Iowa Institute of Human Genetics
Iowa Institute of Human Genetics
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University of Iowa and 10X Genomics Single Cell Symposium - March 21, 2024
มุมมอง 1704 หลายเดือนก่อน
University of Iowa and 10X Genomics Single Cell Symposium - March 21, 2024
Partek Flow Demonstration 9 21
มุมมอง 36411 หลายเดือนก่อน
Partek Flow Demonstration 9 21
Customizing single cell applications to interrogate mechanisms of acquired drug resistance in cancer
มุมมอง 5512 ปีที่แล้ว
For the third talk in the IIHG Computational Biology Seminar Series, we are pleased to welcome Dr. Adam Dupuy, Associate Professor of Anatomy and Cell Biology in the Carver College of Medicine, University of Iowa. Adam is a cancer geneticist who works with the Sleeping Beauty transposon system to perform phenotype-selected forward genetic screens, focusing on cancer and drug resistance. His lab...
Visualization of RNA Sequencing Data with PCA clustering and Heatmaps in RR Studio clean
มุมมอง 10K2 ปีที่แล้ว
As sequencing technologies continue to improve and assessment of the transcriptome with RNA-Sequencing becomes more commonplace, it is important that the proper methods are in place to analyze the large amounts of data. R/R Studio contains many packages that are useful for both statistical analysis and visualization of large datasets. In this webinar, we will focus specifically on two of the mo...
Introduction to Bioconductor and Public Genomic Data in R
มุมมอง 8K2 ปีที่แล้ว
An online workshop of the IIHG Bioinformatics Division presented by Jason Ratcliff, MS. Topics covered include Bioconductor and NCBI GEO, and using programmatic methods to access data. Goals of this workshop include introducing common R/Bioconductor data structures, how to work with data in R, a brief description of Object Oriented programming and combining these ideas to apply to accessing pub...
NGS Interest Group Beyond the DE gene list understanding your RNA seq results
มุมมอง 6333 ปีที่แล้ว
RNA-seq has quickly taken over as the preeminent experiment for measuring gene expression in tissue samples. The technique has a wide array of applications from understanding the role of a gene knockout to assessing the impact of a novel drug. While most investigators are focused on the differentially expressed (DE) genes detected in the experiment, there is a wealth of other information that c...
NGS-10x Genomics Sample Prep for Chromium Single Cell Gene Expression, ATAC, and Multiome Solutions
มุมมอง 10K3 ปีที่แล้ว
First, we will provide an overview of 10x Genomics Chromium and Visium solutions. Next, we will cover general sample preparation guidelines for Chromium single cell solutions, including important concepts when isolating cells or nuclei from mouse embryonic and adult brains. Finally, we will review how to isolate nuclei for single cell gene expression, ATAC, and multiome ATAC gene expression sol...
Next Generation Sequencing Interest Group - Considerations for RNA-Seq and Multi-omics Experiments
มุมมอง 5733 ปีที่แล้ว
Next Generation Sequencing Interest Group - Considerations for RNA-Seq and Multi-omics Experiments
Genomic Analysis of Chronic Staphylococcus Aureus Infections in Cystic Fibrosis
มุมมอง 6193 ปีที่แล้ว
This talk was given by Anthony Fischer, MD, PhD, Assistant Professor of Pediatrics (Pulmonary Medicine, UIHC) on Feb 23, 2021. Dr. Fischer is discussing using whole genome sequencing to analyze isolates of Staphylococcus aureus cultured from patients with cystic fibrosis. Through this work, Dr. Fischer has learned that children and adults with cystic fibrosis are often infected with different s...
Introduction to ACMG Genetic Variant Classification
มุมมอง 8K3 ปีที่แล้ว
The American College of Medical Genetics (ACMG) has comprehensive but complex guidelines on how to classify human genetic variants, from benign to pathogenic. Learn how to use and apply these guidelines in your research or clinical testing, including common mistakes and how to adjust criteria strength. Speaker: Diane Kolbe, PhD. Iowa IIHG: medicine.uiowa.edu/humangenetics/ Iowa MORL: morl.lab.u...
Genetic Counseling Interns Do's and Don'ts, 2019
มุมมอง 2.1K4 ปีที่แล้ว
A short video describing the "Do's" and "Don'ts" of a genetic counseling session. Brought to you by the 2019 Intern class of the IIHG Genetic Counseling program. To learn more, visit: medicine.uiowa.edu/humangenetics/education medicine.uiowa.edu/humangenetics/links-interest www.aboutgeneticcounselors.com/ www.nsgc.org/
Introduction to Metagenomics for Researchers
มุมมอง 45K5 ปีที่แล้ว
In this screencast, I discuss why we should care about microbiomes and what is metagenomics more generally. I also talk about computational methods for analysis, and look at the nature of metagenomics data and how it differs from other types of data. Many of the slides in this talk are adapted from slides prepared by Curtis Huttenhower at Harvard (huttenhower.sph.harvard.edu/) and are re-used h...
10X Genomics Loupe Single Cell Browser Explained in 7 minutes
มุมมอง 19K6 ปีที่แล้ว
This video is a short introduction to the 10X Genomics desktop single-cell browser software called "Loupe Cell Browser." In 7 minutes, I attempt to explain the basic features of the software and how you can use it to quickly get a view onto your single-cell data. We in the Iowa Institute of Human Genetics Bioinformatics Division have the pipelines and expertise necessary to help you process and...
Introduction to RNA-Seq for Researchers
มุมมอง 96K6 ปีที่แล้ว
This screencast is an adaptation of a talk I (Michael Chimenti) gave here at the University of Iowa for the TEK talks series this fall, 2017. It provides an overview of RNA-Seq generally, and then delves into each of the steps providing tips and best practices along the way. Find out more about us at: medicine.uiowa.edu/humangenetics/ Our bioinformatics division can help you with your RNA-Seq a...
RNA-seq results explained: what you can expect from an analysis
มุมมอง 8K6 ปีที่แล้ว
RNA-seq results explained: what you can expect from an analysis
Quick Start Guide to Running Ingenuity Pathway Analysis (IPA)
มุมมอง 28K7 ปีที่แล้ว
Quick Start Guide to Running Ingenuity Pathway Analysis (IPA)
IIHG Intro to Kallisto for RNA-Seq
มุมมอง 12K8 ปีที่แล้ว
IIHG Intro to Kallisto for RNA-Seq
IIHG Intro to Sleuth for RNA-Seq
มุมมอง 8K8 ปีที่แล้ว
IIHG Intro to Sleuth for RNA-Seq
IIHG Intro to the UCSC Genome Browser | Part 5 of 5
มุมมอง 1.1K8 ปีที่แล้ว
IIHG Intro to the UCSC Genome Browser | Part 5 of 5
IIHG Intro to the UCSC Genome Browser | Part 3 of 5
มุมมอง 2.1K8 ปีที่แล้ว
IIHG Intro to the UCSC Genome Browser | Part 3 of 5
IIHG Intro to the UCSC Genome Browser | Part 4 of 5
มุมมอง 1.4K8 ปีที่แล้ว
IIHG Intro to the UCSC Genome Browser | Part 4 of 5
IIHG Intro to the UCSC Genome Browser | Part 2 of 5
มุมมอง 3.8K8 ปีที่แล้ว
IIHG Intro to the UCSC Genome Browser | Part 2 of 5
IIHG Intro to the UCSC Genome Browser | Part 1 of 5
มุมมอง 7K8 ปีที่แล้ว
IIHG Intro to the UCSC Genome Browser | Part 1 of 5

ความคิดเห็น

  • @muhammadfahmi9804
    @muhammadfahmi9804 2 หลายเดือนก่อน

    May i ask, how exactly do you find these universal primers? Do we just type 16s in NCBI, then find the primer for that? Because usually, in NCBI, they're species specific, not umiversal

  • @sefatergbashi
    @sefatergbashi 3 หลายเดือนก่อน

    Awesome!

  • @quantumchase
    @quantumchase 4 หลายเดือนก่อน

    I am currently studying Wilson Disease, and based on the literature I have gathered, there is no well-established genotype-phenotype association. Also, there are multiple mutations across all 21 exons of the ATP7B gene. But most of the literature also state that they are using ACMG guidelines for classifying variants. Any comment on that?

  • @frankfeng3737
    @frankfeng3737 6 หลายเดือนก่อน

    Very good presentation. thanks for sharing.

  • @ademolaolofin
    @ademolaolofin 11 หลายเดือนก่อน

    Awesome, thanks a lot for this video

  •  ปีที่แล้ว

    Thank you Iowa Institute for Human Genetics. Greetings from a bioeng grad student from Universidad del Cauca, Colombia.

  • @kseniaalexandrova5298
    @kseniaalexandrova5298 ปีที่แล้ว

    Thank you very much for this wonderfully presented material.

  • @jahnvihora403
    @jahnvihora403 ปีที่แล้ว

    Great video. Thank you!

  • @jessehines4044
    @jessehines4044 ปีที่แล้ว

    I don't understand. If you want to detect what genes are off or on and by how much they are expressed then why not just use epigenomics instead of transcriptomics?

  • @Johan-et9sx
    @Johan-et9sx ปีที่แล้ว

    lache la traduction en français ta voix de cancéreux là

  • @researchstudentacademy3512
    @researchstudentacademy3512 ปีที่แล้ว

    Best lecture on metagenomics, wish for further information 👌

  • @MissAsdfb99
    @MissAsdfb99 2 ปีที่แล้ว

    Could you please share the link

  • @bostonwren9203
    @bostonwren9203 2 ปีที่แล้ว

    Wish I could see this great video earlier. So many questions solved.

  • @olgaantonova5939
    @olgaantonova5939 2 ปีที่แล้ว

    great webinar!

  • @0102murphy
    @0102murphy 2 ปีที่แล้ว

    Is this just applied to gremlin variant? Can it be applied to somatic variant?

  • @davidnduuru8516
    @davidnduuru8516 2 ปีที่แล้ว

    Thank you 10x team and the host. Can I get a copy of the slides to use for my rehearsals? I am trying to understand the work flow of single cell seq to use on my postgraduate project and this could be of great help. Again, thank you so much for the presentation.

  • @noereyna2553
    @noereyna2553 2 ปีที่แล้ว

    Hello, awesome video. Could the .html be shared? thanks

  • @JesusMiguelH96
    @JesusMiguelH96 2 ปีที่แล้ว

    Could you please give us access to the document used in the video?

  • @mr.e-machine9422
    @mr.e-machine9422 2 ปีที่แล้ว

    I have chronic gut issues that comes along with all other kinds of side effects. Is there any way to get into this study as a patient? I have an appointment at Ohio state coming soon. My life is falling apart and most of my doctors don't seem to understand the severity of it.

  • @maewoods1044
    @maewoods1044 2 ปีที่แล้ว

    This is such a helpful video. Thank you so much!

  • @grsbiosciences
    @grsbiosciences 2 ปีที่แล้ว

    Could you please give link to access data shown in video

  • @laurencollen8543
    @laurencollen8543 2 ปีที่แล้ว

    This was excellent -- are slides publicly available as implied at the end of the lecture?

    • @iowainstituteofhumangeneti7584
      @iowainstituteofhumangeneti7584 2 ปีที่แล้ว

      Lauren, I don't believe they are at this time. You could email Diana directly and ask for a copy.

  • @zc7504
    @zc7504 2 ปีที่แล้ว

    thank you so much for the presentation! well explained!

  • @lailadababnahas9969
    @lailadababnahas9969 2 ปีที่แล้ว

    thanks

  • @learningtime1367
    @learningtime1367 2 ปีที่แล้ว

    Dr. Michael mentions at 48:17 that he did a webinar on pathway analysis. Could you please share the link? Thank you!

  • @RyeCA
    @RyeCA 2 ปีที่แล้ว

    This video is a great summary of Metagenomics!

  • @EtandoAAyuk
    @EtandoAAyuk 2 ปีที่แล้ว

    Thanks so much for the video. Very informative. Uts my first time to read about metagenomics because I have an interest for my PhD and your video motivates me. Thanks 😊

  • @Dr.Mahesh_H
    @Dr.Mahesh_H 2 ปีที่แล้ว

    Thanks for the video. Please make a video on chip seq analysis in R starting with GEO dataset, there is no proper one on internet so far.

  • @booJay
    @booJay 2 ปีที่แล้ว

    Nice video, thanks Michael! I'm a molecular biologist who struggles with the basics of bioinformatics so this really helped.

  • @weewweeho
    @weewweeho 3 ปีที่แล้ว

    Thank you very much Dr. Kolbe this is a very useful and informative overview.

  • @simplychem4160
    @simplychem4160 3 ปีที่แล้ว

    Thanks a lot. very well explained.

  • @utsubo7063
    @utsubo7063 3 ปีที่แล้ว

    This is wonderful information about bioconductor and Public database!

  • @1973vgc
    @1973vgc 3 ปีที่แล้ว

    thanks for sharing, greetings from Spain!

  • @azchannel4045
    @azchannel4045 3 ปีที่แล้ว

    theng you...

  • @mikephelan5940
    @mikephelan5940 3 ปีที่แล้ว

    This is really terrific, thank you so much for providing it to all. The 10X folks did a great job IMHO: very well organized and clear, many tips on how to succeed. Hoping to run my first 10X experiment very soon and this is very reassuring information to have at hand. Hopefully I can find a pdf of these presentations, but if not I'll just take screen captures. Cheers!

  • @muffinman1
    @muffinman1 3 ปีที่แล้ว

    Informative and concise. Thanks!

  • @huanhuanzhao105
    @huanhuanzhao105 3 ปีที่แล้ว

    Great video! Thank you!

  • @tvmcharnet
    @tvmcharnet 3 ปีที่แล้ว

    Really appreciate this explanation, as I'm having my first go at writing a protocol for a job.

  • @acidclarity_
    @acidclarity_ 3 ปีที่แล้ว

    this is amazing helpful! wow thank you 10x !!

  • @StevenMGruber
    @StevenMGruber 3 ปีที่แล้ว

    Great presentation! Systematic and very easy to follow, thanks for putting this together!

  • @muffinman1
    @muffinman1 3 ปีที่แล้ว

    BA1 is benign-standalone not benign-automatic. Its weight is so heavy that just that criteria itself can cause the variant to be considered benign as the name implies.

    • @dianakolbe8944
      @dianakolbe8944 3 ปีที่แล้ว

      Yes, the formal name is benign stand-alone. In practice, unless dealing with a well-known and established high-frequency pathogenic variant such as the global exception list, if BA1 is satisfied, the variant can be automatically considered benign without considering other criteria.

  • @Shaq0112
    @Shaq0112 3 ปีที่แล้ว

    Excellent!

  • @negarashariastani1863
    @negarashariastani1863 3 ปีที่แล้ว

    Thanks. Very well-described

  • @pedroosorio5012
    @pedroosorio5012 3 ปีที่แล้ว

    Great video! Cheers

  • @betulbitirsoylu8040
    @betulbitirsoylu8040 3 ปีที่แล้ว

    Great! So explanatory. Thank you.

  • @amybraun5924
    @amybraun5924 3 ปีที่แล้ว

    Thank you

  • @muskduh
    @muskduh 3 ปีที่แล้ว

    thanks

  • @benjaminsimpson6691
    @benjaminsimpson6691 3 ปีที่แล้ว

    Could you guys potentially consider copy-number variant discovery using NGS data? I work at a university and most of our research staff no about copy-numbers and the data you get back, but have no clue how this data is derived. The resources available are pretty high level!

  • @dantekillbourne4747
    @dantekillbourne4747 4 ปีที่แล้ว

    Im an undegrad writing a thesis for my honors program. COVID destroyed my proposal and had to switch up to a remote RNAseq analysis - you've just saved my college career sir thank you

  • @lizo.3
    @lizo.3 4 ปีที่แล้ว

    This is very informative. Especially for beginner PhD students. Thank you!