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Genomics

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  • RNA-seq mixology: designing realistic control experiments to compare protocols and analysis methods
    Aliaksei Z. Holik, Charity W. Law, Ruijie Liu, Zeya Wang, Wenyi Wang, Jaeil Ahn, Marie-Liesse Asselin-Labat, Gordon K. Smyth, Matthew E. Ritchie
    bioRxiv 063008; doi: https://doi.org/10.1101/063008
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  • The haplotype-resolved genome sequence of hexaploid Ipomoea batatas reveals its evolutionary history
    Jun Yang, M-Hossein Moeinzadeh, Heiner Kuhl, Johannes Helmuth, Peng Xiao, Guiling Liu, Jianli Zheng, Zhe Sun, Weijuan Fan, Gaifang Deng, Hongxia Wang, Fenhong Hu, Alisdair R Fernie, Bernd Timmermann, Peng Zhang, Martin Vingron
    bioRxiv 064428; doi: https://doi.org/10.1101/064428
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  • Single-molecule sequencing and conformational capture enable de novo mammalian reference genomes
    Derek M. Bickhart, Benjamin D. Rosen, Sergey Koren, Brian L. Sayre, Alex R. Hastie, Saki Chan, Joyce Lee, Ernest T. Lam, Ivan Liachko, Shawn T. Sullivan, Joshua N. Burton, Heather J. Huson, Christy M. Kelley, Jana L. Hutchison, Yang Zhou, Jiajie Sun, Alessandra Crisà, F. Abel Ponce De León, John C. Schwartz, John A. Hammond, Geoffrey C. Waldbieser, Steven G. Schroeder, George E. Liu, Maitreya J. Dunham, Jay Shendure, Tad S. Sonstegard, Adam M. Phillippy, Curtis P. Van Tassell, Timothy P.L. Smith
    bioRxiv 064352; doi: https://doi.org/10.1101/064352
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  • Editing of the urease gene by CRISPR-Cas in the diatom Thalassiosira pseudonana
    Amanda Hopes, Vladimir Nekrasov, Sophien Kamoun, Thomas Mock
    bioRxiv 062026; doi: https://doi.org/10.1101/062026
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  • Stable C. elegans chromatin domains separate broadly expressed and developmentally regulated genes
    Kenneth J. Evans, Ni Huang, Przemyslaw Stempor, Michael A. Chesney, Thomas A. Down, Julie Ahringer
    bioRxiv 063990; doi: https://doi.org/10.1101/063990
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  • Complex admixture preceded and followed the extinction of wisent in the wild
    Karolina Węcek, Stefanie Hartmann, Johanna L. A. Paijmans, Ulrike Taron, Georgios Xenikoudakis, James A. Cahill, Peter D. Heintzman, Beth Shapiro, Gennady Baryshnikov, Aleksei N. Bunevich, Jennifer J. Crees, Roland Dobosz, Ninna Manaserian, Henryk Okarma, Małgorzata Tokarska, Samuel T. Turvey, Jan M. Wójcik, Waldemar Żyła, Jacek M. Szymura, Michael Hofreiter, Axel Barlow
    bioRxiv 059527; doi: https://doi.org/10.1101/059527
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  • The queenslandensis and the type form of the dengue fever mosquito (Aedes aegypti L.) are genomically indistinguishable
    Gordana Rašić, Igor Filipović, Ashley G. Callahan, Darren Stanford, Abigail Chan, Sai Gek Lam-Phua, Huat Cheong Tan, Ary A. Hoffmann
    bioRxiv 063792; doi: https://doi.org/10.1101/063792
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  • Principles for RNA metabolism and alternative transcription initiation within closely spaced promoters
    Yun Chen, Athma A. Pai, Jan Herudek, Michal Lubas, Nicola Meola, Aino I. Järvelin, Robin Andersson, Vicent Pelechano, Lars M. Steinmetz, Torben Heick Jensen, Albin Sandelin
    bioRxiv 055731; doi: https://doi.org/10.1101/055731
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  • Medical subject heading (MeSH) annotations illuminate maize genetics and evolution
    Timothy M. Beissinger, Gota Morota
    bioRxiv 048132; doi: https://doi.org/10.1101/048132
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  • A Thousand Fly Genomes: An Expanded Drosophila Genome Nexus
    Justin B. Lack, Jeremy D. Lange, Alison D. Tang, Russell B. Corbett-Detig, John E. Pool
    bioRxiv 063537; doi: https://doi.org/10.1101/063537
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