Remote Learning via on-line courses run by BTEP
- “Bioinformatics for Beginners” with the Biostar Handbook (2020)
- DataQuest for learning programming skills (2020)
These courses have occurred in the past. To see current bioinformatics training classes, please click here.
(Unfortunately, because these classes are commercial products, these resources are only available to CCR staff, and require registration before you can be provided access).
Training opportunities from other NIH organizations
- FAES is currently offering several on-line courses for Bioinformatics and Data Science
- NCI CBIIT has started a program for remote learning for Data Science
Webinars and Recorded Seminars that others may find useful
Re-assessing the Human Gene Catalog and Human Genome: How Much Are we Missing? Steven Salzberg
Videocast link: https://videocast.nih.gov/summary.asp?live=34578
Methods for Characterizing the Activity of Mutational Processes in Cancer. Max Leiserson
Video link: https://btep.ccr.cancer.gov/wp-content/uploads/Max-Leiserson-BTEP.mp4?_=1
Marshaling Public Data for Lean and Powerful Splicing Studies. Ben Langmead
WebEx recording: https://cbiit.webex.com/cbiit/ldr.php?RCID=da15d3aface8f25f7f478b9a813f6499
To Function or Not to Function. Sridhar Hannenhalli
WebEx Recording: https://cbiit.webex.com/cbiit/ldr.php?RCID=ec72d1923ffe18a82b63ed348b75be0c
This page lists webinar recordings on NCI-licensed scientific software.
BioDiscovery Nexus Copy Number and Nexus Expression
Description: Nexus Copy Number software offers simple yet powerful tools for copy number (CNV) and sequence variation analysis and visualization from aCGH, SNP array as well as next-gen sequencing (NGS) data. Nexus Expression makes gene expression analysis easier than ever with user-friendly and platform independent software tools. Both programs include the TCGA Premier database.
Training Webinar and Tutorials:
Nexus Copy Number Basics – Play recording (44 min)
Nexus Copy Number Advanced – Play recording (50 min)
Nexus Copy Expression – Play recording (44 min)
CLC Genomics Workbench
Description: The CLC Genomics Workbench enables comprehensive analysis of NGS data, including whole genome and transcriptome data, de novo assembly, targeted resequencing analysis, variant calling, ChIP-seq and DNA methylation (bisulfite sequencing analysis). The software also includes a streamlined workflow for taxonomic and functional microbiome analysis.
Training Webinar and Tutorials: Play recording (1 hr 4 min)
Geneious Pro
Description: Geneious Pro is a bioinformatics software platform that is both ultra-powerful and easy to use. Scientists, researchers and students are able to search, organize, and analyze genomic and protein information via a single desktop program that provides publication ready images to enhance the impact of your research.
Training Webinar and Tutorials:
Introduction to Geneious Prime – Play recording (56 min)
Ingenuity Pathways Analysis (Qiagen)
Description: Ingenuity Pathway Analysis (IPA) is a web-based functional analysis tool for comprehensive omic data.
Training Webinar and Tutorials:
Ingenuity Pathway Analysis Basics – Play recording (1 hr 4 min)
Ingenuity Pathway Analysis Advanced – Play recording (57 min)
Qiagen Ingenuity Pathways Analysis Resources
Lasergene
Description: Lasergene Core Suite is a comprehensive DNA and protein sequence analysis software suite comprised of nine applications. Lasergene Core Suite is available in four configurations, each designed with different researchers in mind. This software includes functions for sequence assembly and SNP detection, automated virtual cloning and more
Training Webinar and Tutorials:
Lasergene Molecular Biology – Play recording (1 hr 2 min)
Lasergene Genomics Suite – Play recording (57 min)
MetaCore
Description: High quality biological systems content in context, giving you essential data and analytical tools to accelerate your scientific research.
Training Webinar and Tutorials:
Play recording (1 hr 1 min)
Thompson Reuters MetaCore Resources
Partek Flow
Description: Partek Flow software is designed specifically for the analysis needs of next generation sequencing applications including RNA, small RNA, and DNA sequencing. With an easy-to-use graphical interface and the ability to build your own custom analysis pipelines or download pipelines built by Partek scientists, you can perform:
- Alignment
- Quantification
- Quality control
- Statistics
- Visualization
Supplier: Partek Incorporated
Software Access: For access to Partek Flow, NCI users must first:
- have a Helix account — a Helix account can be obtained here https://hpc.nih.gov/docs/accounts.html
- have a /data directory with enough disk space to hold their Partek Flow files — please fill out this online form here https://hpc.nih.gov/nih/storage_request.html if you do not already have a /data directory or if you require more disk space.
- have a Partek Flow account created for them — please contact staff@helix.nih.gov.
Once these steps have been accomplished, Partek Flow is available at https://partekflow.cit.nih.gov/flow.
Training Webinar and Tutorials:
Play recording (57 min)
Partek Genomics Suite
Description: Partek Genomics Suite software offers an intuitive user interface and built-in workflows for a variety of genomic applications that guide researchers though every step of the analysis process.
Training Webinar and Tutorials:
Play recording (57 min)
Partek Genomics Suite Resources
Qlucore Omics Explorer (QOE)
Description: The QOE is an interactive data analysis and visualization software that enables biologists to find groups, structures, variable networks and discriminating variables in large Omics data sets, including public datasets. Data types include gene expression data (NGS and arrays), DNA methylation, metabolomics, proteomics, etc. QOE supports multiple visualization plots (e.g. 3D PCA, t-SNE, heat maps with hierarchical clustering etc.), a number of statistical methods (t-test, F-test (ANOVA), etc.) and an inbuilt Gene Set Enrichment Analysis (GSEA) workbench for pathway analysis.
Training Webinar and Tutorials: Play recording (42 min)
SnapGene
Description: SnapGene enables an easy and secure way to plan, visualize, and document everyday molecular biology procedures. With an intuitive interface, the software enables DNA sequence visualization, sequence annotation, sequence editing, cloning, protein visualization, and simulating common cloning methods. The software also enables documentation and sharing of data.
Training Webinar and Tutorials: Play recording (55 min)
This list contains pointers to recorded Webinars of CBIIT sponsored Informatics Technology for Cancer Research (ITCR) tools.
- Clinical Interpretation of Variants in Cancer (CIViC) Friday, February 28, 2020
Play recording (45 min) - Introduction to Cistrome Tuesday, February 4, 2020
Play recording (47 min) - Introduction to cBioPortal for Cancer Genomics, Tuesday, December 3, 2019
Play recording (1 hr 1 min) - Integrative Genomics Analysis with the GenePattern Notebook Environment, Tuesday, January 28, 2020
Play recording (37 min) - Introduction to UCSC Xena, Tuesday, November 5, 2019
Play recording (55 min) - Introduction to the Cancer Proteome Atlas, Tuesday, October 29, 2019
Play recording (52 min) - Introduction to Integrative Genomics Robust iDentification of cancer subgroups (InGRiD), October 15, 2019
Play recording (49 min) - Introduction to Gene Set Enrichment Analysis (GSEA) and Molecular Signatures Database (MSigDB), >Tuesday, October 8, 2019
Play recording (43 min) - Introduction to Gene-gene Association Inference based on biomedical Literature (GAIL), Tuesday, September 17, 2019
Play recording (1 hr 4 min) - OncoMX: an integrated cancer mutation and expression resource for exploring cancer biomarkers, Thursday, August 29, 2019
Play recording (51 min) - OpenCRAVAT: A customizable annotation and prioritization pipeline for genes and variants, Thursday, August 22, 2019
Play recording (54 min) - AMARETTO for Network Biology and Medicine, Tuesday, August 20, 2019
Play recording (48 min)
- UCSC Genome Browser Basics (Part One)
- cBioportal is hosting a webinar series to teach cBioPortal features to beginner and advanced users. Sessions will be held on five consecutive Thursdays at 11 AM EDT, starting on April 30th. Please register here: https://bit.ly/cbioportal-webinar-2020