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BIOL 3004 videos: Home

Research Experiences in Microbiomes Network (REMNet)

Video REMNet: Introduction to Instructors (5/3/19)

Welcome to the Research Experiences in Microbiomes Network (REMNet), and learn how you can incorporate next-generation microbiome sequencing into your biology course curriculum.


Citation: [CUNYMedia] (2019, May 3) REMNet: Introduction To Instructors 5 3 19.[video] Retrieved from: https://youtu.be/J51_T1becNc

Transcript for REMNet Introduction to Instructors

Video: REMNet: A Student's Introduction to Urban Microbiomes (5/3/19)

A Student’s Introduction to Urban Microbiomes: Have you ever wondered about the microbiome of the environment around you? Let us introduce you to a new way of observing and studying micriobial communities in the built environment.


Citation: [ CUNYMedia] (2019, May 3) REMNet: A Student's Introduction to Urban Microbiomes [video] Retrieved from: https://youtu.be/HULU-u6453k

Transcript for REMNet: A Student's Introduction to Urban Microbiomes

Video: REMNet: Online Resources (5/3/19)

Please explore the resources and training tools we have for faculty and students studying microbiomes in their course curricula.


Citation: [CUNYMedia] (2019, May 3) REMNet: Online Resources. 5 3 19 [video] Retrieved from: https://youtu.be/hHgRJSinfuk

Transcript for REMNet: Online Resources

Video: REMNet: A Student's Guide to Experimental Design (5/3/19)

Here are some introductory steps for designing a microbiome research project for your undergraduate course.


Citation: [CUNYMedia] (2019, May 3) REMNet: A Student's Guide to Experimental Design 5 3 19. [video] Retrieved from: https://youtu.be/wiZQtayh9Bc

Transcript for REMNet: A Student's Guide to Experimental Design

Video: REMNet Tutorial, Excel Part 1: Accessing Your Microbiome Data (5/3/19)

Open 16S raw microbiome data files, and prepare your data for down stream analyses.


Citation: [CUNYMedia] (2019, May 3) REMNet Tutorial, Excel Part 1: Accessing Your Microbiome Data 5 3 19. [video] Retrieved from:https://youtu.be/W5qgoCzF6Oc

Transcript for REMNet Tutorial, Excel Pt 1: Accessing Your Microbiome Data

Video: REMNet Tutorial, Excel Part 2: Understanding Your Microbiome "Data Summary" Document (4/25/19)

Learn about the contents of the Data Summary file provided by the Authentic Research Experience in Microbiology (AREM) program of REMNet.


Citation: [CUNYMedia] (2019, April 25) REMNet Tutorial, Excel Part 2: Understanding Your Microbiome "Data Summary" Document 4 25 19 [video] Retrieved from:https://youtu.be/eI1ekIdNwqA

Transcript for REMNet Tutorial, Excel Part 2: Understanding Your Microbiome "Data Summary" Document

Video: REMNet Tutorial, Excel Part 3: Organizing Your Microbiome Data (5/3/19)

Organize your 16S microbiome taxa summary data using the Average and Count functions, the Sort and Conditional Formatting tools, and formulas for the SUM function.


Citation: [CUNYMedia] (2019, May 3) REMNet Tutorial, Excel Part 3: Organizing Your Microbiome Data (5/3/19) [video] Retrieved from:https://youtu.be/ihCKiEIM7yM

Transcript for REMNet Tutorial, Excel Part 3: Organizing Your Microbiome Data

Video: REMNet Tutorial, Excel Part 4: Focusing on Taxonomy (4/26/19)

Isolate and analyze a subset of your16S microbiome project’s Operational Taxonomic Units (OTUs) at a specific taxonomic level using the Text to Columns, Remove duplicates and Sort tools, and the SUM IF and COUNT IF functions.


Citation: [CUNYMedia] (2019, April 26) REMNet Tutorial, Excel Part 4: Focusing on Taxonomy (4/26/19) [video] Retrieved from:https://youtu.be/W7G1rh2TNzs

Transcript for REMNet Tutorial, Excel Part 4: Focusing on Taxonomy

Video: REMNet Tutorial, Excel Part 5: Making Heat Maps (4/26/19)

Make heat maps by exploring features of the Conditional Formatting Tool.


Citation: [CUNYMedia] (2019, April 26) REMNet Tutorial, Excel Part 5: Making Heat Maps (4/26/19) [video] Retrieved from: https://youtu.be/GSwhic3ZZY0

Transcript for REMNet Tutorial, Excel Part 5: Making Heat Maps

Video: REMNet Tutorial, Excel Part 6: Making Microbiome Column Charts (5/3/19)

Learn the basics of working in the R software environment and how to load necessary packages to analyze microbiome datasets.


Citation: [CUNYMedia] (2019, May 3) REMNet Tutorial, Excel Part 6: Making Microbiome Column Charts (5/3/19) [video] Retrieved from: https://youtu.be/YpAWQ_9H4y8

Transcript for REMNet Tutorial, Excel Part 6: Making Microbiome Column Charts (5/3/19)

Video: REMNet Tutorial, R Part 1: Getting Started in R with Microbiome Data (5/3/19)

Learn the basics of working in the R software environment and how to load necessary packages to analyze microbiome datasets.


Citation: [CUNYMedia] (2019, May 3) REMNet Tutorial, R Part 1: Getting Started in R with Microbiome Data (5/3/19) [video] Retrieved from: https://youtu.be/3D_upswq0p4

Transcript for REMNet Tutorial, R Part 1: Getting Started in R with Microbiome Data (5/3/19)

Video: REMNet Tutorial, R Part 2: Importing Your Microbiome Data into R (5/3/19)

Learn how to import key data files for 16S microbiome data analyses.


Citation: [CUNYMedia] (2019, May 3) REMNet Tutorial, R Part 2: Importing Your Microbiome Data into R (5/3/19) [video] Retrieved from: https://youtu.be/teVVOf0Vf-g

Transcript for REMNet Tutorial, R Part 2: Importing Your Microbiome Data into R (5/3/19)

Video: REMNet Tutorial, R Part 3: Creating Alpha Diversity Plots in R (5/2/19)

Explore the details within your microbiome metadata file, and practice the commands to produce alpha diversity plots from your sequence data.


Citation: [CUNYMedia] (2019, May 2) REMNet Tutorial, R Part 3: Creating Alpha Diversity Plots in R (5/3/19) [video] Retrieved from https://youtu.be/Npo6t1zVsMs

Transcript for REMNet Tutorial, R Part 3: Creating Alpha Diversity Plots in R (5/2/19)

Video: REMNet Tutorial, R Part 4: Creating Taxa Plots in R (5/2/19)

Transform microbiome data and produce taxa bar plots commonly used in published literature.


Citation: [CUNYMedia] (2019, May 2) REMNet Tutorial, R Part 4: Creating Taxa Plots in R (5/2/19) [video] Retrieved from: https://youtu.be/HQiF3oaR2rg

Transcript for REMNet Tutorial, R Part 4: Creating Taxa Plots in R (5/2/19)

Video: REMNet Tutorial, R Part 5: Normalizing Microbiome Data in R (5/2/19)

Control for sequencing variability by using the commands to normalize your microbiome dataset.


Citation: [CUNYMedia] (2019, May 2) REMNet Tutorial, R Part 5: Normalizing Microbiome Data in R (5/2/19) [video] Retrieved from https://youtu.be/X639cZODl7M

Transcript for REMNet Tutorial, R Part 5: Normalizing Microbiome Data in R (5/2/19)