Search Results for: Computational Biology

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 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 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.

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 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...

Profile the entire transcriptome and more than 570 proteins on a single slide with the GeoMx Digital Spatial Profiler

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...

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

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

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 NIH Research Festival The NIH Research Festival highlights the groundbreaking science and the vibrant NIH community driving our Read More...

The Cancer and Inflammation Program – Microbiome and Genetics Core (CIP-MGC) grew out of the former CIP Genetics Core to meet the increasing need for sequencing and analysis of commensal microbiota within CIP and NCI. The 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...

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

The NCI Cloud Resources are components of the NCI Cancer Research Data Commons (CRDC) that bring data and computational power together to enable cancer research and discovery. These cloud-based platforms eliminate the need for researchers 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...

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

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 New CREx User Survey The CREx Team is carrying out a CREx User Survey. We would greatly appreciate 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...

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...

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...

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 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...

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...

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...

The Frederick Sequencing and Genomics Core (FSGC) was established through the integration and consolidation of the former Sequencing Facility (SF) and the Genomics Technology Laboratory (GTL). The new FSGC eliminates redundancy and provides cutting edge 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...

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

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

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

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

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...

The Mass Cytometry Core (MCC) provides access to cutting-edge platforms and expert technical support for high-dimensional single-cell analysis and spatial proteomic profiling. A central expertise of the core is Imaging Mass Cytometry (IMC), which allows Read More...

The rapid advancement of single-cell technology has provided new powerful tools to answer many biological questions, such as identifying new or rare cell populations and characterizing the complexities of tumor heterogeneity. Realizing the great potential 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...

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 Resources Derive Greater Insights and Accelerate your Research Using Bioinformatic Tools! CREx is an NIH 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...

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. If you haven’t 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...

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...

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

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...

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 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 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 Antibody Engineering Program (AEP) is part of the Center for Cancer Research (CCR) at the National Cancer Institute (NCI). The program focuses on generating therapeutic antibodies by phage display technology, including human antibodies and 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...

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...

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...

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...

[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...

02/02/2021 - Register In this training, the attendees will learn how advanced pathway and network biology algorithms from the Computational Biology Methods for Drug Discovery (CBDD) toolkit can be applied to a broad range of OMICs 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...

09/09/2021 - Save the date, and plan to join us on September 9, 9:30 a.m.–3:00 p.m. for a free virtual Bioinformatics and Computational Biology Symposium presented by the NIH Library Bioinformatics Support Program. This one-day symposium Read More...

11/07/2024 - In the era of renewed space exploration, understanding female health risks during spaceflight is essential. This talk focuses on leveraging NIAID's ImmPort and NASA's GeneLab data using computational and systems biology to Read More...

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...

03/22/2024 - This 3-hour seminar is tailored for biologists, data analysts, and researchers who are eager to dive into the essentials of computational flow cytometry analysis using R. Flow cytometry is a crucial technique in cell Read More...

03/11/2024 - The goal of this exploratory workshop is to identify scientific and collaborative bridges between the communities of mathematical theory development and computational cancer biology research by bringing together mathematical theorists and cancer biologists from Read More...

10/26/2022 - In partnership with NCI’s Cancer Moonshot SM  Initiative, the Society for Immunotherapy of Cancer (SITC) and the  Big Data  and  Data Sharing  Committee are hosting the eighth of nine webinars that make up Read More...

09/21/2022 - Join University of Colorado’s Dr. Arjun Krishnan as he discusses how machine learning and natural language processing can contribute to making public -omics data more accessible. Dr. Krishnan will also present the recent Read More...

09/15/2022 - In partnership with the National Cancer Institute (NCI) Cancer Moonshot SM , the Society for Immunotherapy of Cancer (SITC) and the  Big Data and Data Sharing Committee  are excited to announce our second " SITC-NCI Read More...

12/07/2020 - Register Meeting ID: 918 4307 1125 One tap mobile +13017158592,,91843071125# US (Washington D.C) +19294362866,,91843071125# US (New York) Dial by your location +1 301 715 8592 US (Washington D.C) +1 929 436 2866 US (New York) +1 312 626 6799 US (Chicago) +1 346 248 7799 US (Houston) +1 669 900 6833 US (San Jose) +1 253 215 8782 US (Tacoma) Meeting Read More...

09/28/2022 - We invite you to join us for the Neuro-Oncology Visiting Scholar Lecture scheduled for next week by Eytan Ruppin, M.D. Ph.D: Next Generation Transcriptomics-based Precision Oncology Eytan Ruppin received his M.D. Read More...

12/16/2025 - Abstract: Spatial transcriptomics (ST) is evolving rapidly as a pivotal technology in studying the biology of tumors and their associated tumor microenvironments (TME). However, where/how it can impact research remain unclear. In this Read More...

03/27/2025 - Please note: Registration is required to get the Meeting Link for this event. Please pre-register. Aviv Regev is head of Genentech Research and Early Development. Formerly, Regev was Chair of the Faculty and Core Read More...

10/03/2023 - Presented as part of the Sequencing Strategies for Population and Cancer Epidemiology Studies (SeqSPACE) Webinar Series Dr. Kushal Dey is an Assistant Member and Josie Robertson Investigator in the Department of Computational and Systems Read More...

Dataquest - great for learning programming skills Coursera - great for learning more specific skills Click here for license information. Books and other resources: See this list for introductory R material. A Primer for Computational Read More...

Dataquest - great for learning programming skills Coursera - great for learning more specific skills Click here for license information. Books and other resources: See this list for introductory R material. A Primer for Computational Read More...

A repository for R packages related to biological data analysis , primarily bioinformatics and computational biology. a great place to search for -omics packages and pipelines. Released every 6 months and work with a specific version of Read More...

A repository for R packages related to biological data analysis , primarily bioinformatics and computational biology. a great place to search for -omics packages and pipelines. Released every 6 months and work with a specific version of Read More...

Bioconductor is a repository for R packages related to biological data analysis, primarily bioinformatics and computational biology, and as such it is a great place to search for -omics packages and pipelines.

12/08/2022 - Do you need to strengthen your structural biology skills? The NIAID Bioinformatics and Computational Biosciences Branch (BCBB) is offering training sessions over the next few weeks. Current topics include three series of practical training Read More...

11/16/2022 - Do you need to strengthen your structural biology skills? The NIAID Bioinformatics and Computational Biosciences Branch (BCBB) is offering training sessions over the next few weeks. Current topics include three series of practical training Read More...

11/14/2022 - Do you need to strengthen your structural biology skills? The NIAID Bioinformatics and Computational Biosciences Branch (BCBB) is offering training sessions over the next few weeks. Current topics include three series of practical training Read More...

08/24/2022 - Precision oncology has made significant advances, mainly by targeting actionable mutations and fusion events involving cancer driver genes. Aiming to expand treatment opportunities, recent studies have begun to explore the utility of tumor transcriptome Read More...

03/29/2022 - Dr. Ziv Bar-Joseph FORE Systems Biology Professor of Computer Science Machine Learning Department Computational Biology Department School of Computer Science Carnegie Mellon University Biological processes, including those involved in immune response, disease progression and Read More...

10/20/2021 - Presenter: Trevor Bedford, Ph.D. Associate Professor Vaccine and Infectious Disease Division Human Biology Division Herbold Computational Biology Program Fred Hutchinson Cancer Research Center Genomic epidemiology has enabled critical insights during the COVID-19 pandemic.  Read More...

05/20/2021 - Biography : Christoph Bock is a Principal Investigator at the CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences and Professor of [Bio]Medical Informatics at the Medical University of Vienna. His Read More...

Our Team Tatiana S. Karpova Ph.D.Core Headkarpovat@nih.govBuilding 41, Room C615240-760-6637 David A. Ball Ph.D.Core Biologistballa@nih.govBuilding 41, Room B114D240-760-6577 Mohamadreza Fazel, Ph.D.Core Biologistmohamadreza. 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...

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...

01/21/2025 - About the Speaker: Hari completed his PhD in Cell Biology at the University of Toronto, where he used single-molecule imaging techniques to reveal how multimolecular interactions govern early signaling events in individual immune cells. Read More...

05/07/2024 - Galaxy is a scientific workflow, data integration, data analysis, and publishing platform that makes computational biology accessible to research scientists that do not have computer programming experience. This workshop will introduce RNA-seq data analysis 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...

Bioconductor is both an open source project and repository for R packages related to the analysis of biological data, primarily bioinformatics and computational biology, and as such it is a great place to search for 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...

Bioconductor is a repository for R packages related to biological data analysis, primarily bioinformatics and computational biology, and as such it is a great place to search for -omics packages and pipelines. Bioconductor packages fit Read More...

09/19/2023 - The NIH is home to a number of groups aimed at supporting bioinformatics, genomics, computational biology and various related topics. Many of these groups meet regularly to host talks or provide training opportunities, while Read More...

09/18/2023 - The NIH is home to a number of groups aimed at supporting bioinformatics, genomics, computational biology and various related topics. Many of these groups meet regularly to host talks or provide training opportunities, while Read More...

09/08/2023 - This seminar will discuss how we can leverage shared data to discover signatures of human vaccination and infection responses. A key example will be work done as part of the NIH  Human Read More...

For this class, we are going to work with data from and associated with two commercially available sets of RNA samples, Universal Human Reference (UHR) and Human Brain Reference (HBR). UHR - bulk RNA from 10 Read More...

06/23/2023 - Galaxy is a scientific workflow, data integration, data analysis, and publishing platform that makes computational biology accessible to research scientists that do not have computer programming experience. This training will introduce ChIP sequencing data Read More...

05/31/2023 - Please join us on May 31 when Harvard University’s John Quackenbush, Ph.D., will present “ Why Networks Matter: Embracing Biological Complexity. ” Dr. Quackenbush will share multiple examples illustrating the importance of network models. He Read More...

05/12/2023 - Galaxy is a scientific workflow, data integration, data analysis, and publishing platform that makes computational biology accessible to research scientists that do not have computer programming experience. This workshop will introduce RNA-seq data analysis Read More...

11/16/2021 - Presenter: Rahul Satija, PhD, is a Core Faculty Member at the New York Genome Center (NYGC), with a joint appointment as Associate Professor at the Center for Genomics and Systems Biology at New York Read More...

10/27/2021 - Wrapping up its final webinar of 2021, the NCI Cancer Research Data Commons (CRDC) Cancer Genomics Cloud (CGC) welcomes Cold Spring Harbor Laboratory fellow Dr. Pascal Belleau. He will share his findings from recent work Read More...

10/13/2021 - Register for the  2021 Clinical Proteomics Tumor Analysis Consortium (CPTAC) Virtual Scientific Symposium  to hear CPTAC investigators share their latest discoveries in the field of cancer proteogenomics, cancer research, and  data analysis  tools. In addition Read More...

07/28/2021 - Register/Join During this month's NCI Cancer Research Data Commons (CRDC) Cancer Genomics Cloud (CGC)  webinar series, two Georgetown University staff members about leveraging the CGC in their  data science  courses and curriculum. Read More...

06/10/2021 - Meeting Link:  https://cbiit.webex.com/cbiit/j.php?MTID=mc11b56eb7f7e732aa44c78427402dd2e Abstract: Long read, single molecule sequencing from Pacific Biosciences (PacBio) and Oxford Nanopore are revolutionizing Read More...

05/06/2021 - Presenter : Adam J Gayoso, Streets and Yosef Groups at UC Berkeley Abstract : Probabilistic models have demonstrated state-of-the-art performance for many single-cell omics data analysis tasks, including dimensionality reduction, clustering, differential expression, annotation, removal of Read More...

04/20/2021 - Abstract: Single-cell genome-wide profiling offers an approach to map transitional cell states during cell differentiation, disease onset, and drug response. Lineage-tracing, in which cells are labeled with hereditary markers, offers an approach to establishing Read More...

03/22/2021 - Join Dear NCI Staff, The NCI Cloud Resources are chief components of the NCI Cancer Research Data Commons (CRDC), helping to bring together data and computational power to advance cancer research and discovery. These Read More...

Gianluca Pegoraro, PhD gianluca.pegoraro@nih.gov Facility Head 240-760-6696 Bldg. 41, Room B909 Dr. Pegoraro received his Ph.D. in Molecular Genetics from the International School of Superior Studies in Trieste, Italy in 2004. After Read More...

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

General questions or comments about the BTEP program or classes should be addressed to: NCIBTEP@nih.gov Amy Stonelake, Ph.D . BTEP Program Manager and Bioinformatics Analyst amy.stonelake@nih.gov I am an experienced Read More...

Clinicians and bench scientists (a.k.a., wet lab researchers) are at the forefront of scientific achievement. However, most, if not all contemporary projects involve robust scientific analysis, where the tools of exploration aren’t Read More...

07/09/2024 - Galaxy is a scientific workflow, data integration, data analysis, and publishing platform that makes computational biology accessible to research scientists that do not have computer programming experience. This workshop will cover exome sequencing data Read More...

06/04/2024 - Galaxy is a scientific workflow, data integration, data analysis, and publishing platform that makes computational biology accessible to research scientists that do not have computer programming experience. This training will introduce ChIP sequencing data Read More...

04/12/2024 - This session will outline the All of Us Researcher Workbench registration process for NIH researchers. Access to the Researcher Workbench is free, and all registered researchers are provided $300 initial computational credits. Some analyses in Read More...

02/16/2024 - Deep sequencing has emerged as the primary tool for transcriptome profiling in cancer research. Like other high-throughput profiling technologies, sequencing is susceptible to systematic non-biological artifacts stemming from inconsistent experimental handling. A critical initial Read More...

mkdir rnaseq cd rnaseq curl -s http://data.biostarhandbook.com/rnaseq/projects/griffith/griffith-data.tar.gz | tar zxv Directories: * "reads" contains the sequencing reads * "refs" contains genome and annotation information using Read More...

mkdir rnaseq cd rnaseq curl -s http://data.biostarhandbook.com/rnaseq/projects/griffith/griffith-data.tar.gz | tar zxv Directories: * "reads" contains the sequencing reads * "refs" contains genome and annotation information using Read More...

mkdir rnaseq cd rnaseq curl -s http://data.biostarhandbook.com/rnaseq/projects/griffith/griffith-data.tar.gz | tar zxv Directories: * "reads" contains the sequencing reads * "refs" contains genome and annotation information using Read More...

07/14/2023 - Galaxy is a scientific workflow, data integration, data analysis, and publishing platform that makes computational biology accessible to research scientists that do not have computer programming experience. This workshop will cover exome sequencing data Read More...

The identification of cell types in single cell genomics data (cell type annotation) can provide new insights into cellular identities, heterogeneity, and functional roles. Cell type annotation is challenging Read More...

11/30/2022 - This lecture will present an overview of various open-source databases and servers available that support pharmacogenomics research and drug discovery. Specifically, this lecture will focus on integrated-omics and data-driven approaches for novel drug discovery, Read More...

11/02/2022 - Do you need to strengthen your structural biology skills? The NIAID Bioinformatics and Computational Biosciences Branch (BCBB) is offering training sessions over the next few weeks. Current topics include three series of practical training Read More...

09/22/2022 - The avalanche of easy-to-create genomics data has impacted almost all areas of medicine and science, from cancer patients and microbial diagnostics to molecular monitoring for astronauts in space. In this lecture, new discoveries from Read More...

08/22/2022 - The Gabriella Miller Kids First Pediatric Research Program (Kids First) is an NIH Common Fund program focusing on the biology of childhood cancer and structural birth defects. The program created the Gabriella Miller Kids Read More...

07/14/2022 - The efforts of our laboratory are split evenly between experimental and computational biology.  We develop new experimental methods to sequence single cells and isolate rare subpopulations and develop new analytical approaches to detect variants Read More...

07/14/2022 - Nicholas Navin, Ph.D. Professor, Department of Genetics, Division of Basic Science Research, The University of Texas MD Anderson Cancer Center Grady F. Saunders, Ph.D. Distinguished Professorship for Molecular Biology, Department of Genetics, Read More...

03/30/2022 - Predicting how changes in the genome manifest as phenotypic differences is an extremely challenging problem that requires a deep understanding of multiscale biological mechanisms. And while we know a great deal about how information Read More...

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

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...

01/12/2022 - Recent technological advances in science provide novel opportunities to unravel the complex biology of diseases. Immunological changes in translational settings are often highly dynamic and involve multiple interconnected biological systems. We will discuss a Read More...

08/11/2021 - Registration is required to join this event. If you have not registered, please do so now. Efforts are underway to characterize cancer cell lines and identify their genetic and pharmacological vulnerabilities, but integration is Read More...

08/05/2021 - Understanding the biology in transcription factor binding site data requires a comprehensive and integrated approach and must be supplemented with highly-curated data content from multiple sources. Genomatix is a computational biology company with a 22 Read More...

04/22/2021 - Abstract: Single-cell RNA-sequencing has emerged as a popular technique for dissecting temporal processes such as tumor development and cell differentiation from snapshots of asynchronous ensembles of cells. Ongoing efforts in this area are now Read More...

04/05/2021 - Dear colleagues, We'll be hosting a special guest lecture by Prof. John Moult from UMD. Abstract: Computing the three-dimensional structure of a protein molecule from its amino acid sequence is a long-standing grand Read More...

02/08/2021 - Dear colleagues, Coming Monday, Feb 8th, we'll be having a guest lecture by Prof. Vineet Bafna from UCSD. Abstract: Increase in the number of copies of tumor promoting (onco-) genes is a hallmark Read More...

01/14/2021 - Please plan to attend the Earl Stadtman Investigator Program search seminar by: Noam Auslander, Ph.D. National Center for Biotechnology Information (NCBI), NIH Dr. Auslander's research focus is on designing techniques that make Read More...

01/04/2021 - Abstract: Phenotypic heterogeneity in cancer is often caused by different patterns of genetic alterations. Understanding such phenotype-genotype relationships is fundamental for the advance of personalized medicine. In this talk, I will present a computational Read More...

11/05/2020 - Register Overview: Characterizing the transcriptomic profiles of individual cells by single-cell RNA sequencing (scRNA-seq) has become a universal tool to identify both known and novel cell populations, ushering science in a new era of Read More...

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

09/23/2024 - Come to the Fair!  In the morning session, several different groups will speak about their training and education programs. The afternoon session will be devoted to learning about research using AI across Read More...

Clustering is used to group cells by similar transcriptomic profiles. Seurat uses a graph based clustering method. You can read more about it here . The first step is to compute the nearest neighbors of each Read More...

11/30/2023 - Greetings, NCI intramural researchers,   Earlier this year we reached out to gather your input on the formation of a bioinformatics community within the NCI Intramural Research Program.  Why create such Read More...

Here, let's change back in the ~/biostar_class/hbr_uhr/hbr_uhr_hisat2 folder. cd $hbr_uhr_hisat2 To align FASTQ files for one sample, we construct the HISAT2 command with the following options Read More...

Learning Objectives Learn about popular programming languagues in bioinformatics Compare advantages and disadvantages of Python and R Discuss what you will need to learn to use these languages Discuss learning resources Choosing a programming language Read More...

Learning Objectives Learn about popular programming languagues in bioinformatics Compare advantages and disadvantages of Python and R Discuss what you will need to learn to use these languages Discuss learning resources Choosing a programming language 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...

Bioinformatics Training and Education Program 15 January – 15 February 2023 BTEP Bulletin Contact us at ncibtep@nih.gov FEATURED BIOINFORMATICS EVENTS Data Management Sharing: Part 1 and Part 2 DOE-NCI Collaboration: MOSSAIC for Advancing Computational Models for Cancer Research Variation Read More...

02/11/2022 - Dr. Jeremy Goecks will share how cancer researchers are using the machine learning capabilities of the Galaxy project, one of the largest and most widely used open-source platforms for biomedical  data science , to predict 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...

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...

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...

Objectives To explore Bioconductor, a repository for R packages related to biological data analysis. To better understand S4 objects as they relate to the Bioconductor core infrastructure. To learn more about a popular Bioconductor S4 Read More...

To align FASTQ files for one sample, we construct the HISAT2 command with the following options. The "-x" flag prompts us to enter the base name (ie. without extension) of genome index. The Read More...

Lesson 7: Downloading the RNA-Seq Data and Dataset Overview Lesson Review pwd (print working directory) ls (list) touch (creates an empty file) nano (basic editor for creating small text files) using the rm command to remove Read More...

This page contains content taken directly from the Biostar Handbook (Istvan Albert). Always remember to activate the class bioinformatics environment. conda activate bioinfo For this data analysis, we will be using: Two commercially available RNA Read More...

This page contains content taken directly from the Biostar Handbook (Istvan Albert). Always remember to activate the class bioinformatics environment. conda activate bioinfo For this data analysis, we will be using: Two commercially available RNA Read More...

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 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...

This page uses content directly from the Biostar Handbook by Istvan Albert. Obtain RNA-seq test data. The test data consists of two commercially available RNA samples: Universal Human Reference (UHR) and Human Brain Reference (HBR) . Read More...

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...