Jews, sipping very tiny cups of coffee: yeah yeah, Haplotype J, we've all seen it
Greeks & Turks will go on about how they are ancient enemies with deep irreconcilable differences and the rest of us just see this
September 26, 2026 at 5:18 PM
Jews, sipping very tiny cups of coffee: yeah yeah, Haplotype J, we've all seen it
Cloudberries are not only delicious, they have a new genome assembly! A chromosome-level, haplotype-resolved assembly of the cloudberry (Rubus chamaemorus) reveals a complex octoploid genome with high completeness and detailed structure.
Photo by Moravice (Wikimedia)
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Photo by Moravice (Wikimedia)
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April 6, 2026 at 3:59 PM
Cloudberries are not only delicious, they have a new genome assembly! A chromosome-level, haplotype-resolved assembly of the cloudberry (Rubus chamaemorus) reveals a complex octoploid genome with high completeness and detailed structure.
Photo by Moravice (Wikimedia)
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Photo by Moravice (Wikimedia)
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nancy mace looks like her haplotype should be on apartment dog breed restrictions
November 21, 2024 at 1:36 PM
nancy mace looks like her haplotype should be on apartment dog breed restrictions
🧬 My haplotype paper is out!
We show that deviations between within-sample and population-level haplotype frequencies can be used to estimate how many individuals contributed to an eDNA sample.
No tissue references needed, just metabarcoding data and some population genetics.
#eDNA #PopGen
We show that deviations between within-sample and population-level haplotype frequencies can be used to estimate how many individuals contributed to an eDNA sample.
No tissue references needed, just metabarcoding data and some population genetics.
#eDNA #PopGen
Estimating Organism Abundance Using Within‐Sample Haplotype Frequencies of eDNA Data
Environmental DNA (eDNA) provides powerful insights into species presence and community composition but remains limited in its capacity to infer species abundance or population structure. Here, we sh...
onlinelibrary.wiley.com
February 13, 2026 at 4:54 PM
📣New today!
📄Haplotype analysis reveals pleiotropic disease associations in the HLA region
🧑🤝🧑 @jkpritch.bsky.social @finngen.bsky.social & colleagues
📄Haplotype analysis reveals pleiotropic disease associations in the HLA region
🧑🤝🧑 @jkpritch.bsky.social @finngen.bsky.social & colleagues
Haplotype analysis reveals pleiotropic disease associations in the HLA region
The HLA region plays an important role in human health but is often excluded in large-scale
GWASs. We performed haplotype-based associations from genotype data to investigate
pleiotropy across thousan...
www.cell.com
July 10, 2025 at 4:51 PM
📣New today!
📄Haplotype analysis reveals pleiotropic disease associations in the HLA region
🧑🤝🧑 @jkpritch.bsky.social @finngen.bsky.social & colleagues
📄Haplotype analysis reveals pleiotropic disease associations in the HLA region
🧑🤝🧑 @jkpritch.bsky.social @finngen.bsky.social & colleagues
LongcallR for competitive SNP calling and haplotype phasing, and simplified allele-specific analysis with long RNA-seq reads. Found ~100 junctions affected by SNPs per sample with most junctions novel.
Developed by Neng Huang. Published in @natmethods.nature.com. Read at rdcu.be/faKhL
Developed by Neng Huang. Published in @natmethods.nature.com. Read at rdcu.be/faKhL
SNP calling, haplotype phasing and allele-specific analysis with long RNA-seq reads
Nature Methods - In this study, long-read RNA sequencing achieves accurate single-nucleotide polymorphism calling, haplotype phasing and allele-specific expression analysis.
rdcu.be
March 30, 2026 at 5:36 PM
LongcallR for competitive SNP calling and haplotype phasing, and simplified allele-specific analysis with long RNA-seq reads. Found ~100 junctions affected by SNPs per sample with most junctions novel.
Developed by Neng Huang. Published in @natmethods.nature.com. Read at rdcu.be/faKhL
Developed by Neng Huang. Published in @natmethods.nature.com. Read at rdcu.be/faKhL
New preprint out!
We generated haplotype-phased genome assemblies for two poplar rust fungi. These resources open new opportunities to explore rust genome architecture, haplotype diversity, and TE-driven evolution.
www.biorxiv.org/content/10.6...
We generated haplotype-phased genome assemblies for two poplar rust fungi. These resources open new opportunities to explore rust genome architecture, haplotype diversity, and TE-driven evolution.
www.biorxiv.org/content/10.6...
www.biorxiv.org
May 3, 2026 at 8:03 AM
New preprint out!
We generated haplotype-phased genome assemblies for two poplar rust fungi. These resources open new opportunities to explore rust genome architecture, haplotype diversity, and TE-driven evolution.
www.biorxiv.org/content/10.6...
We generated haplotype-phased genome assemblies for two poplar rust fungi. These resources open new opportunities to explore rust genome architecture, haplotype diversity, and TE-driven evolution.
www.biorxiv.org/content/10.6...
Heute gibt es nur noch eine Art von Menschen, mit sehr großer genetischer Homogenität. Damals war das anders. Und trotzdem vermischten sich damals die unterschiedlichen Hominiden offensichtlich miteinander - und das zu ihrem großen Vorteil. Das lässt heuten Rassismus noch einmal dümmer erscheinen.
Altitude adaptation in Tibetans caused by introgression of Denisovan-like DNA - Nature
Admixture with other hominin species helped humans to adapt to high-altitude environments; the EPAS1 gene in Tibetan individuals has an unusual haplotype structure that probably resulted from introgre...
www.nature.com
September 22, 2026 at 2:27 PM
Heute gibt es nur noch eine Art von Menschen, mit sehr großer genetischer Homogenität. Damals war das anders. Und trotzdem vermischten sich damals die unterschiedlichen Hominiden offensichtlich miteinander - und das zu ihrem großen Vorteil. Das lässt heuten Rassismus noch einmal dümmer erscheinen.
Nature research paper: A haplotype-based evolutionary history of barley domestication
go.nature.com/3KEVDdy
go.nature.com/3KEVDdy
A haplotype-based evolutionary history of barley domestication - Nature
The evolutionary history of barley is analysed using ancient and modern DNA.
go.nature.com
September 29, 2025 at 10:08 AM
Nature research paper: A haplotype-based evolutionary history of barley domestication
go.nature.com/3KEVDdy
go.nature.com/3KEVDdy
📢 Excited to share our work out now in @nature.com! 📢
We present the phased pan-genome of tetraploid European potato, based on 10 historical cultivars representing 85% of European potato diversity.
Learn more below!
🔗 www.nature.com/articles/s41...
1/7
We present the phased pan-genome of tetraploid European potato, based on 10 historical cultivars representing 85% of European potato diversity.
Learn more below!
🔗 www.nature.com/articles/s41...
1/7
The phased pan-genome of tetraploid European potato - Nature
A haplotype-resolved pan-genome of autotetraploid European potato founder lines shows high nucleotide diversity at remarkably low haplotype diversity, which is probably the result of hybridization eve...
www.nature.com
April 16, 2025 at 3:14 PM
📢 Excited to share our work out now in @nature.com! 📢
We present the phased pan-genome of tetraploid European potato, based on 10 historical cultivars representing 85% of European potato diversity.
Learn more below!
🔗 www.nature.com/articles/s41...
1/7
We present the phased pan-genome of tetraploid European potato, based on 10 historical cultivars representing 85% of European potato diversity.
Learn more below!
🔗 www.nature.com/articles/s41...
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anglomorphic haplotype 😔
April 29, 2024 at 5:09 PM
anglomorphic haplotype 😔
Liberals on here say "Russian" like it's a haplotype.
May 22, 2026 at 5:26 PM
Liberals on here say "Russian" like it's a haplotype.
I've never found it particularly useful, but the haplotype visualization in SLiM always makes me feel like some next-level coding wiz in the matrix.
December 19, 2025 at 5:45 PM
I've never found it particularly useful, but the haplotype visualization in SLiM always makes me feel like some next-level coding wiz in the matrix.
Nature research paper: A haplotype-resolved pangenome of the barley wild relative Hordeum bulbosum
go.nature.com/45V5IvM
go.nature.com/45V5IvM
A haplotype-resolved pangenome of the barley wild relative Hordeum bulbosum - Nature
A study describes the assembly and analysis of a haplotype-resolved pangenome of bulbous barley with the potential to improve domesticated barley and illustrates its use in evolutionary research and trait mapping.
go.nature.com
July 10, 2025 at 8:13 AM
Nature research paper: A haplotype-resolved pangenome of the barley wild relative Hordeum bulbosum
go.nature.com/45V5IvM
go.nature.com/45V5IvM
July 18, 2026 at 3:44 PM
Haplotype phased, chromosome-level genomes of tuberizing legumes: Apios americana and Apios priceana. #PlantScience
From: www.nature.com/articles/s41...
From: www.nature.com/articles/s41...
Chromosome-level haplotype-resolved genome assemblies and annotations of Apios americana and Apios priceana - Scientific Data
Scientific Data - Chromosome-level haplotype-resolved genome assemblies and annotations of Apios americana and Apios priceana
www.nature.com
May 17, 2026 at 3:04 AM
Haplotype phased, chromosome-level genomes of tuberizing legumes: Apios americana and Apios priceana. #PlantScience
From: www.nature.com/articles/s41...
From: www.nature.com/articles/s41...
Great to see that sawfish, our new HiFi SV caller, is accepted for publication in Bioinformatics! Sawfish emphasizes local haplotype modeling to improve SV representation and genotyping in both single and joint-sample analysis. Advance-access article now available: (1/n)
doi.org/10.1093/bioi...
doi.org/10.1093/bioi...
Sawfish: Improving long-read structural variant discovery and genotyping with local haplotype modeling
AbstractMotivation. Structural variants (SVs) play an important role in evolutionary and functional genomics but are challenging to characterize. High-accu
doi.org
April 10, 2025 at 3:41 PM
Great to see that sawfish, our new HiFi SV caller, is accepted for publication in Bioinformatics! Sawfish emphasizes local haplotype modeling to improve SV representation and genotyping in both single and joint-sample analysis. Advance-access article now available: (1/n)
doi.org/10.1093/bioi...
doi.org/10.1093/bioi...
#EpiSky #MedSky 🧪🧬🖥️🛟🦠
Please help add to my “Public Health Data Trackers” starter pack.
Infection rates, haplotype clusters, viral/bacterial genomics, positivity, ER rates, case reports, commentary on reports - we need it all.
List is inclusive. Suggestions ⬇️ or DM.
go.bsky.app/N4Hnryq
Please help add to my “Public Health Data Trackers” starter pack.
Infection rates, haplotype clusters, viral/bacterial genomics, positivity, ER rates, case reports, commentary on reports - we need it all.
List is inclusive. Suggestions ⬇️ or DM.
go.bsky.app/N4Hnryq
November 14, 2024 at 12:47 PM
#EpiSky #MedSky 🧪🧬🖥️🛟🦠
Please help add to my “Public Health Data Trackers” starter pack.
Infection rates, haplotype clusters, viral/bacterial genomics, positivity, ER rates, case reports, commentary on reports - we need it all.
List is inclusive. Suggestions ⬇️ or DM.
go.bsky.app/N4Hnryq
Please help add to my “Public Health Data Trackers” starter pack.
Infection rates, haplotype clusters, viral/bacterial genomics, positivity, ER rates, case reports, commentary on reports - we need it all.
List is inclusive. Suggestions ⬇️ or DM.
go.bsky.app/N4Hnryq
Working link: academic.oup.com/mbe/advance-...
Interpreting supervised machine learning inferences in population genomics using haplotype matrix permutations
Abstract. Supervised machine learning methods, such as convolutional neural networks (CNNs), that use haplotype matrices as input data have become powerful
academic.oup.com
October 7, 2025 at 8:36 AM
Working link: academic.oup.com/mbe/advance-...
YOUR AMERICAN MEMBER HAS THE PITIABLE FUNGIMORPHIC HAPLOTYPE
May 3, 2024 at 8:52 PM
YOUR AMERICAN MEMBER HAS THE PITIABLE FUNGIMORPHIC HAPLOTYPE
Excited to do some exploratory genomics w/ Mother of Thousands plant (Kalanchoe daigremontiana). 2 months ago I assembled the genome - haplotype-resolved w/ 18 chromosomes per subgenome. Now it has been annotated using RNA-seq reads: ~96% complete BUSCO for genome annotation, ~29k genes/subgenome.
December 24, 2024 at 6:05 PM
Excited to do some exploratory genomics w/ Mother of Thousands plant (Kalanchoe daigremontiana). 2 months ago I assembled the genome - haplotype-resolved w/ 18 chromosomes per subgenome. Now it has been annotated using RNA-seq reads: ~96% complete BUSCO for genome annotation, ~29k genes/subgenome.
Now accepted: Haplotype-phased assemblies of the two poplar rust fungi species: Melampsora larici-populina and Melampsora allii-populina academic.oup.com/g3journal/ar...
Haplotype-phased assemblies of the two poplar rust fungi species: Melampsora larici-populina and Melampsora allii-populina
Abstract. Dikaryotic rust fungi maintain two distinct haploid nuclei for most of their life cycle, making their large, repeat-rich genomes difficult to ass
academic.oup.com
August 31, 2026 at 7:11 AM
Now accepted: Haplotype-phased assemblies of the two poplar rust fungi species: Melampsora larici-populina and Melampsora allii-populina academic.oup.com/g3journal/ar...
Nature research paper: The phased pan-genome of tetraploid European potato
https://go.nature.com/43TsEup
https://go.nature.com/43TsEup
The phased pan-genome of tetraploid European potato - Nature
A haplotype-resolved pan-genome of autotetraploid European potato founder lines shows high nucleotide diversity at remarkably low haplotype diversity, which is probably the result of hybridization events with wild potato species, followed by population bottlenecks during domestication and transition to Europe.
go.nature.com
April 21, 2025 at 8:34 AM
Nature research paper: The phased pan-genome of tetraploid European potato
https://go.nature.com/43TsEup
https://go.nature.com/43TsEup
New preprint from the last portion of my PhD! Despite low masked load, we found evidence for strong inbreeding depression in Devils Hole pupfish. The reason? A recessive lethal haplotype that causes a heart defect among developing embryos. www.biorxiv.org/content/10.6...
Long-term small effective population size, inbreeding, and a recessive lethal haplotype drive premature death in the endangered Devils Hole pupfish (Cyprinodon diabolis)
As anthropogenic habitat fragmentation and population decline accelerate globally, growing numbers of species face compounding demographic and genetic threats to long-term survival. Many populations a...
www.biorxiv.org
June 11, 2026 at 10:46 PM
New preprint from the last portion of my PhD! Despite low masked load, we found evidence for strong inbreeding depression in Devils Hole pupfish. The reason? A recessive lethal haplotype that causes a heart defect among developing embryos. www.biorxiv.org/content/10.6...