Past Events - July 2018 to Feb 2023

Past Events – with links to training materials

Vendor-based software resources are available only to COH staff

 Event

 Date and Time

 Resources

Qiagen: IPA/Ingenuity Pathway Analysis

Beginner training:

Large dataset analysis and knowledge base queries
2023
Repeats once monthly:

Tuesday, January 5, 2023
Tuesday, February 2, 2023
Tuesday, March 7, 2023

10:00 am-11:30 am PDT (1.5 hours)
------------------------------------------------
.

TBI IPA SharePoint site

Additional Qiagen training

Qiagen: IPA/Ingenuity Pathway Analysis

Deep-dive trainings:

Core and comparison analyses, how to use IPA  without a dataset
2023
Repeats once monthly:

Thursday, January 17, 2023
Tuesday, February 22, 2023

10:00 am-11:30 am PDT (1.5 hours)

TBI IPA SharePoint site

Additional Qiagen training

------------------------------------------------------

-----------------------------------------------
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IPA/Ingenuity Pathway Analysis

IPA deeper dive: miRNA investigation using IPA
Tuesday, February 28, 2023

10:00 am - 11:30 am  PT

TBI IPA SharePoint site

Schrödinger Suite:  PyMOL and Maestro - specifically for COH users

Introduction to the visualization capabilities of PyMOL with use of chemistry/biology-aware modeling platforms, Maestro/BioLumiate, to yield scientific insights for rational drug design of therapeutic targets.
Thursday, February 23, 2023

1:00 pm - 2:00 pm  PT

TBI Schrodinger Suite SharePoint site

Qiagen: IPA/Ingenuity Pathway Analysis

Miscellaneous topics requested by customers 
Thursday, February 23, 2023

10:00 am - 11:00 am  PT

TBI IPA SharePoint site

Qiagen: OmicSoft and IPA LIVE training with hands-on option

Expression analysis hands-on for OmicSoft 
Thursday, February 16, 2023

10:00 am - 11:30 am  PT

TBI IPA SharePoint site

TBI OmicSoft SharePoint site

Qiagen: CLC Genomics Workbench and IPA/Ingenuity Pathway Analysis - scRNA-seq data

Learn how to analyze and interpret your single-cell RNA-seq data  
Tuesday, February 14, 2023

10:00 am - 11:30 am  PT

TBI CLC SharePoint site

TBI IPA SharePoint site

Qiagen: CLC Genomics Workbench

Meta-transcriptome analysis, annotation and pathways investigations
Thursday, February 9, 2023

10:00 am - 11:00 am  PT

TBI CLC SharePoint site

Qiagen: OmicSoft DiseaseLand and IPA 

Using OmicSoft DiseaseLand and IPA for biomarkers and drug targets investigation from public data
Tuesday, February 7, 2023

10:00 am - 11:30 am  PT

TBI IPA SharePoint site

TBI OmicSoft SharePoint site

Qiagen: OmicSoft and IPA/Ingenuity Pathway Analysis

Public singel cell RNA-seq data investigation
Tuesday, January 31, 2023

10:00 am - 11:00 am  PT

TBI IPA SharePoint site

TBI OmicSoft SharePoint site

Qiagen: CLC Genomics Workbench and IPA/Ingenuity Pathway Analysis - RNA-seq data

Learn how to easily analyze and interpret RNA-seq data using CLC Genomics Workbench and IPA 
Monday, January 26, 2023

10:00 am - 11:30 am  PT

TBI CLC SharePoint site

TBI IPA SharePoint site

Qiagen: IPA/Ingenuity Pathway Analysis

Understanding your IPA core analysis results
Thursday, January 24, 2023

10:00 am - 11:00 am  PT

TBI IPA SharePoint site

Qiagen: OmicSoft and IPA with hands-on training

OmicSoft OncoLand:  Investigate biomarkers and drug targets in context of patient cohorts
Thursday, January 19, 2023

10:00 am - 11:00 am  PT

TBI IPA SharePoint site

TBI OmicSoft SharePoint site

Qiagen: IPA/Ingenuity Pathway Analysis

Beginner training:

Large dataset analysis and knowledge base queries
2022 
Repeats once monthly:

Tuesday, January 20, 2022
Tuesday, February 8, 2022
Tuesday, March 8, 2022
Tuesday, April 12, 2022
Tuesday, May 10, 2022
Tuesday, June 7, 2022
Tuesday, August 9, 2022
Tuesday, November 1, 2022
10:00 am-11:30 am PDT (1.5 hours)
------------------------------------------------

Sept - Oct:  Tutorial available in "Upcoming Events" section above

TBI IPA SharePoint site

Additional Qiagen training

Qiagen: IPA/Ingenuity Pathway Analysis

Deep-dive trainings:

Core and comparison analyses, how to use IPA  without a dataset
2022 
Repeats once monthly:

Thursday, January 20, 2022
Tuesday, February 22, 2022
Tuesday, March 22, 2022
Tuesday, April 20, 2022
Tuesday, May 24, 2022
Tuesday, June 28, 2022
Tuesday, July 26, 2022
Tuesday, August 22, 2022
Tuesday, September 20, 2022
Tuesday, October 18, 2022
10:00 am-11:30 am PDT (1.5 hours)

TBI IPA SharePoint site

Additional Qiagen training

Qiagen: IPA and OmicSoft

Drug treatment, toxicology, and target safety assessment using IPA and OmicSoft
Tuesday, November 29, 2022

10:00 am - 11:30 am  PT

TBI IPA SharePoint site

TBI OmicSoft SharePoint site

Qiagen: IPA/Ingenuity Pathway Analysis

IPA deeper dive:  miRNA investigation using Ingenuity Pathway Analysis
Tuesday, November 22, 2022

10:00 am - 11:30 am  PT

TBI IPA SharePoint site

Partek Flow and 10X: Bridging histology and genomics with Visium Spatial profiling data analysis

Assessing gene expression with morphological context is critical to our understanding of biology and the progression of disease.
Thursday, November 17, 2022

10:30 am - 12:30 pm  PT

TBI Partek SharePoint site

10X Genomics website

Qiagen: CLC Main Workbench

Sanger sequencing, molecular biology, nucleotide and protein sequences alignment and tree analyses
Thursday, November 17, 2022

10:00 am - 11:00 am  PT

TBI CLC SharePoint site

Qiagen: Hereditary NGS Clinical Summit Series:  Part 2 - Germline Analytics

A two-part, free-to-attend virtual event for variant scientists, bioinformaticians, clinical geneticists, and lab managers
Thursday, November 10, 2022

10:00 am - 11:00 am  PT

TBI Qiagen SharePoint site

Qiagen: RNA-seq data analysis and interpretation with CLC Genomics Workbench and IPA 

Learn how to analyze and interpret RNA-seq data using CLC Genomics Workbench software and IPA
Thursday, November 3, 2022

10:00 am - 11:00 am  PT

Register for webinar On-demand

TBI CLC SharePoint site

Qiagen: Public single-cell RNA-seq data investigation using OmicSoft and IPA

Single cell RNA-sequencing (scRNA-seq) has been widely used to investigate tissue heterogeneity, identify novel cell types, study pathogenic mechanisms, development of targeted therapy (including immunotherapy) and more. Accordingly tremendous amount of scRNA-seq data has been deposited to public domains like GEO.
Thursday, October 27, 2022

10:00 am - 11:00 am  PT

TBI OmicSoft SharePoint site

TBI IPA SharePoint site

Qiagen: RNA-seq data analysis and interpretation with CLC Genomics Workbench and IPA 

Learn how to analyze and interpret RNA-seq data using CLC Genomics Workbench software and IPA
Tuesday, October 25, 2022

10:00 am - 11:30 am  PT

TBI CLC SharePoint site

TBI IPA SharePoint site

Qiagen: IPA Comparative Tools

Compare different treatments, timepoints, cell types and other conditions of your interest using QIAGEN Ingenuity Pathway Analysis (IPA) comparative tools
Thursday, October 20, 2022

10:00 am - 11:30 am  PT

TBI IPA SharePoint site

Qiagen: IPA Multiomics Analysis

Learn about how Ingenuity Pathway Analysis allows visualization of molecular intricacy and variations at multiple levels such as transcriptome, proteome and metabolome
Tuesday, October 18, 2022

10:00 am - 13:00 am  PT

TBI IPA SharePoint site

Qiagen: Hereditary NGS Clinical Summit Series:  Part 1 - Germline Analytics

A two-part, free-to-attend virtual event for variant scientists, bioinformaticians, clinical geneticists, and lab managers
Thursday, October 13, 2022

10:00 am - 11:00 am  PT

TBI Qiagen SharePoint site

OmicSoft and IPA: Hands-on option  

OmicSoft Oncoland: Investigate biomarkers and drug targets in context of patient cohorts
Thursday, October 13, 2022

10:00 am - 11:00 am  PT

TBI OmicSoft SharePoint site
TBI IPA SharePoint site

OmicSoft: Exploring bevacizumab response in low-grade glioma

Navigate the intersection of the tumor microenvironment, mutation status and gene expression to identify plausible activators affecting bevacizumab targets in low-grade glioma (LGG)

Thursday, October 11, 2022

10:00 am - 11:00 am  PT

TBI OmicSoft SharePoint site

Qiagen:  CLC Genomics Workbench

Isolate typing, strain identification and antimicrobial resistance analyses using QIAGEN CLC Genomics Workbench
Thursday, October 6, 2022

10:00 am - 11:00 am  PT

TBI CLC SharePoint site

De novo assembly, BLAST and genome finishing using CLC Genomics Workbench 

Introduces users to the tools available for short reads (Illumina) as well as long reads (Oxford Nanopore, Pac Bio) de novo assembly in CLC Genomics Workbench. It will also go over other useful functionalities such as BLAST and genome finishing.
Wednesday, August 30, 2022

10:00 am - 11:00 am  PT

TBI CLC SharePoint site

Qiagen OmicSoft Studio training

Somatic variants investigation in context of critical regulatory pathways and networks
Tuesday, August 23, 2022

10:00 am - 11:00 am  PT

TBI OmicSoft SharePoint siteTBI IPA SharePoint site

Public single cell RNA-seq data investigation using Omicsoft and Ingenuity Pathway Analysis

Single cell RNA-sequencing (scRNA-seq) has been widely used to investigate tissue heterogeneity, identify novel cell types, study pathogenic mechanisms, development of targeted therapy (including immunotherapy) and more. Accordingly tremendous amount of scRNA-seq data has been deposited to public domains like GEO.
Tuesday, August 16, 2022

10:00 am - 11:00 am  PT

TBI OmicSoft SharePoint siteTBI IPA SharePoint site

Qiagen:  CLC Genomics Workbench

RNA-seq data analysis and interpretation
Tuesday, July 26, 2022

10:00 am - 11:30 am (1.5 hrs)

TBI CLC SharePoint site

Qiagen: IPA Deeper Dive: miRNA investigation 

Learn how to identify target mRNAs for your miRNAs of interest and associate them with pathways, diseases, biological functions, tissues and cell types. 
Thursday, July 21, 2022

10:00 am - 11:30 am (1.5 hrs)

TBI IPA SharePoint site

Additional Qiagen training

Qiagen:  OmicSoft OncoLand

Using OncoLand to integrate public expression and somatic mutation data for discovery
Thursday, July 19, 2022

10:00 am - 11:00 am  PT

TBI OmicSoft SharePoint site

Additional Qiagen training

Qiagen:  IPA and OmicSoft Special Webinar

Drug repurposing: from large-scale biological data to therapeutics
Thursday, July 7, 2022

9:00 am - 10:00 am  PT

TBI IPA SharePoint site

Additional Qiagen training

Schrödinger Suite:  PyMOL

Molecular visualization system
Tuesday, June 28, 2022

9:00 am - 11:00 am  PT

TBI PyMOL SharePoint site

TBI Schrödinger SharePoint site

Link to Schrödinger's PyMOL site

Isolate Typing, Strain Identification, and Anti-Microbial Resistance Analyses Using CLC Genomics Workbench

CLC Genomics Workbench is widely used for analyses of bacterial, viral, and eukaryotic (fungal) genomes and metagenomes.
Wednesday, June 22, 2022

10:00 am - 11:00 am  PT

TBI CLC SharePoint site

Qiagen:  OmicSoft Studio training

Basic expression analysis functionalities in OmicSoft Studio and how that integrates with OncoLand, DiseaseLand, and Single Cell Land
Wednesday, June 21, 2022

10:00 am - 11:30 am  PT

TBI OmicSoft SharePoint site

Qiagen: Clinical Oncology Forum (North & South America)


Exploring how diagnostic labs can lower the barrier to adopt large cancer genomic profiling.  
It’s a new world of NGS. The challenge is no longer how to rapidly sequence DNA, but how to understand and use this genomic data at an equally accelerated pace to improve patient outcomes.  
Thursday, June 16, 2022

10:00 am - 12:00 pm  PT

TBI Qiagen SharePoint site

Schrodinger Suite: Structure-based drug discovery

Opening new worlds for structure-based drug discovery with advanced physics-based computational methods
Wednesday, June15, 2022

10:00 am - 11:30 am  PT

TBI Schrödinger SharePoint site

Accelerating Time to Discovery with Rosalind: Overview and nCounter Gene Expression - Training Session 1

Rosalind is a platform for learning bioinformatics through problem solving.
Tuesday, June 14, 2022

2:00 pm - 3:30 pm  PT

TBI Rosalind SharePoint site

Single-cell RNA-seq data analysis and interpretation

Using CLC Genomics Workbench and IPA/Ingenuity Pathway Analysis
Tuesday, June 14, 2022

10:00 am - 11:30 am  PT

TBI CLC SharePoint site

TBI IPA SharePoint site

Inflammatory Bowel Disease: Drug Target and Biomarker Investigation using QIAGEN OmicSoft 

Using Inflammatory Bowel Disease (IBD) public data from NCBI GEO through Omicsoft DiseaseLand
Tuesday, May 31, 2022

10:00 am - 11:30 am  PT

TBI OmicSoft SharePoint site

UCSC Xena Browser Workshop

UCSC Xena is a web-based visual integration and exploration tool for multi-omic data and associated clinical and phenotypic annotations.
Tuesday, April 19, 2022
1:30 pm-5:00 pm PST (3.5 hours)

Xena Browser website

Qiagen: Long-read sequencing analysis with CLC Genomics Workbench 

Introduction to tools in the Long Read Support (beta) plugin, which were developed for working with long, error-prone reads
Tuesday, March 15, 2022
9:00 am-10:30 am PST (1.5 hours)

TBI CLC SharePoint site

Additional Qiagen training

Qiagen: OmicSoft OncoLand

Accelerating Biomarker Discovery: How to use basic expression analysis functionalities.

OmicSoft Single Cell Land will also be discussed.
Thursday, February 24, 2022
10:00 am-11:30 am PST (1.5 hours)

TBI OmicSoft SharePoint site

Additional Qiagen training

Qiagen: OmicSoft DiseaseLand (non-oncological diseases) 

Accelerating Biomarker Discovery: Drug Target and Biomarker Investigation
Thursday, February 24, 2022
9:00 am-10:30 am PST (1.5 hours)

TBI OmicSoft SharePoint site

Additional Qiagen training

Qiagen: Rare Disease Summit   

Virtual summit to learn about the recent advancements in rare disease research. 
Speakers: Guest speakers and internal experts
Wednesday, February 23, 2022
6:45 am-1:00 pm PST (6.25 hours)

Additional Qiagen training

Partek: Revealing Rare Cell Types through Single Cell Multi-omics 

A COVID-19 study using Partek software
Thursday, February 17, 2022
11:00 am-12:00 pm PST (1.0 hours)

TBI Partek SharePoint site

Partek Flow webinars

Qiagen:  From Information Overload to Actionable Insights 

How a National Cancer Research Center Identifies Meaningful Mutations in Somatic Tumor Testing 
Thursday, February 10, 2022
7:00 am-8:00 am PST (1.0 hours)

Additional Qiagen training

Qiagen: CLC Genomics Workbench 

Wastewater and COVID data analysis
Thursday, February 10, 2022
6:00 am-7:30 am PST (1.5 hours)

TBI CLC GWB SharePoint site

Additional Qiagen training

Qiagen: CLC Genomics Workbench 

RNA-seq and single-cell RNA-seq data analysis
Thursday, January 20, 2022
10:00 am-12:00 pm PST (2.0 hours)

TBI CLC GWB SharePoint site

Additional Qiagen training

Qiagen: IPA/Ingenuity Pathway Analysis

Beginner training:

Large dataset analysis and knowledge base queries
2021 Q3 & Q4
Repeats twice monthly:

Tuesday, July 20, 2021
Tuesday, August 17, 2021
Tuesday, September 7, 2021
Tuesday, September 21, 2021
Tuesday, October 5, 2021
Tuesday, October 19, 2021
Tuesday, November 2, 2021
Tuesday, November 16, 2021
Tuesday, December 7, 2021
10:00 am-11:30 am PDT (1.5 hours)

TBI IPA SharePoint site

Additional Qiagen training

Qiagen: IPA/Ingenuity Pathway Analysis

Deep-dive trainings:

Core and comparison analyses, how to use IPA  without a dataset
2021 Q3 & Q4
Repeats monthly: 

Wednesday, July 21, 2021
Wednesday, August 18, 2021
Wednesday, Sept 8, 2021
Wednesday, October 6, 2021
Wednesday, November 3, 2021
Wednesday, December 8, 2021
10:00 am-1:00 pm PDT (3 hours)

TBI IPA SharePoint site

Additional Qiagen training

Qiagen: Clinical Insight (QCI) Interpret One

Overcoming Challenges of Copy Number Variant Interpretation
Wednesday, December 15, 2021
8:00 am-9:00 am PST (1.0 hours)

TBI QCII-T SharePoint site

Additional Qiagen training

Partek: What's New in Partek Flow

2021 year-end review of improvements, optimizations, new tools, and increased functionality.
Thursday, December 9, 2021
11:00 am-12:00 pm PST (1.0 hours)

TBI's Partek SharePoint site

Additional Partek training

Qiagen: Clinical Insight (QCI) Interpret One

Rapid, evidence-based reporting of oncology NGS tests at scale
Friday, December 3, 2021
8:00 am-9:00 am PST (1.0 hours)

TBI QCII-T SharePoint site

Additional Qiagen training

Qiagen: IPA and OmicSoft

Advancing drug discovery with 'omics analysis of organoids
Tuesday, November 30, 2021
10:00 am-11:30 am PST (1.5 hours)

TBI IPA SharePoint site

TBI OmicSoft SharePoint site

Additional Qiagen training

Qiagen: OmicSoft

New user training: 3-part series
Wednesday, November 17, 2021

Thursday, November 18, 2021

Friday, November 19, 2021
10:00 am-11:00 pm PST (1 hour)

TBI OmicSoft SharePoint site

Additional Qiagen training

MetaCore: Analyze your OMICS data

Focus:  Building network capability which allows you to quickly illustrate your findings. During the session we will discuss tips and tricks to optimally visualize and interpret your networks.
Tuesday, November 9, 2021
7:00 am-8:00 am PST (1.0 hours)

TBI MetaCore SharePoint site

Other MetaCore training resources

Schrödinger User Group: Virtual Event in 2021

Featuring live presentations on a wide range of topics from the Schrödinger user community. This event is free, but registration is required.

Drug Discovery Stream: 

Tuesday, October 19, 2021
10:00 am-1:00 pm PDT (3 hours)

Informatics & Collaborative Drug Design Stream:

Wednesday, October 20, 2021
10:00 am-1:00 pm PDT (3 hours)

Emerging Applications Stream:

Thursday, October 21, 2021
10:00 am-1:40 pm PDT (3.75 hrs)

Schrödinger User Group agendas


TBI SharePoint site for Schrödinger

Partek Flow: Spatial Transcriptomics Data Analysis Training

Detailed Step-by-Step Instructions 
Wednesday, September 29, 2021
11:00 am-12:00 pm PDT (1.0 hours)

Partek Flow webinars

Qiagen: RNAseq and Single cell RNAseq data analysis using CLC Genomics Workbench

Learn how to easily analyze RNA-seq and single-cell RNA-seq (scRNA-seq) data using CLC Genomics Workbench
Wednesday, September 22, 2021
8:00 am-11:00 am PDT (1.5 hours)

TBI CLC Bio SharePoint site

Additional Qiagen training

Qiagen: IPA/Ingenuity Pathway Analysis

IPA for grant writing and publications
Wednesday, August 11, 2021
8:00 am-11:00 am PDT (3 hrs)

TBI IPA SharePoint site

Additional Qiagen training

Qiagen: OmicSoft and IPA/Ingenuity Pathway Analysis

Novel discoveries from public single-cell RNA-seq data using QIAGEN OmicSoft and QIAGEN Ingenuity Pathway Analysis
Thursday, July 29, 2021
10:00 am-11:30 am PDT (1.5 hours)

Genomics Workbench flyer 

TBI CLC Bio SharePoint site

Qiagen's CLC Bio Genomic Workbench site

MetaCore

Applying systems biology tools to gain insights into mechanisms of immunotherapy resistance in melanoma
Tuesday, July 27, 2021
7:00 am-7:45 am PDT (45 min)

COH MetaCore SharePoint site

Clarivate website

Qiagen CLC Genomics Workbench

Metagenomic taxonomic profiling using CLC Genomics Workbench
Thursday, July 15, 2021
10:00 am-11:30 am PDT (1.5 hours)

TBI CLC Bio SharePoint site

Qiagen's CLC Bio Genomic Workbench site

Qiagen: CLC Bio Genomics Workbench

Genomics Workbench and its data analysis applications.
Thursday, June 24, 2021
8:00 am-9:00 am PDT (1.0 hours)

Genomics Workbench flyer 

TBI CLC Bio SharePoint site

Qiagen's CLC Bio Genomic Workbench site

Partek: Single Cell RNA-seq

Analysis of Spatially Resolved -omics Data in Partek Flow Bioinformatics Software
Thursday, June 17, 2021
11:00 am-11:30 am PDT (1.5 hours)

TBI SharePoint link to Partek Flow, including training materials

Qiagen Single Cell RNA-Seq site

Qiagen: OmicSoft OncoLand and IPA

Discovery from public oncological data using QIAGEN OmicSoft OncoLand and QIAGEN Ingenuity Pathway Analysis (IPA).
Thursday, June 17, 2021
10:00 am-11:30 am PDT (1.5 hours)

Qiagen OmicSoft

Additional Qiagen training

Qiagen: Qiagen CLC Single Cell Module and Qiagen IPA

From data to biological insight using Qiagen CLC Single Cell Module and Qiagen IPA.
Thursday, June 3, 2021
8:00 am-9:00 am PDT (1.0 hrs)

CLC Single Cell Analysis Module

Additional Qiagen training

Qiagen: Calling, annotating, and investigating genomic variants

Using CLC Genomics Workbench and Clinical Insight Interpret Translational (QCII-T)
Thursday, May 27, 2021
10:00 am-11:30 am PDT (1.5 hours)

CLC Bio SharePoint site

QCII-T SharePoint site

Qiagen's CLC Bio Genomic Workbench site

Qiagen's QCII-T site


Additional Qiagen training

Qiagen: Single-cell RNA-seq

Analysis and interpretation of user and public data using CLC Genomics Workbench, IPA, and OmicSoft Array Studio.
Thursday, May 20, 2021
10:00 am-11:30 am PDT (3 hours)

Workbench site

Qiagen's IPA site

Qiagen's OmicSoft site

Additional Qiagen training

Qiagen: De novo assembly, annotation, and long reads mapping

Using CLC Genomics Workbench
Tuesday, May 18, 2021
10:00 am-11:30 am PDT (1.5 hours)

Qiagen's CLC Bio Genomic Workbench site


Additional Qiagen training

Qiagen: SARS-CoV-2 NGS Surveillance & Epidemiology Analysis and Reporting

Solutions for genomics research, environmental testing, and epidemiological study of SARS-CoV-2 NGS data.
Tuesday, May 11, 2021
10:00 am-11:00 am PDT (1.0 hours)

Qiagen's Analysis of SARS-CoV-2 data


Additional Qiagen training

Partek Flow

RNA-seq and Single Cell Training Series:

#4 scRNA-Seq Data Analysis - Advanced Functions
Thursday, April 8, 2021

10:00 am-11:30 am PDT

TBI IPA SharePoint site

Additional Qiagen training

Qiagen: IPA/Ingenuity Pathway Analysis

Beginner training:

Large dataset analysis and knowledge base queries
Repeats the 1st and 3rd Tuesdays of each month.  
(unless it falls on a US holiday)


Tuesday, April  6,  2021
Tuesday, April 20, 2021
Tuesday, May   4,   2021
Tuesday, May 18, 2021
Tuesday, June  1, 2021
Tuesday, June 15, 2021
10:00 am-11:30 am PDT (1.5 hours)

TBI IPA SharePoint site

Additional Qiagen training

Qiagen: IPA/Ingenuity Pathway Analysis

Deep-dive trainings:

Core and comparison analyses, how to use without a dataset
Repeats the 1st Wednesday of each month. 
(unless it falls on a US holiday)


Wednesday, April 7, 2021
Wednesday, May 5,  2021
Wednesday, June 2, 2021
10:00 am-1:00 pm PDT (3 hours)

TBI IPA SharePoint site

Additional Qiagen training

Partek Flow

RNA-seq and Single Cell Training Series:

#3 scRNA-Seq Data Analysis - Basic Functions
Tuesday, April 6, 2021

10:00 am-11:30 am PDT

TBI SharePoint link to Partek Flow, including training materials

Partek's Single Cell RNA-seq site

Partek Flow

RNA-seq and Single Cell Training Series:

#2 Bulk RNA-Seq Analysis
Thursday, April 1, 2021

10:00 am-11:30 am PDT

TBI SharePoint link to Partek Flow, including training materials

Partek's Single Cell RNA-seq site

Qiagen: QCI Interpret Translational
(QCII-T)

  • Introduction: IVA to QCIIT transition
  • Sample upload and analysis creation
  • Set up filtering cascade
  • Variant analysis
Wednesday, March 31, 2021

10:00 am to 11:00 am

TBI QCII-T SharePoint site

Qiagen's QCII-T site

QIAGEN Ingenuity Pathway Analysis (IPA) biweekly training - 2 part series

New user training: Large dataset analysis and knowledgebase queries using QIAGEN IPA
Day 1 Beginner

Day 2 Intermediate
Two-day training offered on the 1st and 3rd Tuesdays and Wednesdays of every month at 1:00 PM ET/ 10:00 AM PT (unless it falls on a US holiday)

Mar 30, '21 10:00 am-11:30 am PT
Mar 31, '21 10:00 am-11:30 am PT
Mar 16, '21 10:00 am-11:30 am PT
Mar 17, '21 10:00 am-11:30 am PT
Mar 2, '21 10:00 am-11:30 am PT
Mar 3, '21 10:00 am-11:30 am PT

Agenda

TBI IPA SharePoint site, includes links to training materials

Qiagen's IPA site

Qiagen: CLC Genomics Workbench

RNA-seq and Single Cell Data Analysis
Tuesday, March 30, 2021

10:00 am-11:30 am PDT

TBI SharePoint link to CLC Bio including training materials

Genomics Workbench training:  Agenda

Qiagen: OmicSoft Lands

Novel discoveries utilizing public data

Learn how to discover and validate biomarkers, key regulators and targets through harnessing uniformly-processed public data from sources such as GEO, SRA, cancer collections (TCGA, CCLE etc.), normal tissue/cell type collections (GTEx, HPA etc.) and more using QIAGEN Omicsoft Lands.
Thursday, March 25, 2021

9:00 am to 10:30 am PST

TBI IPA SharePoint site, includes links to training materials

Qiagen's IPA site

Qiagen: IPA/Ingenuity Pathway Analysis

miRNA data analysis and interpretation

Learn how to identify target mRNAs for your miRNAs of interest and associate them with pathways, diseases, biological functions, tissues and cell types.
Thursday, March 18, 2021

10:00 am to 11:30 am PST

TBI IPA SharePoint site, includes links to training materials

Qiagen's IPA site

Partek Flow


scRNAseq/Single-cell RNA sequencing
Wednesday, March 10, 2021

1:00 pm to 2:30 pm PST

Training agenda

TBI SharePoint link to Partek Flow, including training materials

Partek's Single Cell RNA-seq site

UCSC Xena Browser


UCSC Xena Browser is an online exploration tool for public and private, multi-omic and clinical/phenotype data
Monday, February 26, 2021

1:30 pm to 5:00 pm PST

TBI SharePoint link to UCSC Xena Browser with training materials

UCSC Xena

UC Santa Cruz Genomics Institute

CAS SciFinder Classic - Refresher Training


This live session will cover material relevant to Chemistry, Biology, Biochemistry, Engineering and Pharmacy.
Wednesday, February 3, 2021

1:00 pm to 2:00 pm PST

SciFinder training flyer
Graff Library Collections
SciFinder Home page
SciFinder - COH SharePoint site

UCSC Genome Browser

Part I – Basic features

The UCSC Genome Browser (http://genome.ucsc.edu/) is a powerful tool for interacting with genome assemblies for human and many other organisms. This workshop will introduce you to the wealth of data contained in the browser and related databases, and will allow you to integrate and compare results of your genomic and transcriptomic experiments with highlights of new releases & features. 

Part II – More features, data types

Part III – Advanced features

Part IV – Coronavirus Resources
Monday, January 11, 2021

Monday, January 18, 2021

Monday, January 25, 2021

Monday, February 1, 2021
1:30 pm to 3:30 pm PDT

TBI SharePoint link to UCSC GB with training materials

UCSC Genome Browser http://genome.ucsc.edu/

Science Webinars:


Investigating cellular pathways driving severe COVID-19:

Fresh insights from longitudinal plasma proteomics
Wednesday, November 18, 2020

9:00 am to 10:00 am PST
Additional webinar content and speaker information available here

Qiagen CLC User Group:

Topic: Microbial and Public Health Genomics
Thursday, Oct 22 2020

7:00 am PDT

Agenda available here
CLC Bio - COH SharePoint site

Qiagen:

RNA-seq Virtual Conference 2020
Wednesday & Thursday

Oct 21-22, 2020

See times for each speaker here
Explore the exciting RNA universe in our RNA-seq virtual conference! Join us from October 21–22, 2020, for an insightful journey of live and recorded scientific application and research webinars by QIAGEN’s RNA-seq experts and invited external speakers.

Conference link
IPA - COH SharePoint site

Qiagen:


Immuno-Oncology webinar
Thursday, Oct 15, 2020

Immuno-Oncology  webinar slide deck

Accelerate your Immuno-Oncology research with QIAGEN.  Learn more about QIAGEN’s NGS solutions such as, QIAseq Targeted Methlseq and T-Cell Receptor sequencing and improve your NGS data with the accuracy of unique molecular indexes and integrated data analysis solutions!
Recording: Part 1 and Part 2 QIAGEN’s Immuno-Oncology NGS portfolio

Partek Flow:


Enable your workflow for Single Cell and Spatial Transcriptomics
Thursday, Oct 15, 2020

7:00 am PDT
Speaker
M. Christine Hollander, Laboratory of Cancer Biology and Genetics, NCI, NIH
Stephen Hague, Science and Technology Advisor, 10x Genomics
Ivan Lukic, Field Application Scientist, Partek

Link to Partek site
Partek - COH SharePoint site

Ci4CC: 


Fall 2020 Symposium & Workshop
Thursday, Oct 8, 2020

10:00 am-3:00 pm PDT

Download the agenda

Ci4CC: 


Fall 2020 Symposium & Workshop
Thursday, Oct 1, 2020

10:00 am-3:15 pm PDT

Download the agenda

Ci4CC: 


Fall 2020 Symposium & Workshop
Thursday, Sept 24, 2020

10:00 am-2:45 pm PDT

Download the agenda

Qiagen: Digital PCR


Oncogenic mutation detection using the new QIAcuity system
Thursday Sept 3, 2020

9:00 am-10:00 am PDT

Additional information about course content and speaker

Matlab series:


Introduction to Simulink for Modeling Dynamic Systems
Wednesday, July 8, 2020

Time: 12 pm – 1:30 pm PDT

Sponsored by MathWorks®
Event details
Matlab - COH SharePoint site

Partek Flow:


Trajectory Analysis - How to analyze Single Cell RNA-Seq Data: Point, Click, Done
Wednesday, June 24, 2020

8:00 am - 9:00 am PDT

Sponsored by Partek®
Event details
Partek - COH SharePoint site

Big Data Training for Cancer Research:
Big Care Special Lecture Series


The Role of the Tumor Microenvironment in Promoting Tumor Growth
Series Schedule:
June 8: Dr. Timothy Ratliff – Purdue University
June 9: Dr. Peter Kraft – Harvard University
June 12: Dr. Sean Davis – The National Cancer Institute
June 15: Dr. Daniel Raftery – University of Washington
June 16: Dr. Constantine Gatsonis – Brown University
June 18: Dr. Mark Kelley – Indiana University
June 19: Dr. Warren Kibbe – Duke University
All lectures:
10:00 am - 11:30 am (PDT)
Series Recordings:

June 8: Dr. Timothy Ratliff:
-- YouTube  or  Zoom
June 9: Dr. Peter Kraft – Harvard University
-- YoutTube  or  Zoom
June 12: Dr. Sean Davis – The National Cancer Institute
-- YouTube  or  Zoom
June 15: Dr. Daniel Raftery – University of Washington
June 16: Dr. Constantine Gatsonis – Brown University
June 18: Dr. Mark Kelley – Indiana University
June 19: Dr. Warren Kibbe – Duke University

Additional information about lecture series

MathWorks:


Virtual MATLAB Day - 4 live webinars
Thursday, June 18, 2020

10:00 am-5:00 pm PDT

Sponsored by MathWorks®
Event details
Download the presentation
MathWorks Matlab - COH SharePoint site

National Library of Medicine:


Updated BLAST rRNA Databases: RefSeq Ribosomal RNA Sequences for Identification of Fungi, Bacteria, and Archaea
Wednesday, June 17, 2020

9:00 am - 9:45 am PDT
NCBI: 

The National Center for Biotechnology Information advances science and health by providing access to biomedical and genomic information.

Partek Flow


Single Cell RNA-Seq Data Analysis
Friday June 5, 2020

10:00 am - 11:30 am

Sponsored by Partek
Link to training video
Partek - COH SharePoint site

cBioPortal for Cancer Genomics Series:


1 Introduction to cBioPortal
2 Mutation Details & Patient View
3 OQL & Expression
4 Group Comparison
5 API & R Client
1 Thurs, Apr 30, 2020  8:00 am–9:00 am
2 Thurs, May  7, 2020  8:00 am–9:00 am
3 Thurs, May 14, 2020  8:00 am–9:00 am
4 Thurs, May 21, 2020  8:00 am–9:00 am
5 Thurs, May 28, 2020  8:00 am–9:00 am

cBioPortal.org

cBioPortal - R workshop (on github)

Link to all webinars for full series

cBioPortal - COH SharePoint site

Partek Flow


Bulk RNA-Seq Data Analysis
Friday May 22, 2020

10:00 am - 11:30 am
Sponsored by Partek

COH Partek Flow training links

Partek Flow


CHIP-Seq/ATAC-Seq Data Analysis 
Friday May 15, 2020

1:00 pm - 2:30 pm
Sponsored by Partek

COH Partek Flow training links

Qiagen Cancer Research Online:


Cancer genomics, liquid biopsy and dPCR
Thursday, May 7, 2020

8:00 am–9:30 am PDT
Sponsored by Qiagen

Partek Flow:


Single Cell RNA Trajectory Analysis using Partek Flow
Wednesday, April 29, 2020

11:15 am–1:15 pm PDT
Link to Partek video:  

Additional scRNA Trajectory Analysis using Partek Flow information here
Partek - COH SharePoint site

Qiagen:


IPA - Intermediate level and OmicSoft
Tuesday, April 28, 2020

10:00 am–12:30 pm PDT
Link to COH training day video

Link to IPA information and training materials

Qiagen:


IVA 
Tuesday, April 14, 2020

10:00 am-11:00 am PDT
Link to COH training day video

Additional IVA information from Qiagen

Partek Flow:


Tissue Transcriptomics Data Analysis in Partek® Flow® - Data Import, Analysis, and Visualization
Thursday, April 2, 2020

11:15 am
Link to Partek video

Additional information on Partek website

TBI Partek Flow SharePoint site

Qiagen:


IVA, IPA, OmicSoft
Wednesday, April 1, 2020

1:00 pm-3:30 pm

Link to COH training day video

Additional information on IPA website

TBI IPA SharePoint site

Qiagen:


IPA and OmicSoft Array Studio

Tuesday, February 4, 2020

1:30 pm-4:00 pm

Link to COH training day video

TBI IPA SharePoint site

TBI OmicSoft SharePoint site

Qiagen Applications Overview:


IPA, IVA, Omicsoft, QiaSeq/QCI

Monday, Dec 16, 2019 

10:30 am-3:30 pm

TBI IPA SharePoint site

TBI OmicSoft SharePoint site

TBI QCII-T SharePoint site

TBI training site

Qiagen website

Qiagen:


IVA, IPA, OmicSoft

November 7, 2019

9:00 am-1:00 pm

TBI IPA SharePoint site

TBI OmicSoft SharePoint site

TBI training site

Partek Flow:


Single Cell RNA-Seq Analysis
Thurs  Aug 1 & 2, 2019
Friday Aug 2, 2019 

Thurs: 1:00 pm-5:00 pm
Friday: 1:30 pm-3:30 pm
Partek Flow website

TBI Partek Flow SharePoint site

Partek Flow training flyer

Partek Flow training agenda

Partek Flow training materials

WashU Epigenome Browser

Friday  Mar 28, 2019 

1:30 pm-5:00 pm Hands-on

Link to WashU Epigenome Browser

TBI Training SharePoint site

CLC Genomics Workbench
Part 2 


Exploring RNA-seq data using the CLC Genomics Workbench: Expression Analysis and Ingenuity Pathway Analysis (IPA) upload

Wednesday  March 20, 2019 

1:00 pm EST  (10:00 am PST)

Qiagen CLC Bio Genomics Workbench
Speaker: Prakriti Mudvari
Senior Scientist – QIAGEN Bioinformatics
TBI CLC Bio SharePoint site

CLC Genomics Workbench
Part 1


CLC Genomics Workbench:
An Overview

Wednesday  March 13, 2019 

1:00 pm EST  (10:00 am PST)

Qiagen CLC Bio Genomics Workbench
Speaker: Prakriti Mudvari

Senior Scientist – QIAGEN Bioinformatics
TBI CLC Bio SharePoint site

UCSC Xena Browser

Thursday  Mar 7, 2019  

10:00 am-11:00 am Overview
1:00 pm-5:00 pm Hands-on

Link to UCSC Xena Browser
TBI Training Materials

UCSC Genome Browser: 


Day 1 – Overview
Day 2 – Hands-on Computer Workshop

Dec 6, 2018
2:00 pm-5:00 pm

Dec 7, 2018   
9:00 am-4:00 pm

TBI Training Materials
Announcement/Flyer 
Seminar agenda

IPA/Ingenuity Pathway Analysis

Announcement/Flyer

Seminar Agenda

July 24, 2018      

10:00 am-4:00 pm

COH IPA User Guide

Training Materials:  slides & video


For collaboration requests, questions, or technical support
e-mail  InformaticsHelp@coh.org

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