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DNA & RNA research @AndGenomics

Highlighting publications about #DNA #RNA #genomics #RNAseq #evolution #genome #plants #bioinformatics #biotech #synbio #openscience #preprints

Joined September 2018
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Phylogenomic approach uncovers the hybrid origin and biogeographic diversification of the plum genus doi.org/10.1101/2023.09.13.5… Large-scale Phylogenomics Reveals Systematic Loss of Anthocyanin Biosynthesis Genes at the Family Level in Cucurbitaceae doi.org/10.1101/2025.10.06.6…
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A New Cost Effective, Simplified Workflow for Transposon Insertion Sequencing (TIS) doi.org/10.64898/2026.01.23.… Large scale genomic rearrangements in selected Arabidopsis thaliana T-DNA lines are caused by T-DNA insertion mutagenesis doi.org/10.1101/2021.03.03.4… #Genomics #Bioinformatics
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MAVISp: A Modular Structure-Based Framework for Protein Variant Effects doi.org/10.1101/2022.10.22.5… NAVIP: Unraveling the Influence of Neighboring Small Sequence Variants on Functional Impact Prediction doi.org/10.1101/596718
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Distribution of Gene Tree Topologies with Duplication, Loss, and Coalescence doi.org/10.64898/2026.01.19.… DupyliCate - mining, classifying, and characterizing gene duplications doi.org/10.1101/2025.10.10.6…
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LoFi: 4 haplotype-resolved Cannabis genomes enable characterization of large structural variants doi.org/10.64898/2026.01.19.… Large scale genomic rearrangements in selected Arabidopsis thaliana T-DNA lines are caused by T-DNA insertion mutagenesis doi.org/10.1101/2021.03.03.4…
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orthogene: a Bioconductor package to easily map genes within and across hundreds of species doi.org/10.64898/2026.01.17.… DupyliCate - mining, classifying, and characterizing gene duplications doi.org/10.1101/2025.10.10.6… #Evolution #Bioinformatics
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NEMO: Improved and accurate models for identification of 6mA using Nanopore sequencing doi.org/10.1101/2024.03.12.5… Large scale genomic rearrangements in selected A. thaliana T-DNA lines are caused by T-DNA insertion mutagenesis doi.org/10.1101/2021.03.03.4… #Genomics #Bioinformatics
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This never gets old although it is actually about the language used in publications 😂
Scholarship for PhD
@ScholarshipfPhd
Jan 20
The irony
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Ubiquitous functional synergy partially explains why most transcription factor binding is non-functional doi.org/10.64898/2026.01.19.… Automatic identification and annotation of MYB gene family members in plants doi.org/10.1101/2021.10.16.4… #Genomics #Bioinformatics
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Comprehensive benchmarking of tools for nanopore-based detection of DNA methylation doi.org/10.1101/2024.11.09.6… Cookbook for Plant Genome Sequences doi.org/10.20944/preprints20… #Genomics #Bioinformatics #PlantSciences
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Pervasive translation of short open reading frames and de novo gene emergence in Arabidopsis doi.org/10.1101/2025.09.04.6… DupyliCate - mining, classifying, and characterizing gene duplications doi.org/10.1101/2025.10.10.6… #Genomics #Bioinformatics #Evolution

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Evolutionary dynamics of the proanthocyanidin biosynthesis gene LAR doi.org/10.1186/s12864-025-1… #Evolution #FlavonoidBiosynthesis #PlantSciences #Bioinformatics #Genomics #SciComm #OpenScience
Evolutionary dynamics of the proanthocyanidin biosynthesis gene LAR https://doi.org/10.1186/s12864-025-12429-5

ALT Evolutionary dynamics of the proanthocyanidin biosynthesis gene LAR https://doi.org/10.1186/s12864-025-12429-5

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ProteoCast: a web server to predict, validate, and interpret missense variant effects doi.org/10.1101/2025.11.03.6… NAVIP: Unraveling the Influence of Neighboring Small Sequence Variants on Functional Impact Prediction doi.org/10.1101/596718 #Protein #Diversity #Variation
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Explaining how mutations affect AlphaFold predictions doi.org/10.64898/2025.12.30.… NAVIP: Unraveling the Influence of Neighboring Small Sequence Variants on Functional Impact Prediction doi.org/10.1101/596718 #Bioinformatics #Genomics

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AdaGenes: A streaming processor for high-throughput annotation and filtering of sequence variant data doi.org/10.1101/2025.06.17.6… NAVIP: Unraveling the Influence of Neighboring Small Sequence Variants on Functional Impact Prediction doi.org/10.1101/596718
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DNA & RNA research retweeted
Michael 英泉 Eisen
@mbeisen
Jan 9
In light of the launch of Cell Press Blue cell.com/cell-press-blue/hom…, I want to let everyone know about @biorxivpreprint Blue
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DNA & RNA research retweeted
Michael 英泉 Eisen
@mbeisen
Jan 9
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Evolutionary dynamics of the proanthocyanidin biosynthesis gene LAR doi.org/10.1186/s12864-025-1…

Evolutionary dynamics of the proanthocyanidin biosynthesis gene LAR

BMC Genomics - Leucoanthocyanidin reductase (LAR) is a key enzyme in proanthocyanidin (PAs) biosynthesis, catalyzing the conversion of leucoanthocyanidins to catechins. While early steps in the...

link.springer.com
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The grain amaranth pangenome reveals domestication-associated changes in diversity and function of structural variation doi.org/10.64898/2026.01.08.… Pangenome of cultivated beet and crop wild relatives reveals parental relationships of a tetraploid wild beet doi.org/10.1101/2023.06.28.5…
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LORA: a polymorphic multi-sample LOng Read Assembly pipeline doi.org/10.64898/2026.01.06.… Cookbook for Plant Genome Sequences doi.org/10.20944/preprints20…
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