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/.

  • 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.

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.