PH

Scientific Leadership |Computational Biology|Head |AI -Bio

[antisense. @razoralign]

HAT: de novo variant calling for highly accurate short-read and long-read sequencing data https://t.co/BNU2agiJsq

[Clint Miller @clintomics]

Impressive automated ML based study predicting scRNA pipeline performance by comparing 288 pipelines across 86 datasets..should help optimize parameters for newly generated single-cell datasets. Training data here: https://t.co/4ZXpbkF1Ar https://t.co/Ql4Q9iG3Tj @kieranrcampbell

[PH @parham350]

@wbmei @PacBio cool! like it ;)

[Ming "Tommy" Tang @tangming2005]

DeepCCI: a deep learning framework for identifying cell-cell interactions from single-cell RNA sequencing data | Bioinformatics | Oxford Academic https://t.co/O3MSazPOAw

[Mo Lotfollahi @mo_lotfollahi]

GET: a foundation model of transcription across human cell types

Scalable training across single-cell ATAC and RNA+ATAC datasets

https://t.co/H9Sszcczqf

[Nature Biotechnology @NatureBiotech]

Single-cell lineage capture across genomic modalities with CellTag-multi reveals fate-specific gene regulatory changes https://t.co/uelb94o71a

[PH @parham350]

@raju_aafc @canolacouncil @CanolaGrowers @SaskCanola @AlbertaCanola @mb_cropalliance @AAFC_Canada Enjoy Raju 👍

[Tatsuya Nobori @nobolly]

Community-developed checklists for publishing images and image analyses https://t.co/JR9etOIKnS

[antisense. @razoralign]

NAPU: Scalable Nanopore sequencing of human genomes provides a comprehensive view of haplotype-resolved variation and methylation https://t.co/jNgARNLBwU

[Liz Tseng @Magdoll]

First @PacBio MAS-Seq for bulk RNA (Iso-Seq) preprint! Captured full length 7kb RBFOX2 isoforms in Cas13d-mediated knock down

https://t.co/B8AtOxxZQy

[Diego del Alamo @DdelAlamo]

"cdsBERT - Extending Protein Language Models with Codon Awareness"

This codon-based PLM outperforms ProtBERT on EC number prediction

https://t.co/3jzigDPh0Z

[Javier Santoyo @jsantoyo]

The shape of chromatin: insights from computational recognition of geometric patterns in Hi-C data. #HiC #ChromatinStructure #Bioinformatics
https://t.co/XmIb0onbVl

[bioRxiv Bioinfo @biorxiv_bioinfo]

Identifying small-molecules binding sites in RNA conformational ensembles with SHAMAN https://t.co/xbz7693Fl5 #biorxiv_bioinfo

[Ming "Tommy" Tang @tangming2005]

new blog post: neighborhood/cellular niches analysis with spatial transcriptome data in Seurat and Bioconductor #rstats #spatialtranscriptome
https://t.co/lszFzCF32N

[Nature Biotechnology @NatureBiotech]

Generation of precision preclinical cancer models using regulated in vivo base editing https://t.co/Dc0eJXQTZa

[antisense. @razoralign]

LAST-seq: single-cell RNA sequencing by direct amplification of single-stranded RNA without prior reverse transcription and second-strand synthesis https://t.co/SLsiYIJ29A

[Javier Santoyo @jsantoyo]

HiBrowser: an interactive and dynamic browser for synchronous Hi-C data visualization #HiC #DataVisualization @BriefingBioinfo https://t.co/8P3WFKThzI

[Diego del Alamo @DdelAlamo]

"Reprogramming Pretrained Language Models for Antibody Sequence Infilling"

https://t.co/0UIVv6iPFY

[nf-core @nf_core]

Great article by @zifoinformatics about their experiences working with the @nf_core #rnasplice pipeline 📖🎉

https://t.co/bbAEMNhSJU