Introducing Project Menhed 🎨 Ancient Egyptian scribes used a palette (Menhed) to mix ink. I'm using Python to mix genes. Phase 1: Design a bacteria that produces a Red Dye with high efficiency & 100% In Silico. I'll share Updates Publicly Read More 👇 djosergenomics.github.io/Introducing-...

Tried out Google's Antigravity today! For a while wanted to introduce a dark mode for the @djosergenomics.github.io Website so decided to let Antigravity's AI Agent take on the task and it performed very well done. Saved me a lot of time indeed! djosergenomics.github.io

Part of HTGAA Week 4 is to write a proposal on an In-silico Bacteriophage Engineering. My proposal: 'ArmoredPhage' 🛡️ My goal: Engineer a Thermostable MS2 Bacteriophage Using Protein Design Techniques. Check it out: djosergenomics.github.io/Armored-Phag... #HTGAA #synbio #AlphaFold #proteindesign

Week 4 of HTGAA (Protein Design) is done & I'm amazed! I was always intimidated by 3D protein models in papers & never thought I'd understand them one day! Today, I loaded a PDB file into PyMOL, saw the alpha helices & beta sheets of my Tyrosinase enzyme. This is so cool. 🚀 #HTGAA #proteindesign

Week 3 of HTGAA is all about lab automation! 🤖 I wrote a script to program a virtual Opentrons robot to draw my Djoser Genomics pyramid. It simulates robots pipetting 100+ dots of fluorescent E.coli because manually it is slow & error-prone. #HTGAA #synbio #Opentrons #automation #bioinformatics

I am going to audit the How to Grow Almost Anything (HTGAA) course for my first introduction to my Synthetic Biology journey. I just did the Bio Bootcamp, & i really loved the interactive sessions on Benchling and Opentrons. Super Excited for more! #SyntheticBiology #Bioengineering #MIT #HTGAA

I decided to take a deep dive into Synthetic Biology, Bio & Genetic Engineering, something I've wanted to learn for a while. I believe it holds incredible potential & innovation for the future if used correctly Got any tips or resources? :D #SyntheticBiology #Bioengineering

Introducing Field Notes from the Step Pyramid! The target is a space where I can document and share my thoughts, experiences, dreams, & struggles as I navigate through bioinformatics & computational biology. I will also share snippets from it here to be able to engage with others and learn more.

Been busy with final exams in med school for the last couple of weeks, still not done! But I'll have some time to get back here :) I've got some new projects and ideas that I'm excited about, so stay tuned! :D

🥳 Happy 1st Birthday to Djoser Genomics! 🥳 From starting Djoser Genomics, Learning and Exploring Various Projects, to publishing my first preprint and creating the Bulk RNAseq Tutorial Codex! Thank you for being part of this journey so far. Here’s to Year Two. 🚀 #Bioinformatics #DjoserGenomics

🎉 The Bulk RNAseq Tutorial Codex is now complete! 🎉 From dataset discovery all the way to enrichment analyses Every scroll 📜 is now available, covering alignment, quantification, DEGs, visualization & everything in between The Codex is yours to explore ✨ #RNAseq #Bioinformatics #scicomm

New Zealand’s prescribing habits likely helped create a homegrown #MRSA 🇳🇿🧬💊 Now ‘AK3’ has been detected overseas Our recent study shows how it evolved & how #Genomics can help reduce the impact of the next ‘superbug’ #AMR is an issue for everyone #SciComm 🖥️🧬💻 #AcademicSky #MicroSky 🧪🧫🦠

📜 Scroll VIII: Djoser's Discoveries! The Grand Finale, we dive into Gene set Enrichment Analysis (GSEA), why we do it, how we do it and how to visualize and interpret it. Check it out: djosergenomics.github.io/Scroll-8-Djo... #bioinformatics #RNAseq #scicomm

📜 Scroll VII: Thutmose's Trends! Here, We identify Trends among our DEGs using Functional (GO) and Pathway (KEGG) Enrichment Analysis! Check it out: djosergenomics.github.io/Scroll-7-Thu... #bioinformatics #RNAseq #scicomm

📜 Scroll VI: Ramses' Plots! We dive into Visualizations! MA, PCA, Volcano Plots and Heatmaps! Check it out: djosergenomics.github.io/Scroll-6-Ram... #bioinformatics #RNAseq #scicomm

📜 Scroll V: Menkaure's Measures! We dive into Differential expression analysis (DEA), using DESeq2, and how to interpret the findings Check it out: djosergenomics.github.io/Scroll-5-Men... #bioinformatics #RNAseq #scicomm

Q: What can we learn about plants via metabolomics analysis? 🌱🤔 A: Lots of interesting and useful things! Read our blog to find out what they are: www.fiosgenomics.com/plant-metabo... #metabolomics #plantmetabolomics #metabolomicsanalysis #bioinformatics

📜 Scroll IV: Khafre’s Connections is here! We step into the next stage of our RNAseq journey! Importing Kallisto results into R, linking them to gene annotations, & building a strong foundation for downstream analysis Here: djosergenomics.github.io/Scroll-4-Kha... #bioinformatics #RNAseq #scicomm

🧬 Scroll 3 of the Bulk RNA-seq Tutorial Codex is here! ⚒️ Guided by King Khufu, we pseudoalign our reads using Kallisto — fast, efficient, and accurate. 🌐 Full tutorial + cultural spotlight: 📜 djosergenomics.github.io/Scroll-3-Khu... #RNAseq #bioinformatics #scicomm

🔍 Scroll 2 of Djoser’s Bulk RNAseq Tutorial Codex is here! We dive into RNA-seq Quality Control with FASTQC — guided by Hesy-Ra, the first known dentist & physician in history. 🧪 Read here: djosergenomics.github.io/Scroll-2-Hes... #bioinformatics #RNAseq #scicomm

Did you know? 🧠 The Original Step Pyramid that inspired our logo was designed by Imhotep — the same ancient figure featured in Scroll 1 of our Bulk RNAseq Tutorial Codex. Dive in Now ↓ #RNAseq #Bioinformatics #SciComm

🎊 Scroll 1 of Djoser’s Bulk RNAseq Tutorial Codex: Imhotep's Insights 🎊 We start by collecting real RNA-seq data from ENA using Google Colab. Inspired by Imhotep - ancient Egypt’s architect of the Pyramid of Djoser. 📜 Check it out: djosergenomics.github.io/Scroll-1-Imh... #bioinformatics #RNAseq

🧬 Introducing the Bulk RNA-seq Tutorial Codex. A step-by-step series where I guide you through real transcriptomics analysis, one scroll at a time. Check out the blog post and follow the codex 👉 djosergenomics.github.io/Bulk-RNAseq-... #Bioinformatics #RNAseq #scicomm

I'm planning on making a series of mini blog tutorials on bulk RNAseq, they'll be beginner friendly to help someone who's just starting. I'm also planning to theme it around ancient Egypt just like Djoser ;D So stay tuned! #Bioinfomatics #RNAseq

Only a few days left to apply to join our lab and do exciting senescence research at the University of Cambridge Cancer Research UK Cambridge Institute @cruk-ci.bsky.social @cam.ac.uk 🧪🧬 You can also send informal enquiries (info below): www.jobs.cam.ac.uk/job/52026/ www.jobs.cam.ac.uk/job/52027/

Spread the news! We are excited to expand our research team, working on cellular senescence, at the Cancer Research UK Cambridge Institute, University of Cambridge. jobs.cam.ac.uk/job/52026/ jobs.cam.ac.uk/job/52027/

🧬💻 We're hiring a #Software #Developer @emblebi.bsky.social! Join the @deciphergenomics.bsky.social team building tools for global rare disease diagnosis & research. Work that matters, in a collaborative environment. 👉 Apply: embl.wd103.myworkdayjobs.com/en-US/EMBL/j... ⏰ Deadline: 10 August

🚀New Blog Post! Just finished a training project on variant calling using zebrafish data from @uofglasgow.bsky.social study on fisheries selection (PRJNA630223) Walked through the full pipeline: QC → alignment → variant calling → VEP annotation #Genomics #Zebrafish #Bioinformatics #VariantCalling

📚Looking for some textbooks or reviews for learning genomics, gene editing, and molecular biology. Trying to build a solid foundation, Any recommendations?

🦟 Bioinformatics Research Scientist position open in my lab in Nice (FR) to study Aedes mosquito retrotransposons & their interactions with arboviruses collab w/ @salehlabparis.bsky.social & @lambrechtslab.bsky.social Apply: euraxess.ec.europa.eu/jobs/359830 Please boost! #ArboRetro #Bioinformatics

Exciting news! I am launching the Lab of Polymicrobial Interaction & Evolution at IPMB at Academia Sinica (ipmb.sinica.edu.tw/en)! 🎉Our brand-new website is live: (www.labofpie.org). Check the lab of PIE out!!🥧🎈

I had a roadmap for biology -> computation. What about the reverse? Many with a computer science background are asking: where should they start to learn biology?

📚Looking for some textbooks or reviews for learning genomics, gene editing, and molecular biology. Trying to build a solid foundation, Any recommendations?

I learned how to read .vcf files, predict mutation effects with VEP, and rank mutation damage using SIFT & PolyPhen. 🥳 Will be diving in real zebrafish datasets soon 🔥 #genomics #bioinformatics #mutations

Happy preprint day! We have a new transgenic & some sensory neuron compartment proteomics to share #TeamMassSpec www.biorxiv.org/content/10.1...

I just learned how to navigate the ensemble genome browser, and I am very happy I tackled this, cuz it always looked so complicated from afar :D Now diving into variant calling in Zebrafish (since its quite common), Let’s see what we find! #genomics #bioinformatics #ensembl

Are you an early-career researcher working on the computational analysis of population-level human genetics data? We want to hear from you about if, how, and why you use population descriptors in your research! Fill out our short survey: forms.gle/SCiNUq71wgi5... 🧬💻🧪

🧵🦠🖥️🧬🧪 Please RePost 🙏 We just released reference genomes for another 250 strains to the ATCC Genome Portal (genomes.ATCC.org)! We now have assemblies for _5,750 microbial genomes_ AND all assemblies w/ @nanoporetech.com data will include DNA methylation profiles too (details👇) #genomics 1/

🚨 New preprint alert! 🚨 We've just posted our latest work on Stony Coral Tissue Loss Disease. Using metagenomics, we look at microbial dynamics in infected corals 🧬🌊🪸 📄 Read it here: www.biorxiv.org/content/10.1... 
#CoralReefs #Microbiome #Metagenomics #ViralEcology #CoralDisease #preprint

⚙️ Back to Training! This time, I’m diving into Genomics & Variant Calling. I’ll share some insights throughout my learning process and present some of my findings 🔍 This time I'll be going with a Marine Theme 🐟 Stay tuned. #Bioinformatics #Genomics #Variants #Mutation #Marine #Fish

Hey 👋 #ASMicrobe! If you’re into microbial genomics - stop by during the poster session and chat with Scott Nguyen from my team from ATCC. He’s been working on a whole range of interesting microbial species 🦠many of them have never been sequenced before by anyone. Please RePost🙏 🧪 🧬🖥️

Automated metadata curation with human-level accuracy, dataset-wide scale, and traceable quality. Our Agentic AI system extracted 23+ metadata fields with 93% recall from GEO, papers, and supplementary files across 211 studies.

If EMBL-EBI managed data resources have ever saved you time & effort, this is your chance to give back! Fill in a 15-minute survey to help us: 🌍Demonstrate the real-world impact of our resources 🤓Understand your needs 🌟Secure continued funding Closes 16 July www.surveymonkey.com/r/QGFMBH8?ch...

Pleased to see this in print! We integrate published transcriptomic and WGS data to identify novel mechanisms of resistance across the major Anopheles vectors. We also present, AnoExpress, a tool that allows users to explore and analyse the transcriptomic dataset 🧬 🖥️ www.nature.com/articles/s42...

Check out Djoser's 2025 Declaration. A yearly roadmap of goals, dreams, and open science vision, all driven by a bioinformatics initiative. 🌐 djosergenomics.github.io/Djoser-2025-... #bioinformatics #openscience #DHPTA

🚀 Introducing DHPTA: Djoser's Host-Pathogen Transcriptomic Atlas! 🧬 A curated collection of reanalyzed RNAseq datasets capturing human responses to microbial infections. ✨ I am excited to build this new project and watch it grow djosergenomics.github.io/Introducing-... #DHPTA #Transcriptomics

Broke down the key findings, plots, and major themes from the SCG reanalysis into a blog post for anyone not up for the full RNAseq reanalysis preprint 🖥️🧬 Read it here: djosergenomics.github.io/Human-SCG-RN... #bioinformatics #rnaSeq #transcriptomics

A major milestone: my first RNAseq preprint is now live on bioRxiv 🎉🎊 I reanalyzed public data from the human SCG to uncover neuroimmune signatures during cardiac disease.🧬🖥️ This was an awesome learning experience and I am excited use everything I learned for new project ideas :D. #Bioinformatics

12 top ways artificial intelligence will impact healthcare #AI #ArtificialIntelligence #healthcare #NLP #EHR #bigdata #genomics www.techtarget.com/healthtechan...