Heck of a lot more organized than the first #phage #pangenome test I threw together, but still very much iffy. I was hoping the new genes as nodes attempt would pay off, but I'm beginning to think high degree of nucleotide level variation and mosaicism in phages does not mix well with brute force pangenome attempts.

#Phage family #pangenome test. I really wasn't expecting much in the beginning, but the dataset is starting to look pretty interesting.

Been testing out half a dozen or so pangenome building pipelines/libraries. I'll definitely do a write up of the experience soon.

Another fun tool from Heng li - pangene for constructing pangenome graphs from assemblies.

https://github.com/lh3/pangene

Utilizing provided list of proteins (via miniprot) to construct graphs around it sounds interesting! #bioinformatics #pangenome

The future release of #delly2 will contain a 'Pan-genome based SV caller' https://github.com/dellytools/delly/commit/00bdb661f6524623a4da275c0beb4331d8f7d4a3#diff-7e4c9a6f514d8ac9f231bdc1ce58ddae1fa9bdbfb05f7055fc401d71d2039ee0R46 #sv #structuralvariant #pangenome #bioinformatics

MemPanG23 - Virtual Conference
#Pangenome #pangenomics #genomics Recordings https://www.youtube.com/watch?v=TaoRZYOOC1Y

A #pangenome of 72 Arabidopsis thaliana accessions reveals a conserved genome structure throughout the global species range

https://www.researchsquare.com/article/rs-2976609/v1

Today's post is about two events that happened at the beginning of May, the sequencing of the #pangenome and first baby born using #mitochondrial replacement https://blogs.nottingham.ac.uk/makingsciencepublic/2023/05/17/mitochondrial-replacement-and-the-pangenome/

A draft of the human pangenome with 47 assemblies representing 13 populations https://www.nature.com/articles/s41586-023-05896-x

Interested to know more about the toolset associated with pangenome analysis 🧐

#genetics #genomics #pangenome #bioinformatics #biology

“Already an established tool for microbes and plants, pangenomes are finally reaching the vertebrate world. In July 2022, the Human Pangenome Reference Consortium (HPRC) published a preprint of a draft pangenome based on 47 individuals who represent a wide swathe of ethnic and geographic diversity. Hundreds more genomes are now slated for incorporation into this assembly.” #dna #genetics #pangenome #isogg #geneadons

https://www.nature.com/articles/d41586-023-01300-w

https://www.biorxiv.org/content/10.1101/2023.04.05.535718v1 "Building #pangenome graphs" #graph #bioinformatics

Been working on a #pangenome tutorial comparing alignments with #minimap2 (left) and #seqseqpan (right) and adding genome features, including species-specific sequences, sequence similarity, TEs, and ATAC-seq (data from Heliconius butterflies). https://stevenvb12.github.io/

A syntelog-based #pangenome provides insights into rice domestication and de-domestication

https://www.biorxiv.org/content/10.1101/2023.03.17.533115.abstract

🧬 The 8th Annual #EmeraldConference is just around the corner! We help you explore the full spectrum of genetic variation in Cannabis. Leveraging the genomic information from multiple individuals - a pangenome - reveals complex genetic variation and links it to traits. 


Let’s connect in San Diego 👉 https://bit.ly/3kp1NkY

#Pantograph #pangenome #visualization #cannabis #cannabisresearch #cannabisscience #cannabisgrowers #plantscience

Looking forward to presenting a poster at the leading #Cannabis Science Event, The #EmeraldConference, 1-3 March: “Exploring the full spectrum of genetic variation in Cannabis with Pantograph”. A #pangenome browser for better trait predictions 🧬👉 https://bit.ly/3kp1NkY


#Pantograph #visualization

Now we have an increase of more than 200 Mb of the African Rice genome sequence that probably harbour plenty of genes of interest for breeding! @ird_fr @LAPSE_IRD @AfricaRice #rice #breeding #pangenome

Delighted to have been chosen as a poster presenter at the leading cannabis science event - The #EmeraldConference, 1-3 March. Join me in San Diego 👉 https://bit.ly/3kp1NkY



#Pantograph #pangenome #visualization

Meet Computomics at The #EmeraldConference! The #Cannabis landscape and market are evolving rapidly - and along with it the need for varieties with optimized traits for changing growing conditions 🌱
👉 https://bit.ly/3kp1NkY
#Pantograph #pangenome #visualization

#Microcystis #pangenome reveals cryptic #diversity within and across #morphospecies

https://www.science.org/doi/10.1126/sciadv.add3783

#cyanobacteria #hab #toxic #aquatic #freshwater #limnology #lake

Research improves ability to identify and study #algae species.

#HAB #genomic #phylogenetics #Microcystis #pangenome

https://phys.org/news/2023-01-ability-algae-species.html

Exploring the #pangenome 🧬, the entire genetic variation between multiple whole genome DNA sequences, lets you discover the links between #genetics and #traits. See how - with #Pantograph, Computomics' interactive browser of pangenome graphs👇
https://www.youtube.com/watch?v=sJe28ob6Mm8&t=302s