Search Results for: Digital Image Capture (Whole slide Bright field/Fluorescent)

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 NCI High-Throughput Imaging Facility (HiTIF) works in a collaborative fashion with NCI/NIH Investigators by providing them with the necessary expertise, instrumentation, and software to develop and execute advanced High-Throughput Imaging (HTI) assays. These 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...

The LCBG Microscopy Core offers imaging technologies and training. The Core has established instrumentation for for 2D and 3D imaging of both fixed and living specimens.

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.

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 CCR Building 41 Flow Cytometry Core is a full-service facility within the Center for Cancer Research that supports over 150 users representing 26 laboratories. The Core Facility provides instrument and software training, technical expertise, assay development, and 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...

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...

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...

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...

The Magnetoencephalography (MEG) Core Facility specializes in MEG, a non-invasive procedure similar to electroencephalography (EEG), and aims to support research to better understand of the functioning of the brain. Established Technologies Magnetoencephalography (MEG) is a Read More...

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...

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...

TCIA is a service which de-identifies and publishes medical images of cancer for download. New data proposals are reviewed by an Advisory Group on a quarterly basis. The data are organized as “collections”; typically, patients’ 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...

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 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...

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...

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...

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...

The Division of Veterinary Resources Animal Surgery has supported large animal research and clinical care for more than 40 years. DVR surgeons provide outstanding and highly specialized large animal (rabbits, ungulates, etc.) research support in a 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...

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...

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...

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...

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...

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 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...

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...

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...

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...

The Neurorehabilitation and Biomechanics Research Section (also referred to as the NAB LAB) is a multidisciplinary group of highly qualified scientists, clinical and technical staff, and trainees with diverse backgrounds including medical, physical therapy, neuroscience 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...

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...

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 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...

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...

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 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...

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...

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 data 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...

In order to meet increasing demands from both NIH intramural and extramural communities for access to a small angle X-ray scattering (SAXS) resource, the Center for Cancer Research (CCR) under the leadership of Drs. Jeffrey 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.

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 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...

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.

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 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...

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...

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...

.row { display: flex; justify-content: space-around; align-items: flex-start; margin: 20px; } .column { text-align: center; padding: 10px; width: 30%; } .column img { display: block; margin: 0 auto; width: 150px; height: 150px; } .column strong { display: block; margin-top: 10px; } Background: Intravital microscopy (IVM) Read More...

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...

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...

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...

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...

Radiology and Imaging Sciences provides imaging services for National Institutes of Health (NIH) Clinical Center patients participating in research protocols conducted by the various NIH institutes. Services include X-rays, fluoroscopy, ultrasound, magnetic resonance imaging (MRI) Read More...

Many established and emerging technologies are available to CCR scientists.  This technology-rich environment makes the CCR a unique place to conduct scientific research.  Through the OSTR, the CCR continues to find Read More...

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...

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 Electron Microscopy Core (EMC), formerly known as Electron Microscopy Lab (EML),  offers investigators access to unique expertise and EM technologies that allow CCR Investigators to explore new avenues of research in order to enhance 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...

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...

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...

CCR VOLUME Electron Microscopy Core (CVEMC),  formerly known as volume Electron Microscopy (vEM), aims to develop new techniques in volume electron microscopy (vEM) and, in collaboration with CCR Investigators, apply these techniques to research cell Read More...

[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...

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 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...

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...

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...

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...

03/25/2025 - Agreement Across 10 Artificial Intelligence Models in Assessing HER2 in Breast Cancer Whole Slide Images: Findings from the Friends of Cancer Research Digital PATH Project For more information, please contact Aniruddha Ganguly, Ph.D.

06/15/2021 - Meeting Link: https://cbiit.webex.com/cbiit/j.php?MTID=m8f1460fe5079163dd2a2a4e2641c227f TOPIC: AI in Image Analysis, presented by CCR: AIR and High Throughput Imaging Facility Deep Read More...

05/28/2024 - Frederick Research Computing Environment (FRCE) and Computational Sciences Series In this session, we will explore how machine learning can be used to analyze whole slide pathological images (WSIs). We will showcase how to utilize Read More...

10/26/2023 - Additional Connection information: Meeting ID: 248 393 722 628       Passcode:  kcALva

10/10/2024 - Digital Pathology has advanced significantly in the past decade, evolving beyond assisting pathologists to now informing molecular and genetic properties of tumors. Recent breakthroughs in machine learning and AI, particularly in big data and Read More...

06/15/2021 - Registration: https://btep.ccr.cancer.gov/classes/ai_two/ Meeting Link: https://cbiit.webex.com/cbiit/j.php?MTID=m8f1460fe5079163dd2a2a4e2641c227f Description: Deep learning is a subclass Read More...

11/16/2021 - The NCI HALO cloud deployment provides NCI researchers with powerful image management and analysis tools for digital pathology and numerous other 2D imaging applications. Key capabilities include expert user assessment, image archiving, and advanced Read More...

03/06/2024 - The NCI Cancer Diagnosis Program in the Division of Cancer Treatment and Diagnosis is hosting a workshop, “Digital Pathology Imaging (DPI) in Cancer Clinical Trials and Research.” This workshop will Read More...

04/10/2025 - This one hour online training introduces participants to the tools and techniques for analyzing and quantifying microscopy images using MATLAB’s low-code algorithms. Participants will learn how to preprocess images, segment regions Read More...

01/14/2026 - During this event, Dr. Emilie Roncali, an associate professor at UC Davis, is tackling an intersection of two critical data science concepts in cancer research: theranostics and digital twins. Dr. Roncali will give you Read More...

07/23/2025 - This presentation will explore the next emerging stage where biobanking is characterised by being part of system - Biobanking 4.0. Biobanking has always been about data generation with tissue specimens providing the biological and genomic Read More...

09/12/2022 - We welcome members of the NIH to join us for a seminar event, covering multiplexed, direct digital gene expression profiling applications utilizing NanoString nCounter expression profiling technology as well as spatial biology discoveries generated Read More...

04/19/2024 - Dear Colleagues,    This webinar will introduce TumorDecon, a computational tool that's at an early stage of contributing to the intersection of bioinformatics and oncology.   TumorDecon aims to Read More...

01/19/2024 - Trey Ideker, Ph.D., is a professor of medicine, bioengineering, and computer science, and former chief of genetics at the University of California San Diego (UCSD). Additionally, he is director or co-director of the Read More...

07/09/2025 - From image analy i to federated learning and multimodal modeling, generative AI can be u ed to tudy ob ervational ucce ion acro cale and data type . At DCEG' Data cience and Engineering Re Read More...

11/17/2020 - Please join us for a brief overview of NCI’s HALO cloud deployment and the first in a series of talks describing HALO-enabled research. Dr. Noemi Kedei, MD, CCR, will cover examples of using Read More...

04/08/2025 - Dive into the specialized use of mixed-effects models tailored to address the challenges of inter-reader variability in medical imaging studies. This presentation delves into how these models adeptly manage the random effects introduced by Read More...

08/10/2022 - For our next CDSL webinar we will have two fellows’ talks from Dr. Zisha Zhong and Arati Rajeevan . Zisha’s talk details: Title:  Multi-task Feature Learning to train Interpretable Encoders on Histopathology Images Digital Read More...

07/11/2024 - Please join us for this special event featuring three speakers on the topic of Single-Cell Spatial Transcriptomics. George Zaki, Ph.D., Director, Applied Scientific Computing, BACS, The Frederick National Lab for Cancer Research, NCI/ Read More...

04/21/2024 - Looking for an introduction to artificial intelligence (AI) or an opportunity to expand on what you already know? Attend this workshop hosted by the NIH-funded Bridge2AI CHoRUS network and the University of Florida Read More...

06/25/2025 - Dr. Cleary will pre ent their late t work developing Perturb-FI H, a method that capture the effect of genetic change within and between cell while pre erving the patial architecture of living y 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...

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...

03/18/2024 - Electronic lab notebooks (ELNs) are digital tools that allow researchers to record, manage, and share their data and results in a secure and efficient way. The virtual roundtable discussion will cover various aspects of Read More...

Tidy data is an approach (or philosophy) to data organization and management. There are three rules to tidy data: (1) each variable forms its own column, (2) each observation forms a row, and (3) each value has its Read More...

Image adapted from docs.qiime2.org ( Conceptual Overview of QIIME 2 ) .

The NIH Library provides expert guidance on bioinformatics, biostatistics, data visualization, and data curation throughout the research process. Explore a variety of classes, on-demand trainings, resources, and services related to data science and bioinformatics available Read More...

04/03/2023 - Workshop Description:  The application of AI to cancer research holds promise to accelerate new discoveries, enable early detection, improve diagnosis, and spur development of new therapies for cancer. Machine learning and other forms of Read More...

01/16/2026 - Part of the Childhood Cancer Data Initiative (CCDI) Webinar Series During this webinar, experts from the USC Norris Comprehensive Cancer Center (NCCC) and Children's Hospital Los Angeles (CHLA) will present: An overview of Read More...

01/16/2026 - Speakers: James Amatruda, M.D., Ph.D. David Buckley, Ph.D. Jennifer Cotter, M.D. Alexander Markowitz, Ph.D. Moderator: Warren Kibbe, Ph.D., FACMI During this webinar, experts from the USC Norris Comprehensive Read More...

09/17/2025 - This hour and a half online training covers how to analyze and model data using interactive tools in MATLAB. Through live demonstrations and examples, attendees will learn to solve many steps in a data Read More...

09/09/2025 - Join&nb p;the National Heart, Lung, and Blood In titute (NHLBI)&nb p;for a hybrid work hop to explore how medicine will be tran formed by the current artificial intelligence ( Read More...

07/08/2025 - Join Dr . Eytan Ruppin (pre enter) and Timothy haw (moderator) a they pre ent on four approache for predicting how patient re pond to checkpoint immunotherapy. Approach #1: Predicting patient re pon e to the Read More...

03/24/2025 - AI Club is a weekly meeting that explores various topics relating to AI and deep learning in biomedical sciences, typically in a seminar, workshop, or journal club format. AI Club is intended to be Read More...

01/23/2025 - AI in Medicine: Focus on Deep Learning in Medical Genomics This series invites Principal Investigators, Senior Scientists, and Senior Clinicians  to share cutting-edge research and developments in their fields. Each session includes a 20-30 Read More...

01/08/2025 - Helen Shearman, Ph.D., Senior Field Application Scientist, will be presenting a one-hour overview demonstration on SnapGene.   SnapGene offers a fast and easy way to plan, visualize, and document your everyday cloning Read More...

07/23/2024 - In this presentation, we will demonstrate how to use enterprise data science platform to configure, run, share, and scale downstream bioinformatics and image analysis pipelines using cloud and HPC resources. This session is geared Read More...

There are many tools and strategies available for cell annotation. I've included a non-comprehensive list for your convenience: Azimuth SingleR scType Garnet Digital Cell Sorter . Cell Marker 2.0 Here is a list of resources that Read More...

If you plan to use RStudio to interactively analyze your data, RStudio Server, a browser-based interface very similar to the standard RStudio desktop environment, is the best option to avoid issues with lag. Each RStudio Read More...

Regarding computational requirements, rule of thumb is to keep it at 8 samples or less when running on a laptop. You may be able to stretch it to 10 samples, but any more than that strains the Read More...

R is both a computational language and environment for statistical computing and graphics. It is open-source and widely used by scientists, not just bioinformaticians. Base packages of R are built into your initial installation, but Read More...

04/26/2024 - Webinar attendees will hear tips and tricks to code efficiently in the Researcher Workbench using R and RStudio. Although Python and SAS are alternative programming languages available on the Researcher Workbench, this session will Read More...

03/29/2024 - This event is sponsored by an organization outside of the NIH; it is listed here due to the nature of the presented topics and their appeal to the NCI community. Description: Recent developments in Read More...

03/28/2024 - Join John McCulloch and colleagues from the NCI Laboratory of Integrative Cancer Immunology - Microbiome and Genetics Core (LICI-MGC)  in an introduction to JAMS , a comprehensive software package for microbial sequencing analysis (microbiomes and Read More...

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

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...

03/01/2024 - Jens Rittscher is Professor of Engineering Science at the University of Oxford with his appointment held jointly between the Institute of Biomedical Engineering and the Nuffield Department of Medicine. He is a group leader Read More...

02/21/2024 - The remarkable advances of artificial intelligence (AI) technology are revolutionizing established approaches to the acquisition, interpretation, and analysis of biomedical imaging data. Development, validation, and continuous refinement of AI tools requires easy access to Read More...

R is a particularly great resource for statistical analyses, plotting, and report generating. The fact that it is widely used means that users do not need to reinvent the wheel. There is a package available Read More...

Quarto is installed with the latest versions of RStudio. When rendering a Quarto document (.qmd file), the code blocks are processed using either knitr or jupyter , which is converted to markdown. That markdown is then Read More...

01/24/2024 - Dear Colleague,   Helen Shearman, Ph.D., Senior Field Application Scientist, will be presenting a one-hour overview demonstration on SnapGene. SnapGene offers a fast and easy way to plan, visualize, and document your Read More...

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 We will look into specific metrics of Read More...

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...

QIIME2 is a platform for the processing and analysis of microbiome sequencing data. A general amplicon workflow in QIIME2 may look like the following: Image adapted from QIIME2 documentation (Conceptual overview of QIIME2) The first Read More...

When exiting RStudio, you will be prompted to save your R workspace or .RData. The .RData file saves the objects generated in your R environment. You can also save the .RData at any time using Read More...

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...

The SummarizedExperiment class and the inherited class RangedSummarizedExperiment are available in the R package SummarizedExperiment . SummarizedExperiment is a matrix-like container where rows represent features of interest (e.g. genes, transcripts, exons, etc.) and columns represent Read More...

02/27/2026 - This one hour and half hour online training will equip attendees with essential knowledge and skills for effective interactions with Large Language Model (LLM) AI chatbots. Explore the intricacies of prompt engineering and its Read More...

02/12/2026 - The NLM Division of Intramural Research (DIR) is pleased to welcome Tiarnán Keenan, MD, PhD, Stadtman Tenure-Track Investigator and Director of the Medical Retina Fellowship Program at the National Eye Institute Read More...

10/30/2025 - This one hour and half hour online training will equip attendees with essential knowledge and skills for effective interactions with Large Language Model (LLM) AI chatbots. Explore the intricacies of prompt engineering and its Read More...

06/25/2025 - Join tony Brook Univer ity&r quo; Dr. Joel altz a he di cu e : the role of pathology artificial intelligence (AI) in the creation of pathology imaging biomarker , including tumor infiltrating lymphocyte Read More...

06/04/2025 - This one hour and half hour online training will equip participants with essential knowledge and skills for effective interactions with Large Language Models (LLMs), such as ChatGPT. Explore the intricacies of prompt engineering and Read More...

05/16/2025 - This one-day in-person NIH AI Symposium will bring together researchers from a broad range of disciplines to share their AI-related research, with the goal of disseminating the newest AI research, providing an opportunity to Read More...

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

04/03/2025 - Open to HHS Staff Only The goal of the NCI RNA Biology Initiative is to establish a collaborative environment that promotes the swift exchange of information and expertise regarding the structure, function, and biological Read More...

03/26/2025 - Developing artificial intelligence (AI) schemes to assist the clinician towards enabling precision medicine approaches requires development of objective markers that are predictive of disease response to treatment or prognostic of longer-term patient survival. The Read More...

01/28/2025 - This one hour and half hour online training will equip participants with essential knowledge and skills for effective interactions with Large Language Models (LLMs), such as ChatGPT. Explore the intricacies of prompt engineering and Read More...

01/22/2025 - Join us for a one-hour talk investigating tumor signatures in the BRCA dataset by utilizing the CCBR Single-Cell RNA-seq Workflow on NIDAP. This talk will take you through an analysis of a publicly available Read More...

09/17/2024 - This one hour and half hour online training will equip participants with essential knowledge and skills for effective interactions with Large Language Models (LLMs), such as ChatGPT. Explore the intricacies of prompt engineering and Read More...

08/09/2024 - We cordially invite you to attend the upcoming Data Sharing and Reuse Seminar featuring Dr. Robert Schuler and Dr. Jifan Feng. Dr. Schuler, a Senior Computer Scientist and Lead Scientist at the University of Read More...

07/17/2024 - Dear Colleagues,   Please join us on Wednesday, July 17, 2024, when Dr. Olivier Gevaert from Stanford University will discuss leveraging data at different scales for personalized diagnosis, prognosis, and therapy in the fields of Read More...

06/11/2024 - Large language models (LLMs) are artificial intelligence (AI) algorithms that employ deep learning and extensive data sets to create new content. LLMs offer many possible applications in the biomedical field, such as the development Read More...

Some tools have been described in the previous session (see here ). Today, we will be focusing on the SingleR tool, which also requires the celldex package . In short, SingleR operates by comparing your current dataset Read More...

Much like pseudobulk differential expression, the RNA expression can be collapsed into pre-defined components, such as the clusters, if it is believed that cell-to-cell variation is inducing too much confusion in the labeling. This collapsing Read More...

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...

05/06/2024 - Have you been looking for ways to use artificial intelligence (AI) in clinical practice but not sure where to start? Attend this webinar for tips from Dr. Anant Madabhushi on applying AI in precision Read More...

05/02/2024 - The explosion of biomedical big data and information in the past decade or so has created new opportunities for discoveries to improve the treatment and prevention of human diseases. As such, the field of Read More...

05/02/2024 - To register to attend, you must log in to your SITC Cancer Immunotherapy CONNECT account. Don’t have an account?  Create a free one . Join Dr. Mullin of the Roswell Read More...

03/19/2024 - Vinton “Vint” Cerf, Ph.D., is the special guest for the 2024 J. Edward Rall Cultural Lecture, The Promises and Perils of AI in Biomedical Research and Health Care Delivery. Dr. Read More...

Step 1: Goto https://www.globus.org to log in by clicking on the "LOG IN" icon at the top right of the pages. After logging in, select organziational affiliation, which is National Institutes Read More...

02/29/2024 - Artificial Intelligence (AI) is becoming increasingly ubiquitous in biomedical research, enabled by large datasets, new algorithms, and hardware improvements. In this session, Dr. Brian Ondov will introduce the basic principles of AI and describe Read More...

02/21/2024 - Dear colleagues, The Bioinformatics and Computational Biosciences Branch (BCBB) at NIAID invites you to join us for in-person hands-on workshops that will explore biovisualization techniques. Developers of UCSF ChimeraX and Cytoscape will be on Read More...

When exiting RStudio, you will be prompted to save your R workspace or .RData. The .RData file saves the objects generated in your R environment. You can also save the .RData at any time using Read More...

Now we know a bit about using functions, but what if I had no idea what the function round() was used for or what arguments to provide? Getting help in R is fairly easy. In Read More...

A function in R (or any computing language) is a short program that takes some input and returns some output. An R function has three key properties: Functions have a name (e.g. dir, getwd); Read More...

Because we are working on DNAnexus, and our files will not remain at the end of each class, we aren't going to use a R project for all lessons. However, it is worth creating Read More...

Learning Objectives To understand: 1. the difference between R and RStudioIDE. 2. how to work within the RStudio environment including: creating an Rproject and Rscript navigating between directories using functions obtaining help how R can enhance data Read More...

01/16/2024 - To register to attend, you must log in or create a free SITC Cancer Immunotherapy CONNECT account. It’s your last chance to register and learn about the cutting edge of computational immuno-oncology through Read More...

Long read sequencing was recently named 2022’s method of the year by Nature Methods . Long read sequencing technologies, those that generate sequence reads with lengths of 10s of kilobases or longer have several advantages over Read More...

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...

11/12/2024 - Join us at the upcoming hybrid NIH BRAIN NeuroAI Workshop on November 12 and 13, with virtual access to in-person panels and discussions at the NIH Campus in Bethesda, MD. Artificial intelligence (AI) is reshaping technology Read More...

Cancer research is a complex and data-intensive field. Cloud computing offers a powerful solution for researchers to store, analyze, and share large datasets efficiently. In this month’s topic spotlight, we will explore cloud resources Read More...

Congratulations, your experiments have been completed and you have a large amount of data. Now, it’s time to analyze these data. But where do you begin? How can you gain the most meaning from Read More...

This lesson provides an introduction to R in the context of single cell RNA-Seq analysis with Seurat. Learning Objectives Learn about options for analyzing your scRNA-Seq data. Learn about resources for learning R programming. Learn Read More...

1. Introduction and Learning Objectives This tutorial has been 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 that 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...

Accessing Partek Flow at NIH and tips for data transfer Learning objectives Instructions for accessing Partek Flow NCI researchers can find instructions for accessing Partek Flow at https://bioinformatics.ccr.cancer.gov/btep/partek-flow-bulk-and-single-cell-rna-seq-data-analysis/ . But Read More...

This lesson will introduce data wrangling with R. Attendees will learn to filter data using base R and tidyverse (dplyr) functionality. Learning Objectives Understand the concept of tidy data. Become familiar with the tidyverse packages. 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...