NCGR October 2022 Virtual Single Cell RNA-Seq analysis Workshop
Application: Fill out this online application here: Single Cell Workshop Application
Space is limited!
Application and letter of recommendation due by midnight October 4th
When
October 17 – 21, 2022 (5 days)
9 am – 4 pm
Where
Online (by the National Center for Genome Resources (NCGR) Santa Fe, NM)
Topic Overview
A typical RNA sequencing experiment captures transcriptional changes at the bulk tissue level representing a heterogenous mixture of cells and providing an aggregated expression result. By performing RNA sequencing on isolated single cells, one can pinpoint cellular expression and consider genome sequences from individual cells to investigate for example, cell lineage relationships, variability between cells and how a cell functions in its local environment. In this workshop, we will create and import single cell data, and cover topics such as normalization, quality control, dimensionality reduction, visualization, and data interpretation.
Objective
Students will leverage their Unix and R command knowledge and become familiar with the SingleCellExperiment and Seurat R packages as well as an interactive Shiny web application to perform statistical metrics and data visualization for a variety of bioinformatic approaches to single cell sequencing analysis.
Audience
This advanced workshop is targeted towards students versed and interested in applying UNIX and R to solve complex bioinformatics problems.
Workshop Rates
Space is limited!
Application and letter of recommendation due by midnight October 4th
When
October 17 – 21, 2022 (5 days)
9 am – 4 pm
Where
Online (by the National Center for Genome Resources (NCGR) Santa Fe, NM)
Topic Overview
A typical RNA sequencing experiment captures transcriptional changes at the bulk tissue level representing a heterogenous mixture of cells and providing an aggregated expression result. By performing RNA sequencing on isolated single cells, one can pinpoint cellular expression and consider genome sequences from individual cells to investigate for example, cell lineage relationships, variability between cells and how a cell functions in its local environment. In this workshop, we will create and import single cell data, and cover topics such as normalization, quality control, dimensionality reduction, visualization, and data interpretation.
Objective
Students will leverage their Unix and R command knowledge and become familiar with the SingleCellExperiment and Seurat R packages as well as an interactive Shiny web application to perform statistical metrics and data visualization for a variety of bioinformatic approaches to single cell sequencing analysis.
Audience
This advanced workshop is targeted towards students versed and interested in applying UNIX and R to solve complex bioinformatics problems.
Workshop Rates
Applicant Category |
Cost |
New Mexico Students & New Mexico Academic Researchers |
Free |
All other students |
$1,000 |
IDeA state Researchers |
$1,250 |
Academic, Military, Government |
$1,750 |
Commercial |
$2,250 |
Application Due 11:59pm September 20th. Late applications will not be accepted. Selection Committee to select participants shortly after the deadline. If any questions arise while reviewing your application packet, we will contact you directly.
Prerequisites
Unix, sequencing basics and other study guides will be provided upon acceptance.
What to expect upon acceptance
Email confirming acceptance into the internship program and further details.
Logistics
The workshop will be conducted virtually using primarily Zoom as our conferencing platform. We will also use a variety of other software and tools, and you will log onto NCGR’s Unix analysis server for the command line tools. After the workshop, students can use our analysis server for their research or education purposes for up to one year.
Contact
Please contact Project Coordinator, Ethan Price, with any additional questions you may have at [email protected] and we look forward to your participation!
Sponsored by New Mexico IDeA Network for Biomedical Research Excellence (NM-INBRE).