Sakcham

DefensePredictor: A machine learning model to discover prokaryotic immune systems | Science science.org/doi/10.1126/sc…

geneSTRUCTURE: A Modern Platform for Visualization of Gene Structures biorxiv.org/content/10.648… 🧬💻🧪 github.com/hashimotoshump…

Easily visualize flows in categorical data with the R package parcats. It lets you build interactive parallel category plots to explore how categories change across stages or time points. Built on plotly, fully interactive, and works well with tidy data. Ideal for: ✔️ Longitudinal data ✔️ Survey response changes ✔️ Multi-stage classification ✔️ Categorical transitions The visualization below shows a parcats plot created from an alluvial-style dataset in wide format. It’s taken from the package website: erblast.github.io/parcats/ Stay updated on R, Python, and data science tools. Join my newsletter today. For more information, visit this link: statisticsglobe.com/newsletter #datasciencetraining #DataViz #Rpackage #DataVisualization #RStats #Data #coding

Big update for #gbdraw! - Multi-record circular plots: Genomes with multiple replicons can now be displayed in a single view! - Advanced linear plots: Focus on regions of interest with granular control over feature selection and color-coding! Try now: gbdraw.app

Protein–protein interactions (PPIs) are key to discovering and interpreting new biological functions. We’re excited to introduce 𝑭𝒍𝒂𝒔𝒉𝑷𝑷𝑰: a new application of gLM2 that uses genomic language modeling to predict proteome-wide PPIs in microbial genomes in minutes.

📢 Our paper is now out in @ISMEJournal! 🦠 What happens when a pathogen population is genetically diverse AND under antibiotic pressure? TL;DR #AMR is a community effort! #Pseudomonas aeruginosa

A major work from our lab is out in Science! @ScienceMag, another key step towards a true demonstration of RNA self-replication. science.org/doi/10.1126/sc… (1/6)

Scikit-bio: a fundamental Python library for biological omic data analysis nature.com/articles/s4159…

MicrobTiSDA: A flexible R package for inferring interspecies interactions and abundance dynamics in microbiome time-series data onlinelibrary.wiley.com/doi/10.1002/im…

Bacteriophages mobilize bacterial defense systems via lateral transduction science.org/doi/full/10.11…

Visualizing pairwise genome comparisons? No need to run BLAST separately anymore! 🧬 ​#gbdraw has implemented #LOSAT, a WASM-powered Rust reimplementation of BLASTN/TBLASTX. ​✅ No local installation ✅ No data transfer (Serverless) ​Try it here: gbdraw.app

Keystone concept revisited: insights into microbial community dynamics and control | Nature Reviews Microbiology nature.com/articles/s4157…

Molecular mechanisms of antibiotic resistance revisited | Nature Reviews Microbiology (nature.com/articles/s4157…)

We're thrilled to announce SeqHub, an AI-enabled platform for biological sequence analysis. SeqHub brings together sequence search, genome annotation, and data sharing in one place. I dreamed of a single place where I could learn everything about my sequences. Today, a much more refined version of this dream takes form with SeqHub.org, built by an incredible team at @tatta_bio. Our goal is to make sequence interpretation more intuitive and collaborative for everyone working with biological sequences. Currently, SeqHub is optimized for microbial protein and genome analysis. As we expand beyond microbial data, we'd love your feedback to help shape what comes next. I'm deeply grateful to our team at Tatta Bio, and to our collaborators and funders, for making this vision a reality. Check it out at seqhub.org!

Two group leader positions available in the broader areas of RNA science, RNA technologies, and RNA medicine. Attractive packages and a great environment. Come and join us at Helmholtz RNA Würzburg, Bavaria.

Gene-Set Enrichment Analysis and visualization on the web using EnrichmentMap: RNASeq. #GSEA #WebTool #RNAseq @BioinfoAdv academic.oup.com/bioinformatics…

PEANUT: Pathway Enrichment Analysis through Network Utilization. #PathwayEnrichment #Bioinformatics academic.oup.com/bioinformatics…

My team at ATCC is growing! New #bioinformatics position! More to come too! If you’re an early career bioinformatics professional, have a passion for #genomics standards, quality and scientific reproducibility - then take a look!🧬🖥️ 🧫🦠🔬🚀 Let’s go! careers-atcc.icims.com/jobs/3992/bioi…

Gene-Set Enrichment Analysis and visualization on the web using EnrichmentMap: RNASeq. #GeneSetEnrichmentAnalysis #WebTool #Bioinformatics @BioinfoAdv academic.oup.com/bioinformatics…

Eukfinder: a pipeline to retrieve microbial eukaryote genome sequences from metagenomic data | mBio journals.asm.org/doi/10.1128/mb…