Lan Lan
@lanlan233.bsky.social
AGIS, China/Murdoch University, Australia.
PhD candidate, interested about the genomics.
Focused on 🌸
PhD candidate, interested about the genomics.
Focused on 🌸
Reposted by Lan Lan
While our updated paper is fast approaching book-length, the results remain the same: our method (reconcILS) is still highly accurate.
So if you want to reconcile gene trees and species trees--and you might have any ILS at all--this is the best method out there!
www.biorxiv.org/content/10.1...
So if you want to reconcile gene trees and species trees--and you might have any ILS at all--this is the best method out there!
www.biorxiv.org/content/10.1...
reconcILS: A gene tree-species tree reconciliation algorithm that allows for incomplete lineage sorting
Reconciliation algorithms infer the evolutionary history of individual gene trees given a species tree. Many reconciliation algorithms consider only duplication and loss events (and sometimes horizont...
www.biorxiv.org
January 7, 2026 at 11:22 AM
While our updated paper is fast approaching book-length, the results remain the same: our method (reconcILS) is still highly accurate.
So if you want to reconcile gene trees and species trees--and you might have any ILS at all--this is the best method out there!
www.biorxiv.org/content/10.1...
So if you want to reconcile gene trees and species trees--and you might have any ILS at all--this is the best method out there!
www.biorxiv.org/content/10.1...
Reposted by Lan Lan
🍄🧪🔬🧫🧬🖥
Horizontal Gene Transfer is everywhere in genomes of #Fungi (too!), mainly driven by Tc1/Mariner transposons...
I've seen every major group of life (bacteria, plants, insects, mammals) gone through the 4 phases of #HGT:
not ever ->
not common ->
not relevant ->
ok its everywhere!
Horizontal Gene Transfer is everywhere in genomes of #Fungi (too!), mainly driven by Tc1/Mariner transposons...
I've seen every major group of life (bacteria, plants, insects, mammals) gone through the 4 phases of #HGT:
not ever ->
not common ->
not relevant ->
ok its everywhere!
Extensive horizontal transfer of transposable elements shapes fungal mobilomes
@currentbiology.bsky.social by @jromeijn.bsky.social et al from @mfseidl.bsky.social
www.cell.com/current-biol...
@currentbiology.bsky.social by @jromeijn.bsky.social et al from @mfseidl.bsky.social
www.cell.com/current-biol...
Extensive horizontal transfer of transposable elements shapes fungal mobilomes
Romeijn et al. reveal that horizontal transposon transfer is widespread in fungi,
contributing up to 70% of transposon content in some taxa. The authors uncover thousands
of events across diverse line...
www.cell.com
December 6, 2025 at 11:47 AM
Reposted by Lan Lan
Benchmark for simple and complex genome inversions https://www.biorxiv.org/content/10.1101/2025.11.28.691176v1
December 2, 2025 at 12:47 AM
Benchmark for simple and complex genome inversions https://www.biorxiv.org/content/10.1101/2025.11.28.691176v1
Reposted by Lan Lan
Haplotype-resolved diploid genome inference on pangenome graphs https://www.biorxiv.org/content/10.1101/2025.11.26.690754v1
November 27, 2025 at 11:46 PM
Haplotype-resolved diploid genome inference on pangenome graphs https://www.biorxiv.org/content/10.1101/2025.11.26.690754v1
Reposted by Lan Lan
Delighted to finally announce a preprint describing the Q100 project! “A complete diploid human genome benchmark for personalized genomics” For which we finished HG002 to near-perfect accuracy: www.biorxiv.org/content/10.1... 🧵[1/14]
A complete diploid human genome benchmark for personalized genomics
Human genome resequencing typically involves mapping reads to a reference genome to call variants; however, this approach suffers from both technical and reference biases, leaving many duplicated and ...
www.biorxiv.org
September 22, 2025 at 5:01 PM
Delighted to finally announce a preprint describing the Q100 project! “A complete diploid human genome benchmark for personalized genomics” For which we finished HG002 to near-perfect accuracy: www.biorxiv.org/content/10.1... 🧵[1/14]
Reposted by Lan Lan
The consequences of polyploidy are... well, complicated. A deep dive into polyploidy in a massively successful tribe of grasses. A masterpiece led by Michelle Stitzer, representing the work of a lot of folks on the PanAnd project over last 7 years. www.biorxiv.org/content/10.1...
Extensive genome evolution distinguishes maize within a stable tribe of grasses
Over the last 20 million years, the Andropogoneae tribe of grasses has evolved to dominate 17% of global land area. Domestication of these grasses in the last 10,000 years has yielded our most product...
www.biorxiv.org
January 26, 2025 at 9:16 PM
The consequences of polyploidy are... well, complicated. A deep dive into polyploidy in a massively successful tribe of grasses. A masterpiece led by Michelle Stitzer, representing the work of a lot of folks on the PanAnd project over last 7 years. www.biorxiv.org/content/10.1...