Introduction to Single-Cell RNA Sequencing

Genspace NYC

In this workshop, we’ll capture, sequence and analyze >1,000 single cells from an anemone to explore cell diversity and gene expression.

Genspace

3 Session Workshop:Saturday, April 15, 2-6pmSunday, April 16, 2-6pmSaturday, April 22, 2-6pm*﻿Note: Because this is an advanced science workshop, all participants must have some prior lab experience and be comfortable using a micropipette. For newbies, <a href="https://www.eventbrite.com/e/biohacker-boot-camp-tickets-539734760197" target="_blank" data-msys-clicktrack="0" rel="nofollow noopener noreferrer">Biohacker Boot Camp</a> <a href="https://www.eventbrite.com/e/biohacker-boot-camp-tickets-522714712777?aff=odeimcmailchimp&amp;mc_cid=323c8e3bc1&amp;mc_eid=UNIQID" target="_blank" data-msys-clicktrack="0" rel="nofollow noopener noreferrer"></a>is a pre-requisite, and we recommend and at least one additional lab intensive course (e.g. CRISPR, SynBio, Microbiome). See <a href="https://www.genspace.org/classes" target="_blank" data-msys-clicktrack="0" rel="nofollow noopener noreferrer">Genspace Classes </a>page for additional dates and details. Human bodies have approximately 30 trillion cells. To understand how these cells work, scientists typically rely on looking at whole tissue samples to look for large-scale patterns of what genes are turned on and off, or under what conditions different genes are used. But grinding tissue into a homogeneous “goo” doesn’t provide the resolution needed to investigate the unique RNA expression profiles of individual ‘trees’ (single cells) from otherwise impenetrable ‘forests’ (tissues). The advent of widespread and accessible single-cell and single-nucleus RNA sequencing (sc/snRNAseq) has revolutionized molecular biology. Less than a decade ago, the first sc/snRNAseq experiments analyzed dozens of cells. Now, sc/snRNAseq experiments can regularly reach &lt;100,000 or even &gt;1,000,000 cells at very low costs. With powerful tools to profile and discover new cell types, we can expand our understanding about every major biological research area, from brain development to sea anemones! In this workshop, participants will learn about modern concepts and techniques in sc/snRNAseq. Participants will gain hands-on experience with the experimental and computational techniques that allow capture and analysis of &gt;1,000 nuclei from frozen <a href="https://en.wikipedia.org/wiki/Aiptasia" target="_blank" data-msys-clicktrack="0" rel="nofollow noopener noreferrer">Aiptasia </a>anemones. <ul><li>Session 1: Extract nuclei from Aiptasia, isolate single nuclei into PIPs via vortex</li><li>Session 2: Prepare and process samples for snRNA sequencing using our very own Illumina MiniSeq</li><li>Session 3: Computationally analyze snRNAseq data: read mapping, cell calling, dimensionality reduction, and differential expression</li></ul>COVID-19 Safety Notice: Participants age 5+ must show proof of full vaccination (we recommend using the <a href="https://epass.ny.gov/home" target="_blank" data-msys-clicktrack="0" rel="nofollow noopener noreferrer">Excelsior Pass</a>). Masks are required to be worn for the duration of the event when indoors, and if participants consent the Instructor may remove their mask for easier communication. If you have had COVID-19 within the past 15 days, a negative PCR or rapid test is required before coming to Genspace. Please show Genspace staff your proof of negative test results. Given the rapidly changing circumstances surrounding the pandemic, please note that terms of this event are subject to change, and we will update you ASAP. COVID-19 Class Cancellation PolicyIf you are feeling unwell, suspect that you have been exposed to COVID-19 or test positive, please do not attend and let us know ASAP (info@genspace.org). If you cancel after our 7-day policy, we cannot refund your ticket, but we can exchange and offer credits toward future classes. If you have signed up for Biohacker Boot Camp, we will automatically transfer your registration to the next month’s dates unless you tell us otherwise.

Paul Frazel (he/him) is a Ph.D. candidate in the Neuroscience and Physiology program at NYU Medical School. He is originally from Chicago, and has a B.A. in Biology and Philosophy from Dartmouth College. At NYU, Paul is involved in multiple single-cell RNA sequencing projects examining differential gene expression between brain cell types, in both health and disease. Particularly, Paul is interested in understanding the mysteries of noncoding “junk” DNA, and how this genomic dark matter impacts the risk of Alzheimer’s disease.Twitter: <a href="https://twitter.com/SciPaulie" target="_blank" data-msys-clicktrack="0" rel="nofollow noopener noreferrer">@SciPaulie</a>

Mara Holloman (she/her) is a Research Associate and lab manager in a neuroscience and physiology lab at NYU School of Medicine. She grew up in Westchester, NY and has a B.A. in Behavioral Neuroscience from Connecticut College. At NYU, Mara helps to maintain a lab as well as run her own projects that utilize single-nuclei RNA sequencing to better understand the role of specific genes in neurodegenerative diseases that affect the peripheral nervous system.

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Introduction to Single-Cell RNA Sequencing

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Introduction to Single-Cell RNA Sequencing

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