GitHub - tycheleturner/snow: Second-pass de Novo variant Offspring Workflow Second-pass de Novo variant Offspring Workflow. Contribute to tycheleturner/snow development by creating an account on GitHub.

❄️ Introducing SNOW - the Second-pass de Novo variant Offspring Workflow. A Python toolkit for cleaning, merging, phasing, and annotating de novo variants from trio sequencing data for QC and downstream analysis ☃️

github.com/tycheleturne...

#genomics #bioinformatics #denovo

GBE Special Section on de novo gene evolution

We are happy to release our new Special Section on de novo Gene evolution!

Special Section: de novo Gene
🔗 academic.oup.com/gbe/pages/special-section-de-novo-gene

#genome #evolution #denovo

Pervasive translation of short open reading frames and de novo gene emergence in Arabidopsis Ancestrally non-genic sequences are now widely recognized as potential reservoirs for the de novo emergence of new genes. Across clades, some de novo genes were proven to have substantial phenotypic effects, and to contribute to the emergence of novel biological functions. Yet, still very little is known about the starting material from which de novo genes emerge, especially in plants. To fill this gap, we generated Ribosome Profiling data from the closely related species Arabidopsis halleri, A. lyrata and A. thaliana and characterized genome-wide patterns of translation across them. Synteny analysis revealed 211 Open Reading Frames (ORFs) that have emerged de novo within the Arabidopsis genus and already exhibit signs of active translation. Most of these de novo translated ORFs were species- and even accession-specific, indicating their transient nature, with patterns of polymorphism consistent with neutral evolution in natural populations. They were also significantly shorter and less expressed than conserved Coding DNA Sequences (CDS), and their GC content increased with phylogenetic conservation. While most of them were located in intergenic regions and are thus newly discovered, 34 were previously annotated as CDS in at least one genome, and are promising putative genes. Our results demonstrate the abundance of translation events outside of conserved CDS, and their role as starting material for the emergence of novel genes in plants. ### Competing Interest Statement The authors have declared no competing interest. Université de Lille, https://ror.org/0546v5182

🧬 What does the starting material from which genes could emerge #denovo look like?
🌱 We used #RiboSeq to investigate the landscape of translated de novo ORFs in 3 #Arabidopsis species, and how they might be linked to gene birth!

📝 Check out our preprint here:
doi.org/10.1101/2025...

#denovo

Breakthrough work @uwproteindesign.bsky.social combines computation & yeast display to produce #denovo antibodies w/ “atomic accuracy.”

We’re exploring how yeast display—key to IPI’s platform—can work in conjunction with AI. More @nature.com: buff.ly/6CJDfzM

(sexta pra sábado) sonhei com algo em q tinha q chutar, acordei num susto chutando a parede de madeira (tava dormindo no chão perto da parede) Ahhh, eu tava num quarto com outras duas meninas q tavam dormindo na cama.
#vergonha
#denovo
Aaaaaaaaaaaaaaaaaaaaa

Video from the “ASHG 2025 Data Discovery Exchange, hosted by Kids First and INCLUDE” youtube.com/watch?v=g67z...
#kidsfirstDRC #TNTurnerLab @washugenetics.bsky.social #genomics #genetics #denovo

GitHub - TNTurnerLab/HAT-FLEX: Flexible Trio DNV detection on existing VCFs. Flexible Trio DNV detection on existing VCFs. Contribute to TNTurnerLab/HAT-FLEX development by creating an account on GitHub.

HAT-FLEX is a caller-agnostic, drop-in trio DNV detection tool that operates directly on existing VCFs. If you have feedback, please email or DM me. Thanks. github.com/TNTurnerLab/... #genetics #genomics #denovo

#CongressoInimigodoPovo #denovo

#CONGRESSOINIMIGODOPOVO
#DENOVO

Our mission is to industrialize drug discovery to create programmable, #denovo protein-based medicines that help patients across a wide range of diseases

Molecules speak in atoms and bonds. LLMs can learn that language. Even with SOTA #denovo design, our largest molecular LLM study finds a plot twist: early saturation, weak scaling, and proxy metrics that mislead on real tasks! Led by Kamran and Roshan!
🧵 More in thread:

YES! THIS!
And, I don't have to install #denovo to enjoy it!

Kidney #Transplant Outcomes in #Recurrent Versus #DeNovo IgA Nephropathy #IgAN

#VisualAbstrct by @drpallaviprasad.bsky.social

www.kireports.org/ar...

Su Blob, adesso, un Mario Venuti così giovane che deve aver fatto le riprese tra gli scritti e gli orali della maturità… 😂😂😂

#Rai3 #Blob #Denovo 💙

a cartoon character is pointing at a potato with the words `` come on do something '' written above it . ALT: a cartoon character is pointing at a potato with the words `` come on do something '' written above it .

Waiting for binder design results…
#denovo #proteindesign

Really looking forward to this tomorrow! If you’d like to come follow the link below (in person, Oxford)

#genomics #geneticcounselling #denovo

Science Of The Times | SPECIAL EDITION - Interview with David Baker 2024 Nobel Prize winner for Chemistry Syma and Tim are joined by Nobel Laureate David Baker, one of the winners of the 2024 Nobel Prize for Chemistry for his work on computational protein design. This follows the interview with Tim Jen...

The team are on fire!
scienceofthetimes.transistor.fm/episodes/spe...
#nobelprize #nobelprizechemistry #proteindesign #biochemistry #artificalintelligence #denovo

Banking News Roundup – 2025: Week 12 De-banking, rates, consumer delinquencies, crypto lending, CRE improves, private capital gets competitive, de novo update, and money laundering as a thriving business model, all in a five minute read.

Our latest post is out: open.substack.com/pub/bankerat.... This week we cover #debanking, steady #rates, consumer delinquencies, #crypto lending, improving CRE conditions, private credit spreads, #denovo #banks, & a global money laundering ring, all in a five minute read.

#financenews #bankingnews

If you think de novo proteins are interesting, and you want to learn more about protein evolution in general, stay tuned for more #evolutionarybiochemistry and #denovo content!

🧵9/9

Our cells are constantly innovating new, never-before-seen proteins, that could carry out novel functions. The field of naturally evolved #denovo proteins has been searching for these elusive new proteins and trying to understand how and why they appear, and what their function is.

🧵2/9

#CanSky
#OncoSky
#MedSky
#MedChat
#ScreenBetterCanada
#MedOnc
#MedOncology
#MedicalOncology
#MedEd
#Oncology
#CancerCare
#PatientCare
#CancerPatient
#Cancer
#ThanksCancer
#BreastCancer
#OncoDaily
#MetastaticCancer
#MBC
#MetastaticBreastCancer
#PatientAdvocate
#PatientPartner
#Stage4
#DeNovo

IPI Events Calendar Find IPI seminars, courses and events.

Join us today at 2 p.m. ET for an #IPISeminar with Surge Biswas of Nabla Bio! Biswas will discuss the use of #JAM to generate #denovo antibodies in both single-domain ( #VHH) and paired ( #scFv/mAb) #antibody formats. Follow the QR code or find the Zoom link on our calendar! https://rb.gy/xcee9l

De novo design of protein minibinder agonists of TLR3 - Nature Communications This study reports the computational design of miniprotein binders of the pattern recognition receptor TLR3. When oligomerized, the miniprotein binders induce TLR3 signaling in cells, suggesting they ...

De novo design again 🤘 🧪 🖥️ #NoEmoji4Proteins #science #proteins #denovo #design #TLR3 www.nature.com/articles/s41...

Momentum is building, and AI Proteins @aiproteins.bsky.social is ideally positioned to become the premier platform partner for the discovery and development of #denovo #miniprotein therapeutics

Additionally, the Nobel Prize was awarded to my postdoc mentor David Baker @uwproteindesign.bsky.social for de novo protein design last month, and this recognition is fueling demand for #denovo protein medicines

Me neither. Spent the first week drinking heavily and eating junk, because, why bother?
20 months later after hormone blockers, Ribociclib, mastectomy and ANC - still here and stable!
#breastcancer #denovo

The last tweaks to the de novo genome assembly are the worst! Any tips??

#wgs #denovo #assembly #bioinfomatics #genome