Fall Workshop Series
The UIC Research Informatics Core (RIC) is presenting a five-part introduction to bioinformatics workshop. Common bioinformatics techniques and methods will be reviewed, with an emphasis on practical skills in statistical analysis and data interpretation for applications in next-generation sequencing (NGS) data sets.
Registration is now OPEN! Space is limited so, be sure to register now at https://go.uic.edu/RICWorkshops
NOTE. In order to register you will need a UIC iLab account. If you do not have one please visit https://rrc.uic.edu/get-started/user-registration/.
Details Heading link
logistics
- When: Oct 1st – Oct 29th, every Tuesday
- Where: VIRTUAL and IN-PERSON
- Virtual: Via Zoom
- In-Person: Molecular Biology Research Building (MBRB), Rm 1152
- Time: 9 AM to 4:45 PM
- Food: Light refreshments and lunch will be provided to in-person participants
- Computer Requirements: Computer with at least: 4GB RAM, 10GB free storage. Must be 64bit architecture.
Cost
- UIC/CBC:
- Virtual: $125/day, $550 all days
- In-person: $150/day, $660 all days
UIC graduate students receive 60% discount on registration, sponsored by UIC CCTS
- Non-UIC rate markup:
- Rush: 10%
- External: 60%
Workshop Sessions Heading link
The following workshops days will be offered for this series. Choose any or all of the days that suit your skills needs.
Tues, Oct 1st: Introduction to R
Learn the R studio interface and programming language, including data types, basic programming, reading and writing data, installing packages, basic statistics and data visualization.
Tues, Oct 8th: Advanced Topics in R
Topics covered include data manipulation and programming; plotting with ggplot; and additional statistical tests, including summary statistics, parametric/non-parametric tests, and multiple regression.
Pre-requisites:
This workshop day assumes knowledge and skills that will be covered in Introduction to R workshop day (day 1). Registration for this pre-requisite days is strongly recommended unless the attendee is very confident in their abilities or has previously attended this workshop day. If an attendee opts out of pre-requisite workshop days, then they assume full responsibility for the level of skill required for the later workshop days.
Tues, Oct 15th: Advanced Statistics in edgeR
Learn how to run pairwise, multi-group, and multi-factor statistics (e.g. one-way or two-way ANOVA, repeated measures), and batch effect corrections, in edgeR. Practice visualizing results in PCA plots and heatmaps. Applicable to RNA-seq, ChIP-seq, ATAC-seq, bisulfite-seq, and metagenomics.
Pre-requisites:
This workshop day assumes knowledge and skills that will be covered in Introduction to R workshop day (day 1). Registration for this pre-requisite days is strongly recommended unless the attendee is very confident in their abilities or has previously attended this workshop day. If an attendee opts out of pre-requisite workshop days, then they assume full responsibility for the level of skill required for the later workshop days.
Tues, Oct 22nd: Single Cell RNA-seq
Single cell transcriptome quantification, quality control, normalization, and clustering. Statistical tests for differential expression and composition. Evaluating the robustness of results, and putative cell type identification. Integration of scRNA-seq with VDJ or feature profiling data, as well as trajectory analysis, will also be covered.
Pre-requisites:
This workshop day assumes knowledge and skills that will be covered in Introduction to R workshop day (day 1). Registration for this pre-requisite days is strongly recommended unless the attendee is very confident in their abilities or has previously attended this workshop day. If an attendee opts out of pre-requisite workshop days, then they assume full responsibility for the level of skill required for the later workshop days.
Tues, Oct 29th: Pathway Analysis
Review and discussion of databases, statistical methods, and tools available for pathway analysis, including Gene Ontology, KEGG, MSigDB/GSEA, and Ingenuity Pathway Analysis (IPA). Network analysis and visualizations discussed as well.
Pre-requisites:
This workshop day assumes knowledge and skills that will be covered in Introduction to R workshop day (day 1). Registration for this pre-requisite days is strongly recommended unless the attendee is very confident in their abilities or has previously attended this workshop day. If an attendee opts out of pre-requisite workshop days, then they assume full responsibility for the level of skill required for the later workshop days.
Additional details Heading link
- Cancellation Policy:
- Notification must be given given two weeks prior to the scheduled workshop.
- Pre-requisite policy:
- Advanced Topics in R, Advanced Statistics in edgeR, Single Cell RNA-seq, and Pathway Analysis workshop days (days 2-5) assume knowledge and skills that will be covered in Introduction to R workshop day (day 1). Registration for these pre-requisite days is strongly recommended unless the attendee is very confident in their abilities. If an attendee opts out of pre-requisite workshop days, then they assume full responsibility for the level of skill required for the later workshop days.