Hellow guys, Welcome to my website, and you are watching R - Monkeypox Genetics. and this vIdeo is uploaded by Danny Arends at 2022-05-27T08:18:11-07:00. We are pramote this video only for entertainment and educational perpose only. So, I hop you like our website.
| Name | R - Monkeypox Genetics |
| Video Uploader | Video From Danny Arends |
| Upload Date | This Video Uploaded At 27-05-2022 15:18:11 |
| Video Discription | Example of real-live dataanalysis of monkeypox genomics and proteomics using R on publicly available data from National Center for Biotechnology Information (https://www.ncbi.nlm.nih.gov/) and recent data published to https://virological.org/ Code available: https://github.com/DannyArends/Monkey22 Topics discussed: - Where do we get our data from ? - Load Genome sequences from .Fasta and NCBI - Create a blast database - Load associated proteins from NCBI using rentrez - Creating a protein consensus model Levenstein, MSA - Blast Consensus sequence to the viral genomes DB tblastn - Genomic layout of the virus Chapters: 00:00 Welcome 04:36 Where do we get our data from ? 08:03 Download DNA sequences from Ensembl 15:37 Committing to Github 18:20 Source IDs 32:01 Load Genome sequences from .Fasta and NCBI 39:46 Load associated protein sequences 47:54 Query proteins 50:09 Example: Chemokine binding protein 55:50 Fixing some warnings 1:01:11 Creating a protein consensus model 1:05:26 Levenstein distance 1:08:19 Multiple sequence alignment 1:10:24 TblastN the protein consensus model 1:25:54 Blast E-values explained 1:41:31 Displaying names 1:49:00 Viral variants compared 2:00:08 Viral genomic structure overview We'll use the following R libraries: msa, RColorBrewer, rentrez, stringdist, seqinr Blast from ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/LATEST/ Thanks for taking an interest in my channel 😄If you've made it this far down, support me by giving a like or subscribing. Join me during my live stream lectures Thursday afternoons on YouTube or follow me Twitch @ https://www.twitch.tv/dannyarends #bioinformatics #monkeypox #rlanguage #biostreaming #biomaRt #sequenceanalysis #sequences #blast #blastn #tblastn #programming #coding #geneticanalysis #statisticsfordatascience #academicyoutube #levenstein #msa #viralgenomes #genomics #proteins #fasta #ensembl #ncbi #consensussequence #database #msc #phd #course #lectureseries #live #livestream #livestreaming #code #github #rcolorbrewer #rentrez #seqinr |
| Category | Science & Technology |
| Tags | Monkey POx | Monkey pox | DNA analaysis | Genetics | intro | howto | R lang | Rlanguage | R prog | R programming language | consensus sequence | alignment | msa | multiple sequence alignement | alingment | modelo de consenso de proteínas | Alineación de secuencias múltiples | Secuencia múltiple | lenguaje R | programacion en r | virus | viraal | viral |
