, will pre ent novel approache that combine large language Read More...

06/12/2025 - During thi one-hour online training, participant will receive an overview of MATLAB, a high-level programming language and interactive environment widely u ed in cientific computing, engineering, and data analy i . In addition, thi training Read More...

06/10/2025 - Under tand how to identify and interpret variant . Thi training will introduce Exome equencing data analy i followed by a tep-by- tep live demon tration of an exome equencing analy i workflow u ing Read More...

05/08/2025 - This one-hour online training will provide a high-level overview of Python coding concepts, as well as some of the integrative development environments (IDEs,  such as Jupyter notebooks ) used for Python coding. Python is a Read More...

04/03/2025 - DAVID (the Database for Annotation, Visualization and Integrated Discovery) provides a comprehensive set of functional annotation tools for investigators to understand the biological meaning behind large lists of genes acquired from high-throughput assays such Read More...

03/21/2025 - Partek Flow is a point-and-click software for analyzing multi-omics sequencing data including DNA, bulk and single cell RNA, spatial transcriptomics, ATAC and ChIP. Input options include FASTQ, BAM, or expression tables, thus enabling scientists Read More...

03/20/2025 - This class will serve as a review for essential Unix commands needed for bioinformatics. It is suitable for those who took BTEP's recent Bioinformatics for Beginners course series ( https://bioinformatics.ccr.cancer.gov/ Read More...

03/13/2025 - UCSC Xena showcases seminal cancer genomics datasets from The Cancer Genome Atlas (TCGA) and the Pan-Cancer Atlas, as well as the Genomic Data Commons, Pan-cancer Atlas of Whole Genomes, and the International Cancer Genome Read More...

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...

03/11/2025 - Clustering is an unsupervised machine learning technique that groups together similar objects (samples, individuals, etc.). Determining the similarity between objects requires a distance metric. This talk provides a brief overview of distance metrics, hierarchical ( Read More...

02/25/2025 - Quality assessment may reveal low quality sequences and/or contaminations such as adapters in NGS data. Therefore, it is important to perform cleanup to ensure that the input for downstream analyses tools is of Read More...

Register now for an upcoming seminar on January 22, 2025 , “Revealing Tumor-Promoting Signals in Breast Cancer Subtypes: A NIDAP Analysis of Single-Cell Data” . This one-hour talk will feature guest speaker and NIDAP developer, Josh Meyer, who will Read More...

12/19/2024 - ggplot2 is a popular R package for data visualization that uses layers to build high quality plots. In this lesson, you will learn to use ggplot2 to create and modify scatter plots including a Read More...

12/17/2024 - In this one-hour session we will describe resources available to NIH researchers for performing bioinformatics data analysis. These include trainings by specific groups or institutes (NCI, NIH Library, ODSS), licenses available for online learning ( Read More...

12/12/2024 - Knowledge of Unix command line is advantageous for scientists who are new to bioinformatics, as many tools are designed to run on Unix-like systems. High performance computing systems (e.g., NIH Biowulf) also require Read More...

12/10/2024 - This one-hour online training will provide a high-level overview of Python coding concepts, as well as some of the integrative development environments (IDEs,  such as Jupyter notebooks ) used for Python coding. Python Read More...

11/26/2024 - Dr. Daniel Orringer received his M.D. from The Ohio State University, completed his residency in neurological surgery at the University of Michigan Health System, and fellowship training in neuro-oncology at the Massachusetts General-Brigham Read More...

11/20/2024 - ggplot2 is a popular R package for data visualization that uses layers to build high quality plots. There are over 100 packages that extend the functionality of ggplot2. This session of the BTEP Coding Club Read More...

11/12/2024 - This one-hour online training will provide a high-level overview of Python coding concepts, as well as some of the integrative development environments (IDEs,  such as Jupyter notebooks ) used for Python coding. Python Read More...

10/29/2024 - In this presentation, you will get an overview of the Cancer Digital Slide Archive (CDSA) platform. CDSA is an open source, web-based platform for storage, visualization, and management of digitized whole slide images.& Read More...

10/17/2024 - Please join us on Thursday for our third talk in the Biowulf 25th Anniversary Seminar Series: Explorations in use of Synthetic Images for Biomedical ML/AI Research This talk will be videocast at: https:// Read More...

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...

As a multi-user facility, the different instruments provide a wide range of imaging modes for EIB scientists, from standard immunohistochemistry, through brightfield and wide-field epifluorescence imaging, to highly complex live cell confocal microscopy and super-resolution Read More...

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...

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...

Bruker AVANCE 400 and 500 MHz NMR instruments. Helium Cryoprobe technology on the 500 MHz machine for added sensitivity, especially for Carbon-13 spectra. Access to a second 500 MHz instrument with Prodigy Liquid Nitrogen-cooled cryoprobe. User Accounts can be Read More...

The Mouse Imaging Facility (MIF) is a shared, trans-NIH intramural resource for animal imaging studies. MIF provides access to state-of-the-art radiological imaging methods optimized for mice, rats, other animals, and tissue samples. MIF provides intellectual, Read More...

CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More New Resources on CREx Interested in imaging large scale biological samples?  Volume electron microscopy allows for Read More...

CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More Technology Event Biophysical Methods for Protein Interactions Monday, May 15 – Friday, May 19, 2023 This workshop will review the strategies of Read More...

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...

CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More New Resources on CREx NIH NeuroBioBank (NBB) The NBB provides researchers with access to human post-mortem brain tissue Read More...

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...

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...

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...

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. We would greatly appreciate Read More...

Back Services: This instrument is not user accessible.  We provide both data collection and data analysis services. Location: Building 50, room 3331 Description: An analytical ultracentrifuge is equipped with absorption and interference optical systems that monitor Read More...

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...

Discover expert help with analysis, processing applications, and licensed software packages.

[tabby title="Home"] About NICE-NIH Intramural CryoEM Consortium  NIH Intramural CryoEM Consortium (NICE) serves intramural investigators in all NIH IC’s. NICE provides access to state-of-the-art Titan Krios cryo-electron microscopes for atomic-resolution structure determination of Read More...

What is Visium FFPE v2 with CytAssist? Visium FFPE v2 is sequencing-based spatial profiling technology developed by 10x Genomics. This assay can take mouse or human tissue sections on normal glass slides as input and Read More...

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...

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 Intramural CryoEM Consortium (NICE) serves intramural investigators in all NIH IC’s. NICE provides access to state-of-the-art Titan Krios cryo-electron microscopes for atomic-resolution structure determination of protein, macromolecular complexes, membrane receptors, cellular organelles, and Read More...

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...

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...

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...

The Pan-Microbial Serology Facility (PMSF) is part of the Center for Cancer Research (CCR) at the National Cancer Institute (NCI). The PMSF focuses on determining individualized pan-microbial immune profiles associated with human diseases including immunological Read More...

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...

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...

The NHLBI Murine Phenotyping Core carries out physiologic and behavioral testing in a diversity of mouse models for NHLBI and other NIH institutes. Established Technologies: Cardiovascular Phenotyping, Metabolic Phenotyping, Pulmonary Phenotyping, Behavioral Phenotyping, Exercise Physiology, Read More...

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...

CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More NIH Intramural Core Resources NHGRI Flow Cytometry Core The Core performs high quality single cell analysis through the Read More...

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...

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...

Discover expert help with analysis, processing applications, and licensed software packages.

The Molecular Targets Program (MTP) is an organizational entity within the Center for Cancer Research (CCR) at NCI. The MTP provides the focus and infrastructure to enable CCR tenured and tenure-track Principal Investigators to initiate Read More...

The Metabolic Clinical Research Unit (MCRU) opened in 2007 as a key component of the Strategic Plan for NIH Obesity Research . The NIDDK worked closely with the Clinical Center to design the Unit, which houses state-of-the-art Read More...

Discover expert help with analysis, processing applications, and licensed software packages.

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...

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...

Radiation Oncology Branch is part of CCR. Bioinformatics core is a collaborative resource to support ROB branch and provide service to ROB investigators from NCI and other Institutes access to new technologies, bioinformatics, statistical analysis Read More...

The NIH Center for Human Immunology, Inflammation, and Autoimmunity (CHI) is a trans-NIH resource whose mission is to provide a collaborative hub of advanced translational immunology for NIH clinical and pre-clinical studies. This uniquely structured Read More...

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...

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...

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...

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...

September 8, 2022 crex.nih.gov CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More Site Spotlight Trans-NIH Intramural Sequencing Center (NISC) NISC is a multi-disciplinary genomics facility that Read More...

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...

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...

The Crystallization Facility provides an automated environment for setting up crystallization experiments in a high-throughput format, storing the resulting plates under controlled conditions, and monitoring the status of prepared droplets remotely. The Facility is in Read More...

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...

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...

CREx Monthly Newsletter Learn about the NIH Collaborative Research Exchange (CREx), Core Facilities, Webinars, & More. New Resources on CREx NIMH Human Brain Collection Core (HBCC) The HBCC obtains human brain tissue, hair, and blood Read More...

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...

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...

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...

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...

The BRB Preclinical Biologics Repository is a central repository that supplies reagents to the broad research community. This NCI-sponsored repository is managed by NCI's Biological Resources Branch (BRB) in the Development Therapeutics Program (DTP) of Read More...

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...

In support of Intramural Research Program (IRP) scientists, DOHS provides training, consulting, and resources to ensure that laboratory equipment is used and maintained properly and safely. We provide expert safety and health consulting support for Read More...

The Center for Advanced Tissue Imaging (CAT-I) is an NIAID and NCI supported effort involving collaborative studies between experts in the Laboratory of Immune System Biology, DIR, NIAID and investigators in the DIR, NIAID and Read More...

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...

The Blood Processing Core monitors viral load in patients with HIV and performs sequential studies using samples obtained from patients with cancer, AIDS, chronic granulomatous disease, or other diseases associated with immunologic dysfunction. The core Read More...

The primary objective of the Protein Technology Core (PTC) is to establish an experimental screening pipeline for single-domain antibodies termed nanobodies. Nanobodies are antibody fragments consisting of a single monomeric variable antibody domain. The PTC, Read More...

The CHTN is a unique NCI-supported resource that provides human tissues and fluids from routine procedures to investigators who utilize human biospecimens in their research. Unlike tissue banks, the CHTN works prospectively with each investigator Read More...

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...

Back Services: Biophysics Facility offers MST 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 Read More...

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

The Advanced Biomedical Computational Sciences (ABCS) group provides technology development, scientific consultation, collaboration and training, research, software development, and high-performance computing support. ABCS encompasses specialized groups focusing on machine learning applied to the interpretation of 2 Read More...

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...

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...

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...

Back Services: Biophysics Facility offers Tycho as an open-access instrument.  This instrument is very easy to use, and no formal training is required.  Core staff will help with their first experiment of new Read More...

The Antibody Engineering Program (AEP) is located at the Laboratory of Molecular Biology, which is part of the Center for Cancer Research (CCR), an intramural program at the National Cancer Institute (NCI). AEP focuses on Read More...

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...

The Mouse Metabolic Phenotyping Center (MMPC)Live Program provides standardized, high quality, unique, and hard to find phenotyping services for mouse models of diabetes, obesity, and related metabolic disorders. Emerging as the next iteration of Read More...

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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...

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...

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...

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...

Back Services: Biophysics Facility offers ZetaView as an open-access instrument. First-time users must complete a short training session before using it for the first time. Training includes instrument calibration and size analysis of a standard Read More...

The Flow Cytometry Core (LGI) offers established technologies to support studies using flow cytometry and cell sorting. Established Technologies Applications that run on FACS Caliburs include: Immunophenotyping (up to 4-color), Intracellular markers, including cytokines and Read More...

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...

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...

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...

Services: Biophysics Facility offers CD as an open-access instrument.  First-time users must complete a short training session before gaining access to the instrument reservation calendar. Location: Building 50, room 3123 Description: CD spectroscopy measures the difference Read More...

Back Services: Biophysics Facility offers CD as an open-access instrument.  First-time users must complete a short training session before gaining access to the instrument reservation calendar. Location: Building 50, room 3123 Description: CD spectroscopy measures the Read More...

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...

The Chemistry and Synthesis Center (CSC) of the National Heart, Lung, and Blood Institute (NHLBI) provides IRP scientists with targeted imaging probes and chemical tools that help accelerate cell-based assays, in vivo imaging studies, and Read More...

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...

Objectives To explore Bioconductor, a repository for R packages related to biological data analysis. To learn about options for report generation with R: RMarkdown and Quarto. Introducing Bioconductor Bioconductor is both an open source project Read More...

Lesson 3: Creating a feature table Lesson Objectives 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 Read More...

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...

Lesson 13: Aligning raw sequences to reference genome Before getting started, remember to be signed on to the DNAnexus GOLD environment. Lesson 11 Review In Lesson 11 we learned to aggregate multiple FASTQC reports into one using MultiQC, Read More...

Lesson 16: RNA sequencing review and classification based analysis Before getting started, remember to be signed on to the DNAnexus GOLD environment. Review In the previous classes, we learned about the steps involved in RNA sequencing Read More...

This page uses content directly from the Biostar Handbook by Istvan Albert. Learning objectives: 1. Understand what a sequence alignment is and how different algorithms can effect alignments. 2. Learn how scoring matrices and gap penalties (gap Read More...

Visualizing clusters with heatmaps Objectives Introduce the heatmap and dendrogram as tools for visualizing clusters in data. Learn how to work with the package pheatmap . Learn how to save a non-ggplot2 plot. Introduce ggplotify to Read More...

Visualizing clusters with heatmaps Objectives Introduce the heatmap and dendrogram as tools for visualizing clusters in data. Learn to construct cluster heatmap using the package pheatmap . Learn how to save a non-ggplot2 plot. Introduce ggplotify Read More...

Objectives To explore Bioconductor, a repository for R packages related to biological data analysis. To generate high quality data reports using R Markdown to make data analysis more reproducible. Reminder: Uploading files from RStudio Server Read More...

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...

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...

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...

11/19/2024 - Partek Flow enables scientists to construct analysis workflows for multi-omics sequencing data including DNA, bulk and single cell RNA, spatial transcriptomics, ATAC and ChIP. It is a point-and-click software hosted on Biowulf, the NIH Read More...

11/06/2024 - Join Our Training on Spatial Omics Data Analysis with MAWA (Multiplex Analysis Web Apps).   Want to learn how to process and analyze your spatial proteomics/transcriptomics data? Join us for four virtual hour-long sessions Read More...

10/29/2024 - Join Our Training on Spatial Omics Data Analysis with MAWA (Multiplex Analysis Web Apps).   Want to learn how to process and analyze your spatial proteomics/transcriptomics data? Join us for four virtual hour-long sessions Read More...

10/24/2024 - NIH Text Mining and Natural Language Processing SIG is pleased to welcome you to this special event featuring two extraordinary speakers focused on the applications of Deep Learning in Computational Biology.  & Read More...

10/22/2024 - Join Our Training on Spatial Omics Data Analysis with MAWA (Multiplex Analysis Web Apps).   Want to learn how to process and analyze your spatial proteomics/transcriptomics data? Join us for four virtual hour-long sessions Read More...

10/15/2024 - Join Our Training on Spatial Omics Data Analysis with MAWA (Multiplex Analysis Web Apps).   Want to learn how to process and analyze your spatial proteomics/transcriptomics data? Join us for four virtual hour-long sessions Read More...