Dylan Duchen @DylDuch
Genetic Epidemiology + Computational Immunology Postdoc with @skleinstein , @Yale-@Boehringer Fellow | Previously: Genetic Epidemiology @JohnsHopkinsSPH New Haven, CT Joined August 2014-
Tweets868
-
Followers389
-
Following2K
-
Likes8K
New paper with @skleinstein and @28Cole on how to build B cell lineage trees with paired heavy and light chain BCRs with Dowser! Paired H+L improved accuracy, but *most* methods highly biased when mixing #SingleCell and bulk #BCR (1/3). doi.org/10.4049/jimmun…
Exciting work by Laura Chen and @RebeccaMMunday on Astrovirus and host genetic susceptibility in a region with lots of diarrheal infections. So much to learn about the interaction of pathogens and hosts. @DylDuch @genandgenes @PKorpe @OFIDJournal academic.oup.com/ofid/article/1…
The pre-print for nf-core/airrflow is out now! Check out this Nextflow workflow if you are looking into analysing immune repertoire data with the Immcantation framework. It supports the multi-sample analysis of both bulk and single-cell AIRR-seq datasets!
The pre-print for nf-core/airrflow is out now! Check out this Nextflow workflow if you are looking into analysing immune repertoire data with the Immcantation framework. It supports the multi-sample analysis of both bulk and single-cell AIRR-seq datasets! https://t.co/uhCgsAwsfW
nf-core/airrflow: an adaptive immune receptor repertoire analysis workflow employing the Immcantation framework biorxiv.org/cgi/content/sh… #biorxiv_bioinfo
Interested in high-throughput B cell receptor repertoire analysis? Register for the "2024 Immcantation Users Group Meeting" on Jan 25, 2024 10-2PM (ET). Program and FREE registration at: kleinstein.bitbucket.io/IM #immcantation #AIRRseq #RepSeq #Bcell #meeting
Excited to be presenting at #ASHG2023! Characterizing the immunoglobulin locus is hard, especially with short reads - stop by PB3313 @ 3pm 11/2 to hear about our approach using a sequence variation graph and whether it might be useful in your own work!
Excited to share this viewpoint in @JIDJournal. Titles are hard, but this one seemed to fit well!🎼🎼🎼 academic.oup.com/jid/advance-ar…
Our new study systematically analyzed the effect of immunoglobulin V (IGV) gene allelic polymorphisms on antibody binding using >1000 publicly available antibody-antigen complex structures. We also experimentally validated some interesting findings. biorxiv.org/content/10.110… (1/12)
Deadline to apply for a great interdisciplinary + hybrid industry/academic postdoc fellowship (I might be biased) is 4/18, any potential applicants - please reach out if you have any questions! medicine.yale.edu/cbds/bdsfellow…
Building pangenome graphs (many-way whole genome alignments) without technical bias seems hard. Most methods use heuristics to simplify construction. We show that with a few weird tricks, we can easily avoid bias and easily build graphs of very large sizes doi.org/10.1093/bioinf…
Safely sharing non-identifiable sequences from private cohorts of complete genome assemblies: privvg.github.io/2022/09/24/pra… (Or: How to build a global pangenome from siloed data)
"When I wish upon a star.." Despite all our efforts to wish this away, COVID is still here. And we need to learn more. If you * have had COVID (recently or not so recently) * NOT had COVID * 18 or older, living in the US Please participate and share. covid-long.com
📢New work out led w/@DylDuch + @priya4genes. Pathogen exposure is a necessary, but not sufficient, cause of infectious disease. Yet often genetic studies use population ctrls w/o knowing exposure dynamics. We explore when it may, or may not, matter. medrxiv.org/content/10.110…
A Draft Human Pangenome Reference biorxiv.org/cgi/content/sh… #bioRxiv
“With sorrow… We dissent” - the minority opinion, representing the majority opinion Our institutions are broken
Be wary of infectious disease research relying on billing codes in health care claims data We found implausibly high case counts, including for measles and mumps, compared to other sources Work co-led by @maiamajumder & @marika_cusick medrxiv.org/content/10.110… #ARM2022 #ARM22
We want to learn more about how people’s health may have been impacted by the COVID-19 pandemic, regardless of whether they have experienced COVID-19 illness. @covidlongstudy @JohnsHopkinsSPH Complete a short, online questionnaire to help us understand: covid-long.com
An awesome team tackling the fine mapping of MHC and HCV across ancestries. @genandgenes @candevrivera @alexhkral @Arthur_Kim_ID @Alba_Grifoni @SetteLab @ThioChloe @raychungmd @valenciaduarte1 @adesoton @AJHGNews cell.com/ajhg/fulltext/…
Getting tested for COVID-19 is easy! Walk up, with no doctor's note, appointment, or insurance required. More information and testing sites can be found at our website, coronavirus.baltimorecity.gov/testing. All sites with a 🧪 have free test at home kits!
📢HIRING: Open positions for postdocs interested in better understanding the role of genetic ancestry and population-specific epidemiology on genetic risk in admixed populations with me at @JohnsHopkinsEPI. Please share and let me know if interested! bit.ly/postdoc_ad_woj…
Johns Hopkins Epidemi.. @JohnsHopkinsEPI
10K Followers 325 Following We improve the public’s health by training epidemiologists and advancing knowledge concerning the causes and prevention of disease and the promotion of health.
Zhi Yu @ZhiYu_ACGT
694 Followers 603 Following NHGRI K99 postdoc fellow @broadinstitute @mghcvrc in @pnatarajanmd lab | Formerly @JohnsHopkinsSPH @HarvardChanSPH |#FirstGen #TrackandField and hopefully more
Dr. Angela Rasmussen @angie_rasmussen
454K Followers 8K Following Virologist. PI @VIDOInterVac. Adj Prof @USask BMI. P2 @covarr_net. Jeopardy! loser. Famed for my obnoxious turns of phrase. 🇺🇸in🇨🇦. she/her
Johns Hopkins Genetic.. @jhugeneticepi
880 Followers 283 Following twitter feed for Johns Hopkins Genetic Epidemiology.
Daniel Portik @DPortik
3K Followers 4K Following Bioinformatics scientist @PacBio. I work on metagenomics, methylation, and assembly, but also enjoy phylogenomics and frog/lizard evolution. 🦠 🐸 🦎 🧬
Luke Grosvenor @el_grosvenor
692 Followers 1K Following Postdoctoral researcher at Kaiser @KPDOR studying maternal & child health, autism. Trained @JohnsHopkinsSPH. Mostly posting about tennis, science, nature.
Will Hamilton @WL_Hamilton
1K Followers 545 Following Infection doctor & researcher. Clinical lecturer in medical microbiology. Interested in pathogen genomics 🦠 🔬 🧬
Rajiv McCoy @rajivmccoy
2K Followers 2K Following Assistant professor at Johns Hopkins studying human evolutionary and reproductive genetics
Huiluo Cao 曹慧荦 @hlcao
2K Followers 3K Following microbial genomics and evolution, antibiotic resistance, bioinformatics, Pseudomonas aeruginosa, pneumococcus, human microbioa, @hkuniversity
David Dowdy @davidwdowdy
10K Followers 397 Following Infectious disease epidemiologist | Vice Dean for Education at @JohnsHopkinsSPH | proud dad | family = unstoppable team | views my own
brent pedersen @brent_p
5K Followers 1K Following computational biologist. Building humane tools for large-scale genomics and rare-disease. Contact me if you have genomics/bioinformatics contracting work.
Erik Garrison @erikgarrison
4K Followers 1K Following (pan)genomes from many points of view. Assistant Professor UTHSC Memphis
Andrew Kern @pastramimachine
15K Followers 4K Following Evolution, population genetics, machine learning. rhythm section. he/him
JodieMarner @2wSfoU488kSe24
0 Followers 70 Following
LesleyVirginia @5DwCCF0w1ffHD
0 Followers 122 Following
Theo Burell @ThBurell
75 Followers 5K Following
Microbiology @X_Microbiology
2K Followers 4K Following #Bacteria #Virus #Parasite #Fungi #Microbiological_News_Story #Research #Comment #Communcation
Talia Dollings @DollinTal
42 Followers 5K Following
Enriqueta Edd @enrique_edd
55 Followers 5K Following
Matt Mulè @MPMule
407 Followers 794 Following How human immune variations impact vaccination, immunotherapy, & autoimmunity clinical outcomes. PhD from @Cambridge_Uni / NIH @NIHOxCam. MD student @UNC_SOM
Ada Hussien @ada_hussie
45 Followers 5K Following
Landry Giordano @GiordanoLa31012
68 Followers 5K Following
Dayna Bevins @bev_dayn
68 Followers 5K Following
Emmie Lainez @ELainez52842
60 Followers 5K Following
Melda Macaskill @MacaskiMel
63 Followers 5K Following
Maximillian Marin @maxgmarin
555 Followers 2K Following Researcher studying genomics and infectious disease at Harvard Medical School.
Swati saha @Swatisa42291134
37 Followers 403 Following
May Hermandez @MayHermand15541
64 Followers 5K Following
Haoyu Zhang @AndrewHaoyu
479 Followers 279 Following Investigator @NCIEpiTraining, Statistics, Genetics and Genomics, Data Science. Views are all mine
Blanka Saik @BlankaSaik95413
68 Followers 5K Following
Nicholas Mancuso @nmancuso_
3K Followers 3K Following Associate Professor @KECKSchool_USC @uscpphs @qcb_usc. Center for Genetic Epi. Genetics/Stats/ML. Husband and father. GA➡️CA. He/him. Views are mine.
Tu Kessell @kesse_kessell
36 Followers 5K Following
Noutan @Noutan562153
64 Followers 2K Following
Luke Pilling @lcpilling
1K Followers 1K Following PhD. Genetic epidemiologist researching disease mechanisms. ❤Rstats. UCU rep✊. Views my own. He/him. 🏳️🌈ally. 🇬🇧🇪🇺. 📷 https://t.co/v48ayCSOoc
Masahiro Ono @ Tocky .. @MonoTockyLab
796 Followers 640 Following Molecular and Systems immunology Developer of Tocky (とき) Explore my innovation ➡️ https://t.co/cb0vW1AHfW Reader in Immunology, Imperial College London
Wyfeshe @wyfeshe69739
5 Followers 1K Following
Aubrey Cunnington @acunningID
3K Followers 4K Following Paediatrician; malaria and infectious disease researcher
Nick Borcherding @theHumanBorch
3K Followers 2K Following Head of Comp Bio @OmniscopeAI | MD/PhD Pathologist using computers for oncology and immunology | Former Marine Corp Sgt
David Vallenet @vallenet
344 Followers 212 Following Researcher at LABGeM, Genoscope @GenoLabgem in bioinformatics, genomics, metabolic networks
fanofactor @fanofactor
217 Followers 1K Following #rstats #dataviz #bioinformatics #immcantation Adaptive Immune Receptor Repertoire sequencing (#airrseq)
Teserea @teserea17344
233 Followers 5K Following
michael duchen @michael_duchen
293 Followers 187 Following biologist, teacher, erstwhile medic, father - and now a grandfather!, runner, gardener, birdwatcher and occasional musician...
Roc Farriol-Duran @RocFarriol
475 Followers 2K Following Computational Immunologist to be at @eapm_bsc @bsc_cns @carrerasIJC @uclcancer Stirring the pan at @eltallaret @embassat @cecitrics - he/him
Leona @leonacramer68
125 Followers 3K Following
John Tsang @TsangLab
1K Followers 716 Following Professor @Yale @YaleCSEI @YaleIBIO @YaleBme | Systems Immunologist, Computational Biologist, Engineer | Theory & Practice 🇨🇦🇺🇸
Windy @pettit_windy
171 Followers 3K Following
Yvette Gonsales @Moon_goddess146
1K Followers 2K Following Keep in mind to be kind. Out of suffering have emerged the strongest souls; the most massive characters are seared with scars. IG: moon_goddess6061
leslie willock @LeslieWill28806
133 Followers 1K Following
Milena Pavlović @milenapavl
674 Followers 906 Following Postdoc researcher at Sandve lab @UniOslo interested in machine learning, causal inference and their applications in biomedical sciences 📚💻📚
immuneML @immuneml
792 Followers 530 Following immuneML is a software platform for machine learning analysis of adaptive immune receptors and repertoires | tweets by @milenapavl and @victorgreiff
David B Jaffe @VDavidJaffe
317 Followers 496 Following Co-Founder Infinimmune, https://t.co/GwrK4NaDRd, https://t.co/yMjldb69Yu. Was: 🧬 assembler, error correcting coder, alg geometer, 🚲 msgr SF. Lunatic trail 🏃📷.
emillyjayden @emillyjayden78
111 Followers 1K Following I’m a power ball winner of $390.7m,I’m using this to appreciate the society by giving out $7,000 each to my first 5k followers & poors/needy.
Adam Butterworth @aidanbutty
2K Followers 2K Following Professor of Molecular Epidemiology @CAMBRIDGE_CEU @Cambridge_Uni. Tweeting in a personal capacity.
Sarah Frampton @SarahFrampt0n
422 Followers 369 Following Postdoc at @uoscares | Cancer immunology genomics | Nanopore technology | Bioinformatics |
Alexander Ferrena @ferrenabio
385 Followers 2K Following Cancer Bioinformatics 🧬 | Single-cell and Spatial Transcriptomics 🔬 | PhD candidate @EinsteinPhD 👨🏽🎓| Husband of @burcu_karadal 💍 | #MedicareForAll
Thanh Thanh L. Nguyen @thanhthanhphd
72 Followers 239 Following Scientist trained in genomics 🧬and stem cell models of disease 🧫 @MayoClinic @YaleGenetics @YalePsych. Immigrant. Opinions are mine.
Debashree Ray @DrDebashreeRay
758 Followers 252 Following Assistant Prof @JohnsHopkinsEPI @jhubiostat | Biostatistician, Genetic Epidemiologist | @ISIKolkata, @umnbiostat alumnus | former postdoc @umichsph | She/her
Zamin Iqbal @ZaminIqbal
10K Followers 7K Following Professor of Algorithmic and Microbial Genomics at the University of Bath; Group Leader EMBL-EBI. Pathogens, genomics, genome graphs, antibiotic resistance
Michael Schatz @mike_schatz
16K Followers 1K Following Bloomberg Distinguished Professor of Computer Science and Biology at Johns Hopkins University
Johns Hopkins Epidemi.. @JohnsHopkinsEPI
10K Followers 325 Following We improve the public’s health by training epidemiologists and advancing knowledge concerning the causes and prevention of disease and the promotion of health.
Denis Wirtz @deniswirtz
39K Followers 8K Following VP for Research @JohnsHopkins, T.H. Smoot Professor @HopkinsEngineer & @HopkinsMedicine, Co-founder @INBT_JHU, Lab: https://t.co/9OtmgB6InU Tweets are my own.
Heng Li @lh3lh3
10K Followers 208 Following Associate professor of biomedical informatics at @HarvardDBMI and @dfcidatascience
Camille Marchet @Cami.. @CamilleMrcht
1K Followers 617 Following Researcher (she) based in Lille, France. Algorithms, data structures, bioinformatics, politics when needed. Views my own.
Dr Ellie Murray, ScD @EpiEllie
127K Followers 2K Following Epidemiology asst professor @BUSPH |social media ed @amjepi | cohost @casualinfer podcast | Causal inference & public health #epitwitter🇨🇦 insta/🧵:laughing.e
M Daniele Fallin @FallinDani
2K Followers 525 Following Epidemiologist, wife, daughter, mom, runner, smoothie drinker
Steven Salzberg 💙�.. @StevenSalzberg1
19K Followers 235 Following Bloomberg Distinguished Professor of BME, CS, and Biostats at Johns Hopkins University, tennis player, blogger at Forbes: https://t.co/7SZhlbYPtn…
Michael Hoffman @mich.. @michaelhoffman
23K Followers 7K Following Chair, Comp Bio & Medicine Program, Princess Margaret Cancer Centre. Assoc Prof, Med Biophysics & Comp Sci, University of Toronto. COI https://t.co/CvupKNIjZr
Zhi Yu @ZhiYu_ACGT
694 Followers 603 Following NHGRI K99 postdoc fellow @broadinstitute @mghcvrc in @pnatarajanmd lab | Formerly @JohnsHopkinsSPH @HarvardChanSPH |#FirstGen #TrackandField and hopefully more
Stephanie Hicks (@ste.. @stephaniehicks
9K Followers 2K Following Associate Prof @JHUBME @jhubiostat, mom, she/her, Co-founder @RLadiesBmore. #Biomedical #DataScience #Genomics #Imaging #rstats #python
Dr. Angela Rasmussen @angie_rasmussen
454K Followers 8K Following Virologist. PI @VIDOInterVac. Adj Prof @USask BMI. P2 @covarr_net. Jeopardy! loser. Famed for my obnoxious turns of phrase. 🇺🇸in🇨🇦. she/her
Anshul Kundaje (anshu.. @anshulkundaje
22K Followers 2K Following Genomics, Machine Learning, Statistics, Big Data and Football (Soccer, GGMU). Post: @anshulkundaje, Threads: anshulkundaje
Ming "Tommy" Tang @tangming2005
30K Followers 2K Following Director of computational biology. On my way to helping 1 million people learn bioinformatics. Educator, Biotech, single cell. Also talks about leadership.
jhubiostat @jhubiostat
10K Followers 167 Following The twitter feed for the Johns Hopkins Bloomberg School of Public Health, Department of Biostatistics; the world's first department of biostatistics.
Oxford Nanopore @nanopore
65K Followers 10K Following From portable to population scale, nanopore devices offer direct analysis of DNA/RNA in-real time — towards the analysis of anything by anyone, anywhere.
Johns Hopkins Genetic.. @jhugeneticepi
880 Followers 283 Following twitter feed for Johns Hopkins Genetic Epidemiology.
Vince Buffalo @vsbuffalo
15K Followers 2K Following Evolutionary genetics postdoc @UCBerkeley ♥s biology, running, probability+statistics, 🦀, fly fishing, backpacking. Author of book Bioinformatics Data Skills
jonchee @theimmunologist
199 Followers 215 Following Scientist trying to understand tumour immunity through antigen receptors. Ξ. #mentorfirst. Views are my own.
Will Townes @will_townes
2K Followers 2K Following Assistant Professor @CMU_Stats interested in infectious disease (@CMUDelphi), wearable devices, genomics, ecology, economics, and more. https://t.co/DKllr8FNoU
Matt Mulè @MPMule
407 Followers 794 Following How human immune variations impact vaccination, immunotherapy, & autoimmunity clinical outcomes. PhD from @Cambridge_Uni / NIH @NIHOxCam. MD student @UNC_SOM
Mike Tisza @MikeTisza
391 Followers 380 Following In a sequence gaze daze. Bioinformatics scientist in Houston, TX. Opinions my own.
Bernadett Gaál @GaalBernadett
673 Followers 490 Following Editor-in-Chief @CellSystemsCP. Views my own.
Mats Ohlin @mats_ohlin
755 Followers 301 Following Immunotechnology, antibody technology, antibody repertoires
Kamil S Jaron 🇺�.. @KamilSJaron
1K Followers 711 Following weird genomes lover, dysorthographic, coauthor of #smudgeplot & @TreeOfSex; group leader @SangerToL; @[email protected]
Maximillian Marin @maxgmarin
555 Followers 2K Following Researcher studying genomics and infectious disease at Harvard Medical School.
Sebastian Deorowicz @sdeorowicz
338 Followers 35 Following Data compression. Algorithms for genome sequencing compresion and analysis.
Diptavo Dutta @Diptavo
342 Followers 708 Following Investigator @NCIEpiTraining / Interested in Statistical Genetics, Genomics and Genetic Epidemiology/Tweets are my own
Haoyu Zhang @AndrewHaoyu
479 Followers 279 Following Investigator @NCIEpiTraining, Statistics, Genetics and Genomics, Data Science. Views are all mine
David DeNardo WUSM @DeNardoLabWUSM
1K Followers 152 Following Professor of Medicine and Immunology Studying TME-immune interactions and immunotherapy.
Thomas House 热爱�.. @TAH_Sci
6K Followers 976 Following Professor of Mathematical Sciences. Views own & open for revision. Mainly COVID plus other modelling & data science in health.
Luke Pilling @lcpilling
1K Followers 1K Following PhD. Genetic epidemiologist researching disease mechanisms. ❤Rstats. UCU rep✊. Views my own. He/him. 🏳️🌈ally. 🇬🇧🇪🇺. 📷 https://t.co/v48ayCSOoc
Igor Ulitsky 💔 @IgorUlitsky
6K Followers 2K Following Associate Professor @WeizmannScience . lncRNAs, RNA biology, RNA therapeutics, gene regulation, all wet+dry. Father of 4. Not much time for anything else.
Patrick Short @patrick_j_short
2K Followers 1K Following Co-founder/CEO of @sanogenetics. Researcher in genomics and rare disorders. Host of https://t.co/yXvLIgEGfs 🎙️
Chantal Vogels @VogelsChantal
2K Followers 1K Following Research Scientist @YaleEMD @YaleSPH | Medical Entomology 🦟| Virology 🦠 | Genomics 🧬 | 🇳🇱
SPAAM-community @spaam_community
727 Followers 154 Following We are a community of researchers focusing on standards, precautions, & advances in ancient #metagenomics (SPAAM)
Aaron Weimann 🇺�.. @aaron_weimann
351 Followers 478 Following Researcher @Cambridge_Uni/@MRC_LMB working on infectious diseases, bacterial evolution, #PseudomonasAeruginosa, #ML, #AMR.
Nick Borcherding @theHumanBorch
3K Followers 2K Following Head of Comp Bio @OmniscopeAI | MD/PhD Pathologist using computers for oncology and immunology | Former Marine Corp Sgt
Todd M. Brusko @Bruskolab
1K Followers 1K Following Professor - Research Director at the UFDI- Father, immunologist, proponent of evidence-based policy. All opinions are my own.
Ben WoOdcroft @wwood
432 Followers 154 Following Yet another microbial bioinformatician, group leader, ARC Future Fellow
Professor Booty PhD @ProfBootyPhD
5K Followers 5K Following Come for the science (genetics & cell biology), stay for the social justice, parenting, comedy and random crap. #BlackLivesMatter #heynongman #GARABA
Yale Biostatistics @ysphbiostat
1K Followers 578 Following Biostatistics @YaleSPH develops quantitative methodologies and tools to solve the world's most challenging problems in #biology, #medicine and #publichealth.
Hongyu Zhao @HongyuZhao2
543 Followers 522 Following
Zuguang Gu | 顾祖�.. @jokergoo_gu
3K Followers 131 Following R/Bioconductor package developer and old postdoc @DKFZ and @NCT_HD. I wrote #ComplexHeatmap, #circlize, and many other R/Bioc packages.
Dr. Merritt Khaipho-B.. @MerKhaiBurch
2K Followers 937 Following Ph.D. from @Cornell | 🇹🇭/Oglala Lakota | Quant gen of 🌽 | @USDA_NIFA Predoc Fellow with @EdBuckler | @UHHilo & @SDState Alum | Pro GMO 🌽
David Vallenet @vallenet
344 Followers 212 Following Researcher at LABGeM, Genoscope @GenoLabgem in bioinformatics, genomics, metabolic networks
Marcela Uliano-Silva @MahUliano
2K Followers 1K Following Senior Bioinfo Wellcome Sanger & Associate Professor 2 Nord University | University of Cambridge Churchill College By-Fellow | MSCA & TED Fellow | Luto é Verbo
Gunnar Rätsch @gxr
3K Followers 447 Following I love large biomedical data. Mastodon @[email protected]
fanofactor @fanofactor
217 Followers 1K Following #rstats #dataviz #bioinformatics #immcantation Adaptive Immune Receptor Repertoire sequencing (#airrseq)
Will Barrie @WilliamBarrie
2K Followers 1K Following Post-doc @Cambridge_Uni, Durbin/Willerslev groups. Tweets about human history, evolutionary genomics, ancient DNA. 🏳️🌈
Evan Irving-Pease @EvanIrvingPease
876 Followers 792 Following Assistant Professor in Population Genetics @Globe_UCPH Trustee @ISBArchaeology | Fellow @LinneanSociety Archaeology | Bioinformatics | Genetics 🇦🇺🇬🇧💀🧬
HIPC @hipcProject
1K Followers 457 Following This collaborative #openscience data project probes immune systems. Partners include @ImmPortDB. Created by @NIAIDFunding in 2010.
Tiago Peixoto @tiagopeixoto
7K Followers 6K Following Statistical mechanic, secular Bayesian. Playing with inferential network science. Associate Professor @dnds_ceu 🦣 https://t.co/gMMpaIoz2V
Ivar Grytten @IvarGrytten
122 Followers 286 Following Postdoc at Sandve lab, Oslo. Interested in Pangenomics/graph-genomes, Python, bioinformatics methods/tool development, etc.
Carl Kingsford @ckingsford
976 Followers 229 Following Herbert A. Simon Professor of Computer Science, Computational Biology Department, Carnegie Mellon University, and Co-founder, Ocean Genomics, Inc.
Ciara Judge @ciarajudge_
3K Followers 1K Following infectious disease modeller 🦠 use Twitter rarely and for work only, better to get me on [email protected]
ISCB News @iscb
8K Followers 31 Following ISCB is a scholarly society for advancing understanding of living systems through computation and for communicating scientific advances worldwide.
michael duchen @michael_duchen
293 Followers 187 Following biologist, teacher, erstwhile medic, father - and now a grandfather!, runner, gardener, birdwatcher and occasional musician...
Roc Farriol-Duran @RocFarriol
475 Followers 2K Following Computational Immunologist to be at @eapm_bsc @bsc_cns @carrerasIJC @uclcancer Stirring the pan at @eltallaret @embassat @cecitrics - he/him
John Tsang @TsangLab
1K Followers 716 Following Professor @Yale @YaleCSEI @YaleIBIO @YaleBme | Systems Immunologist, Computational Biologist, Engineer | Theory & Practice 🇨🇦🇺🇸
Dave Moi @steg0s4urus
235 Followers 293 Following 🔬 Postdoctoral Researcher working at the @dbc_unil for the @DessimozLab | Bridging Borders | #Bioinformatics & #MachineLearning 🤖 |
Immune Epitope Databa.. @iedb_
308 Followers 117 Following The Immune Epitope Database (IEDB) is a freely available resource funded by NIAID that catalogs experimental data on antibody and T cell epitopes.
Jeffrey Mold @Jeff_Mold
3K Followers 2K Following American Scientist living in Sweden - Studying high risk/low reward curiosity-driven biology. All views are my own. I went to college.
Nicholas McGranahan @NickyMcGranahan
3K Followers 592 Following Group leader at the CRUK-UCL Lung Cancer Centre of Excellence. Cancer genomics, bioinformatics, and somatic evolution.
Milena Pavlović @milenapavl
674 Followers 906 Following Postdoc researcher at Sandve lab @UniOslo interested in machine learning, causal inference and their applications in biomedical sciences 📚💻📚
immuneML @immuneml
792 Followers 530 Following immuneML is a software platform for machine learning analysis of adaptive immune receptors and repertoires | tweets by @milenapavl and @victorgreiff
Mohamed Noor @mafnoor
6K Followers 292 Following Interim Vice Provost for Academic Affairs @DukeU Genetics/ evolution. Science consults for #StarTrek, & speak/videos/write on science in sci-fi. Personal acct.V happy to see this out - reprocessing 5million SARS-CoV-2 genomes to remove systematic errors (+thereby improve the phylogeny) and improve representation of genomes from the Global South. Huge amount of work esp. from Martin Hunt, Angie Hinrich+collabs biorxiv.org/content/10.110…
DeepGene: An Efficient Foundation Model for Genomics based on Pan-genome Graph Transformer biorxiv.org/content/10.110…
DeepGene: An Efficient Foundation Model for Genomics based on Pan-genome Graph Transformer biorxiv.org/cgi/content/sh… #biorxiv_bioinfo
A regression based approach to phylogenetic reconstruction from multi-sample bulk DNA sequencing of tumors [NEW RESULTS] dlvr.it/T63kSj
Excited to share with the single-cell community the most recent work of @tmontsay and @AEsteveCodina from @cnag_eu, something we think will be a game-changer in #scRNAseq quality control: biorxiv.org/content/10.110… @biorxivpreprint Get ready for the tweetorial! 1/10
fastq-dl: github.com/rpetit3/fastq-… Download FASTQ files from the European Nucleotide Archive ebi.ac.uk/ena or the Sequence Read Archive ncbi.nlm.nih.gov/sra repositories.
GTDB release 9 based on RefSeq 220 (R09-RS220) is live at gtdb.ecogenomic.org. This release covers 596,859 genomes (48% increase) and has 113,104 species clusters (33% increase). Release notes at: forum.gtdb.ecogenomic.org/t/announcing-g…. Release statistics at: gtdb.ecogenomic.org/stats/r220.
You've probably seen attribution tracks where the height of each letter is its "importance" to a predictive model and motifs pop out. But the technical details behind how these are calculated can matter a lot -- and I'm worried many may be done incorrectly. 1/
Here is a link to 239 consensus genome sequences, assembled by @xrayfoo, from sequencing reads of 2.3.4.4b H5N1 influenza A virus from cattle and other species. github.com/andersen-lab/a…
Thank you @lpachter for kind words about GLM-PCA last week. I want to highlight some more recent alternative implementations people should also be aware of (full list here: github.com/willtownes/glm… ). Many of them run faster than the glmpca R package and are more memory efficient.
Thrilled to announce the largest long-read based SV resource on open samples (1kGP) to date. Highlights include a pangenome augmentation pipeline, sequence resolution of 74k insertions, fine-scale SV classification and evidence for recurrent SV formation. Great team effort:
Long-read sequencing and structural variant characterization in 1,019 samples from the 1000 Genomes Project biorxiv.org/cgi/content/sh… #biorxiv_genomic
OUT NOW in @ScienceMagazine: A naturally isolated symbiotic bacterium suppresses flavivirus transmission by Aedes mosquitoes science.org/doi/10.1126/sc…
Very glad that our review on "Single-cell Immune Repertoire Analysis" is now out @naturemethods ! There was a lot to cover and very happy with the team effort! @Sergioerdal @MeganSoonSF @theHumanBorch @tuong_lab @qldchildres @UQ_News @UQMedicine ! nature.com/articles/s4159…
Happy to share my latest preprint from @nmancuso_ lab. We introduce SuShiE (Sum of Shared Single Effect) model to perform multi-ancestry SNP fine-mapping for molecular traits (e.g., mRNA and Protein). (1/n) medrxiv.org/content/10.110…
This is a near-complete misunderstanding. The point isn’t the subscription price, that’s less than 1% of a single graduate student. It’s about undue interference in and restrictions on a critical and high-value output of our labs: scientific publications
observing the Biorender debacle rn and realizing how the academic market is incredibly difficult to sell to while also having the smallest TAM for scientific software
Foldseek-Multimer is a protein complex aligner that is up to 10,000x times faster than SOTA methods without sacrificing quality, enabling the comparison of billions of complex pairs per day. 1/5 📄 biorxiv.org/content/10.110… 💾 github.com/steineggerlab/… 🌐 search.foldseek.com
The solution is to do the math, as @will_townes et al. do here: genomebiology.biomedcentral.com/articles/10.11… With modern computing, there is no problem implementing and using more sophisticated, and more suitable, versions of PCA such as @will_townes et al. propose. 14/
SPEAR: A supervised bayesian factor model for the identification of multi-omics signatures academic.oup.com/bioinformatics…
Pangenome databases improve host removal and mycobacteria classification from clinical metagenomic data. #Pangenomes #HostRemoval #Metagenomics @GigaScience academic.oup.com/gigascience/ar…
New update of Cenote-Taker 3 (v3.3.1) now on bioconda 🐍 This version feels really good in terms of performance and user interface. Cenote-Taker 3: Discover and annotate the virome github.com/mtisza1/Cenote… anaconda.org/bioconda/cenot…
We're back, baby! I just deposited Cenote-Taker 3 on bioconda. This is a total rewrite of Cenote-Taker 2 and is a tool that allows you to discover and annotate the virome from your laptop, really fast! ⚡️ github.com/mtisza1/Cenote…
Trends for United States
You might like
