#Candida albicans is a leading opportunistic fungal #pathogen of humans. Ci Fu, Leah Cowen &co expand the GRACE #Calbicans #FunctionalGenomics resource, identifying genes important for temperature-dependent fitness & highlighting its power to reveal vulnerabilities @PLOSBiology plos.io/3Wft0Xg
#FunctionalGenomics
AlphaGenome: AI for better understanding the genome - Google DeepMind
https://deepmind.google/discover/blog/alphagenome-ai-for-better-understanding-the-genome
https://news.ycombinator.com/item?id=44387659
Comment: even in well-studied organisms (E. coli; yeast: Saccharomyces; minimal synthetic cells ...) the function of a staggering number of essential genes is unknown.
#AlphaGenome #DeepMind #MolecularGenetics #Genomics #FunctionalGenomics
🧬 How do AlphaFold2 and ESMFold stack up when it comes to functional annotation?
🔗 AlphaFold2 and ESMFold: A large-scale pairwise model comparison of human enzymes upon Pfam functional annotation. Computational and Structural Biotechnology Journal, DOI: https://doi.org/10.1016/j.csbj.2025.01.008
📚 CSBJ: https://www.csbj.org/
#AlphaFold2 #ESMFold #AIinScience #ProteinStructure #Enzymes #Pfam #UniProt #AlphaFold #HumanProteome #FunctionalAnnotation #AIinBiology #ComputationalBiology #FunctionalGenomics
That's a wrap! Sally Temple, Taylor Bertucci and Kate Tubbesing all spoke at the annual #NIHfunded Alzheimer's Disease Sequencing Project #FunctionalGenomics meeting at the @Gladstone Institutes.
The mutational landscape and functional effects of noncoding ultraconserved elements in human cancers
https://www.science.org/doi/10.1126/sciadv.ado2830
pdf: https://www.science.org/doi/epdf/10.1126/sciadv.ado2830
* diverse regulatory roles in cancer
#cancer #genetics #genomics #FunctionalGenomics #NoncodingDNA #ncDNA #miRNA #GeneRegulation #CRISPR
Why is it so hard to rewrite a genome?
https://www.nature.com/articles/d41586-025-00462-z
Synthetic biologists have the know-how and ambition to retool whole genomes. But the hidden complexity of biological systems continues to surprise them.
#biology #MolecularBiology #SyntheticBiology #GeneticEngineering #genomics #FunctionalGenomics #JCVI
We had a great time this week at the annual meeting of the National Institute on Aging (NIA) sponsored #Alzheimers Disease Sequencing Project (ADSP) #FunctionalGenomics Consortium!
The global ADSP effort seeks to identify and functionally test genetic variants linked to Alzheimer's Disease and AD-related dementias, as well as variants that can be protective against these conditions.
ADSP | https://zurl.co/CtaU
FunGen | https://zurl.co/eivv
Today, I reread Fulco et al's 2019 paper on "Activity-by-contact model of enhancer–promoter regulation from thousands of CRISPR perturbation" https://www.nature.com/articles/s41588-019-0538-0 Still one of my favorites, because the authors combined innovative functional genomics with down-to-earth computational approaches - and obtained a highly usable method to predict enhancer -> gene interactions (the ABC model). #functionalgenomics #epigenetics #literature #science
Meet Crysten Blaby-Haas, our JXB Handling Editor specialising in Algae, Transcriptomics, Micronutrients, and Trace metals. #JXB #AlgaeResearch #TranscriptomicsExpert #Micronutrients #TraceMetals #FunctionalGenomics #ProteinStudies #BiomaterialsScience
Postdoctoral Research Associate in Functional Genomics
Washington University School of Medicine
‘Come join us in @WashUGenetics as a #FunctionalGenomics postdoc’
See the full job description on jobRxiv: https://jobrxiv.org/job/washington-university-school-of-medicine-27778-postdoctoral-research-associate-in-functional-genomics-3/?feed_id=51371
#Sc...
https://jobrxiv.org/job/washington-university-school-of-medicine-27778-postdoctoral-research-associate-in-functional-genomics-3/?feed_id=51371
Postdoctoral Research Associate in Functional Genomics
Washington University School of Medicine
‘Come join us in @WashUGenetics as a #FunctionalGenomics postdoc’
See the full job description on jobRxiv: https://jobrxiv.org/job/washington-university-school-of-medicine-27778-postdoctoral-research-associate-in-functional-genomics-3/?feed_id=50532
#Sc...
https://jobrxiv.org/job/washington-university-school-of-medicine-27778-postdoctoral-research-associate-in-functional-genomics-3/?feed_id=50532
A modular #transposon-based platform for dynamically rewiring gene regulatory networks in bacteria ➡️ https://www.embopress.org/doi/full/10.15252/msb.202211398
from J Collins, Broad Institute, MIT
#functionalgenomics #SynBio #SyntheticBiology #SystemsBiology #GeneRegulatoryNetwork
John Greally, Director of the Center for Epigenomics and Professor at Albert Einstein College of Medicine on His Latest Review of Epigenomics
https://mendelspod.com/podcasts/john-greally-his-latest-review-epigenomics/
@greally @EinsteinMed #epigenomics #functionalgenomics #epigenetics
A Commentary by Lars Steinmetz & Daniel Schraivogel discusses the technical advancements made by image-enabled cell sorting & highlights new experimental strategies in #functionalgenomics & #singlecell research ➡️ http://bit.ly/3lyFeLv
#SystemsBiology
#High-throughput profiling of drug #interactions in #Gram-positive #bacteria | bioRxiv
#functionalgenomics #drugprofiling #drugcombination
https://www.biorxiv.org/content/10.1101/2022.12.23.521747v1
Revealing Causes for False-Positive and False-Negative Calling of Gene #Essentiality in Escherichia coli Using #Transposon Insertion Sequencing
Some interests:
#singleCell #bayesian #stats #ancestry #genetics #popgen #geneRegulation #systemsGenetics #functionalGenomics #biology #immunology #vaccines #infection #viruses #influenza #tuberculosis #TB #malaria #NTDs #fitness #evolution #dominance #stress #aging #mosquitoes #mice #macaques
#academic #dei #diversity #equity #inclusion #blackLivesMatter #firstGen #asian #aapi #multi #access2meds #globalHealth #swarthmore #johnsHopkins #unc #chicago #washingtonDC #moco
It's been years in the making (literally, my PR was ~ two years old 😅 ), but I finally updated Crispulator.jl to work with #julialang 1.0+.
It's ready to help you simulate your pooled #CRISPR screens for #functionalgenomics so that you can make sure they'll work before you pour many months into them!
Check out the refreshed docs: https://tamasnagy.com/Crispulator.jl/dev/
I guess I should do an #introduction -- I'm a computational biologist working at the intersection of bacterial #PathogenGenomics and #FunctionalGenomics, mostly on sequencing-based technologies, and run a research group at the Helmholtz Institute for RNA-based Infection Research in Würzburg.
We dabble in #MachineLearning, #BayesianStatistics, and #DataVisualization, figuring out ways to apply these techniques to investigate #Pathogen #GeneRegulation and #Evolution.
Ok here we are, an #introduction! I'm somewhere in between #HumanGenetics and #FunctionalGenomics, and I'm really interested in the contributions of #GeneRegulation to #HumanEvolution, whether that be recent, for instance gene flow from #Neanderthals and #Denisovans, or understanding humans as apes. Currently we work closely with scientists from #Indonesia and #PapuaNewGuinea.
Sometimes, though... I take advantage of being in Australia and work with #marsupials instead! 🦘
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