Casey Bergman
@caseybergman.bsky.social
Dad, bioinformatician, ex-expat. Currently working on transposon bioinformatics & infectious disease genomics.
Reposted by Casey Bergman
Looking for a postdoc to build my new lab at TGen (Phoenix, AZ) focused on pangenome methods for cancer and complex disease. Full stack — from pangenome assembly and compression to association studies and somatic variant discovery. Reach out if interested! guarracinolab.github.io#join
Guarracino Lab | Pangenome Research
We develop methods to build and analyze pangenomes, with applications in cancer and complex disease. Translational Genomics Research Institute, Phoenix, AZ.
guarracinolab.github.io
February 6, 2026 at 4:02 PM
Looking for a postdoc to build my new lab at TGen (Phoenix, AZ) focused on pangenome methods for cancer and complex disease. Full stack — from pangenome assembly and compression to association studies and somatic variant discovery. Reach out if interested! guarracinolab.github.io#join
Reposted by Casey Bergman
Crushed to hear of Mark Batzer’s passing. He was the Boyd Professor at Louisiana State University. His influential research revealed how mobile elements shape the genomes of humans & other mammals. Mark’s personality, generosity & positivity were larger than life. He lifted everyone up. HUGE loss 💔
January 22, 2026 at 5:38 PM
Crushed to hear of Mark Batzer’s passing. He was the Boyd Professor at Louisiana State University. His influential research revealed how mobile elements shape the genomes of humans & other mammals. Mark’s personality, generosity & positivity were larger than life. He lifted everyone up. HUGE loss 💔
Reposted by Casey Bergman
🍄Transposon traffic in the mycocosmos🍄
Fascinating work reveals extensive horizontal TE transfer across fungi (@jromeijn.bsky.social, Iñigo Bañales & @mfseidl.bsky.social; doi.org/10.1016/j.cu...). I wrote a Dispatch to prime non-specialists,check it out here: doi.org/10.1016/j.cu....
#TEworldwide
Fascinating work reveals extensive horizontal TE transfer across fungi (@jromeijn.bsky.social, Iñigo Bañales & @mfseidl.bsky.social; doi.org/10.1016/j.cu...). I wrote a Dispatch to prime non-specialists,check it out here: doi.org/10.1016/j.cu....
#TEworldwide
January 19, 2026 at 4:38 PM
🍄Transposon traffic in the mycocosmos🍄
Fascinating work reveals extensive horizontal TE transfer across fungi (@jromeijn.bsky.social, Iñigo Bañales & @mfseidl.bsky.social; doi.org/10.1016/j.cu...). I wrote a Dispatch to prime non-specialists,check it out here: doi.org/10.1016/j.cu....
#TEworldwide
Fascinating work reveals extensive horizontal TE transfer across fungi (@jromeijn.bsky.social, Iñigo Bañales & @mfseidl.bsky.social; doi.org/10.1016/j.cu...). I wrote a Dispatch to prime non-specialists,check it out here: doi.org/10.1016/j.cu....
#TEworldwide
Reposted by Casey Bergman
Hey, good folks of #TEsky—
Looking for good recent review, suitable for undergrads, of the fnxns of transposable elements in the genome, for class session on the nonlinear, highly regulated, 4D nucleome. Suggestions welcome!
(I'm the author of the "other book" on Barbara McClintock)
TIA!
Looking for good recent review, suitable for undergrads, of the fnxns of transposable elements in the genome, for class session on the nonlinear, highly regulated, 4D nucleome. Suggestions welcome!
(I'm the author of the "other book" on Barbara McClintock)
TIA!
The Tangled Field: Barbara McClintock's Search for the Patterns of Genetic Control
Buy The Tangled Field: Barbara McClintock's Search for the Patterns of Genetic Control on Amazon.com ✓ FREE SHIPPING on qualified orders
www.amazon.com
January 17, 2026 at 3:26 PM
Hey, good folks of #TEsky—
Looking for good recent review, suitable for undergrads, of the fnxns of transposable elements in the genome, for class session on the nonlinear, highly regulated, 4D nucleome. Suggestions welcome!
(I'm the author of the "other book" on Barbara McClintock)
TIA!
Looking for good recent review, suitable for undergrads, of the fnxns of transposable elements in the genome, for class session on the nonlinear, highly regulated, 4D nucleome. Suggestions welcome!
(I'm the author of the "other book" on Barbara McClintock)
TIA!
Reposted by Casey Bergman
very sad news. Peer Bork was one of the leaders of our field, a wonderful scientist, and he's much too young to be gone. www.embl.org/news/embl-an...
In remembrance of Peer Bork | EMBL
EMBL and its community are deeply saddened by the death of Peer Bork, the organisation’s Interim Director General.
www.embl.org
January 16, 2026 at 6:33 PM
very sad news. Peer Bork was one of the leaders of our field, a wonderful scientist, and he's much too young to be gone. www.embl.org/news/embl-an...
Reposted by Casey Bergman
We are excited to invite abstract submissions for talks and posters for the 2026 Ecology and Evolution of Infectious Diseases meeting at Virginia Tech (June 2-4). Abstract submissions should be made by February 3, 2026 for consideration, using the google form here: cpe.vt.edu/eeid2026/abs...
December 15, 2025 at 8:56 PM
We are excited to invite abstract submissions for talks and posters for the 2026 Ecology and Evolution of Infectious Diseases meeting at Virginia Tech (June 2-4). Abstract submissions should be made by February 3, 2026 for consideration, using the google form here: cpe.vt.edu/eeid2026/abs...
Reposted by Casey Bergman
I have created a bot account. This bot will receive information about newly uploaded #Drosophila papers from pubmed and will automatically post every hour. If you find any bugs, please let me know!
@fly-broadcast.bsky.social
@fly-broadcast.bsky.social
February 14, 2025 at 9:00 AM
I have created a bot account. This bot will receive information about newly uploaded #Drosophila papers from pubmed and will automatically post every hour. If you find any bugs, please let me know!
@fly-broadcast.bsky.social
@fly-broadcast.bsky.social
Reposted by Casey Bergman
Congratulations to Richard Durbin on being awarded our Genetics Society Medal!
November 14, 2025 at 12:40 PM
Congratulations to Richard Durbin on being awarded our Genetics Society Medal!
Reposted by Casey Bergman
💡 Novel work supported by HPRC members highlights Locityper, a tool bringing accurate genotyping to some of the most challenging regions of the human genome.
Fast and precise, it outperforms current pipelines and scales to biobank-sized cohorts.
More at:
www.nature.com/articles/s41...
Fast and precise, it outperforms current pipelines and scales to biobank-sized cohorts.
More at:
www.nature.com/articles/s41...
Locityper enables targeted genotyping of complex polymorphic genes - Nature Genetics
Locityper is a general-purpose genotyper that can efficiently genotype and analyze a diverse set of genes, such as hyperpolymorphic HLA genes, using both short-read and long-read whole-genome sequenci...
www.nature.com
November 19, 2025 at 9:36 PM
💡 Novel work supported by HPRC members highlights Locityper, a tool bringing accurate genotyping to some of the most challenging regions of the human genome.
Fast and precise, it outperforms current pipelines and scales to biobank-sized cohorts.
More at:
www.nature.com/articles/s41...
Fast and precise, it outperforms current pipelines and scales to biobank-sized cohorts.
More at:
www.nature.com/articles/s41...
Reposted by Casey Bergman
Thrilled to share our latest review! T2T assemblies are reshaping how we study genomic diversity. Pangenomes unlock structural variants, gene presence-absence, and genotype-phenotype relationship, across humans, plants, animals, and fungi.
www.cell.com/cell-genomic...
www.cell.com/cell-genomic...
Dynamics of genome evolution in the era of pangenome analysis
Long-read sequencing and telomere-to-telomere (T2T) assemblies have enabled the generation
of pangenomes that capture genetic diversity beyond single reference genomes. This
review highlights how T2T ...
www.cell.com
November 19, 2025 at 4:49 AM
Thrilled to share our latest review! T2T assemblies are reshaping how we study genomic diversity. Pangenomes unlock structural variants, gene presence-absence, and genotype-phenotype relationship, across humans, plants, animals, and fungi.
www.cell.com/cell-genomic...
www.cell.com/cell-genomic...
Reposted by Casey Bergman
#Wolbachia has puzzled scientists with its power to rewire insect reproduction. What if I tell you that we found one of the keys Wolbachia use to rewire its host AND a small molecule inhibitor uses this key to mimic what this microbe has mastered for millions of years.
www.cell.com/cell-reports...
www.cell.com/cell-reports...
Beyond Wolbachia—Can a small molecule control insect reproduction?
Kaur et al. demonstrate reduced histone acetylation as a key mechanism underpinning
Wolbachia’s paternal-effect embryonic lethality trait in Drosophila melanogaster.
Recapitulation of this trait by in...
www.cell.com
October 3, 2025 at 12:58 PM
#Wolbachia has puzzled scientists with its power to rewire insect reproduction. What if I tell you that we found one of the keys Wolbachia use to rewire its host AND a small molecule inhibitor uses this key to mimic what this microbe has mastered for millions of years.
www.cell.com/cell-reports...
www.cell.com/cell-reports...
Reposted by Casey Bergman
If you're interested in using pangenome graphs for comparative genomics, check out my webinar, part of EMBL-EBI's "Concepts, methods, and resources in pangenomics" series, available on-demand: www.ebi.ac.uk/training/eve...
Pangenome graphs as a new paradigm in comparative genomics -
Pangenome graphs as a new paradigm in comparative genomics -
www.ebi.ac.uk
November 6, 2025 at 11:40 AM
If you're interested in using pangenome graphs for comparative genomics, check out my webinar, part of EMBL-EBI's "Concepts, methods, and resources in pangenomics" series, available on-demand: www.ebi.ac.uk/training/eve...
Reposted by Casey Bergman
Reposted by Casey Bergman
Yesterday, Nina Marthe, our wonderful PhD student with Matthias Zytnicky, resubmit our tool GrAnnoT, for pangenome variation graph annotation!
@ird-fr.bsky.social @inrae-france.bsky.social @peercommunityin.bsky.social #pangenomics 💻
www.biorxiv.org/content/10.1...
@ird-fr.bsky.social @inrae-france.bsky.social @peercommunityin.bsky.social #pangenomics 💻
www.biorxiv.org/content/10.1...
GrAnnoT, a tool for efficient and reliable annotation transfer through pangenome graph
The increasing availability of genome sequences has highlighted the limitations of using a single reference genome to represent the diversity within a species. Pangenomes, encompassing the genomic inf...
www.biorxiv.org
October 30, 2025 at 3:46 PM
Yesterday, Nina Marthe, our wonderful PhD student with Matthias Zytnicky, resubmit our tool GrAnnoT, for pangenome variation graph annotation!
@ird-fr.bsky.social @inrae-france.bsky.social @peercommunityin.bsky.social #pangenomics 💻
www.biorxiv.org/content/10.1...
@ird-fr.bsky.social @inrae-france.bsky.social @peercommunityin.bsky.social #pangenomics 💻
www.biorxiv.org/content/10.1...
Reposted by Casey Bergman
My former mentor, colleague, and friend Hamilton Smith passed away this week. He was a giant in science, a Nobel Laureate, but also one of the nicest people you could ever meet. He will be missed by many. www.jcvi.org/media-center...
Remembering Hamilton O. Smith
Hamilton O. Smith
August 31, 1931 – October 25, 2025
It is with profound sorrow that we announce the loss of Hamilton O. Smith, M.D., a...
www.jcvi.org
October 29, 2025 at 11:26 PM
My former mentor, colleague, and friend Hamilton Smith passed away this week. He was a giant in science, a Nobel Laureate, but also one of the nicest people you could ever meet. He will be missed by many. www.jcvi.org/media-center...
Reposted by Casey Bergman
We @uga_genetics are hiring a TT assistant professor in Human Genetics to investigate how genetic makeup influences an individual’s risks for diseases or responses to drugs and therapies. All research
approaches will be considered. Please RT. ugajobsearch.com/postings/456597
approaches will be considered. Please RT. ugajobsearch.com/postings/456597
October 21, 2025 at 8:19 PM
We @uga_genetics are hiring a TT assistant professor in Human Genetics to investigate how genetic makeup influences an individual’s risks for diseases or responses to drugs and therapies. All research
approaches will be considered. Please RT. ugajobsearch.com/postings/456597
approaches will be considered. Please RT. ugajobsearch.com/postings/456597
Reposted by Casey Bergman
When transposons jump, genomes diverge - even in cultured cells.
I am happy to share our new preprint: a chromosome-scale genome assembly for Drosophila OSC cells, one of the key model systems in the piRNA field, especially for nuclear piRNA biology. 🧬🧵 (1/12)
I am happy to share our new preprint: a chromosome-scale genome assembly for Drosophila OSC cells, one of the key model systems in the piRNA field, especially for nuclear piRNA biology. 🧬🧵 (1/12)
October 14, 2025 at 8:34 PM
When transposons jump, genomes diverge - even in cultured cells.
I am happy to share our new preprint: a chromosome-scale genome assembly for Drosophila OSC cells, one of the key model systems in the piRNA field, especially for nuclear piRNA biology. 🧬🧵 (1/12)
I am happy to share our new preprint: a chromosome-scale genome assembly for Drosophila OSC cells, one of the key model systems in the piRNA field, especially for nuclear piRNA biology. 🧬🧵 (1/12)
Reposted by Casey Bergman
C. elegans is a real animal and we set out to understand how it comes to have its distinctive biogeography. Its ancestral center of diversity is in the higher elevation forests of Hawaii. Its closest relatives are spread across east Asia. Did they travel from Asia? [Preprint 🧵]
September 24, 2025 at 8:33 PM
C. elegans is a real animal and we set out to understand how it comes to have its distinctive biogeography. Its ancestral center of diversity is in the higher elevation forests of Hawaii. Its closest relatives are spread across east Asia. Did they travel from Asia? [Preprint 🧵]
Reposted by Casey Bergman
Come be our head of bioinformatics at @mrc-lms.bsky.social !
Our bioinformatics team are closely involved with lots of interesting science and we love working with them. Topics inc. development, cancer, metabolism, aging, TEs (my favourite of course 😜) #TEsky lms.mrc.ac.uk/work/vacanci...
Our bioinformatics team are closely involved with lots of interesting science and we love working with them. Topics inc. development, cancer, metabolism, aging, TEs (my favourite of course 😜) #TEsky lms.mrc.ac.uk/work/vacanci...
Head of Bioinformatics - MRC Laboratory of Medical Sciences
We are recruiting for a Head of Bioinformatics to lead our Bioinformatics facility
lms.mrc.ac.uk
September 19, 2025 at 8:25 AM
Come be our head of bioinformatics at @mrc-lms.bsky.social !
Our bioinformatics team are closely involved with lots of interesting science and we love working with them. Topics inc. development, cancer, metabolism, aging, TEs (my favourite of course 😜) #TEsky lms.mrc.ac.uk/work/vacanci...
Our bioinformatics team are closely involved with lots of interesting science and we love working with them. Topics inc. development, cancer, metabolism, aging, TEs (my favourite of course 😜) #TEsky lms.mrc.ac.uk/work/vacanci...
Reposted by Casey Bergman
Kicked off a series on #Drosophila TE discovery and naming. The first post covers elements that predate the term "mobile element", and more. artemilin.dev/posts/te_nam...
Drosophila TE name origins, Part 1 – Postdoc Postpunk
artemilin.dev
September 21, 2025 at 7:49 PM
Kicked off a series on #Drosophila TE discovery and naming. The first post covers elements that predate the term "mobile element", and more. artemilin.dev/posts/te_nam...
Reposted by Casey Bergman
I share this picture of a printed out genome every once in while.
It just occurred to me: it's got to be cheaper to acquire a finished copy of your genome (high accuracy, phased, SV-resolved) than to print it as a collection of bound books.
(back-of-envelope checks out - anyone done the math?)
It just occurred to me: it's got to be cheaper to acquire a finished copy of your genome (high accuracy, phased, SV-resolved) than to print it as a collection of bound books.
(back-of-envelope checks out - anyone done the math?)
September 12, 2025 at 8:36 PM
I share this picture of a printed out genome every once in while.
It just occurred to me: it's got to be cheaper to acquire a finished copy of your genome (high accuracy, phased, SV-resolved) than to print it as a collection of bound books.
(back-of-envelope checks out - anyone done the math?)
It just occurred to me: it's got to be cheaper to acquire a finished copy of your genome (high accuracy, phased, SV-resolved) than to print it as a collection of bound books.
(back-of-envelope checks out - anyone done the math?)
Reposted by Casey Bergman
We are all super happy and proud to see our work on the function and evolution of the #cephalic #furrow published in @nature.com. Let me say a few things about the background and history of this work on the #Evolution_of_Morphogenesis (1/12)
September 4, 2025 at 8:22 AM
We are all super happy and proud to see our work on the function and evolution of the #cephalic #furrow published in @nature.com. Let me say a few things about the background and history of this work on the #Evolution_of_Morphogenesis (1/12)