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Chromosome-level genomes of multicellular algal sisters to land plants illuminate signaling network evolution.
Feng X, Zheng J, Irisarri I, Yu H, Zheng B, Ali Z, de Vries S, Keller J, Fürst-Jansen JMR, Dadras A, Zegers JMS, Rieseberg TP, Ashok AD, Darienko T, Bierenbroodspot MJ, Gramzow L, Petroll R, Haas FB, Fernandez-Pozo N, Nousias O, Li T, Fitzek E, Grayburn WS, Rittmeier N, Permann C, Rümpler F, Archibald JM, Theißen G, Mower JP, Lorenz M, Buschmann H, von Schwartzenberg K, Boston L, Hayes RD, Daum C, Barry K, Grigoriev IV, Wang X, Li FW, Rensing SA, Ari JB, Keren N, Mosquna A, Holzinger A, Delaux PM, Zhang C, Huang J, Mutwil M, de Vries J, Yin Y. Feng X, et al. Among authors: zheng b, zheng j. bioRxiv [Preprint]. 2023 Feb 1:2023.01.31.526407. doi: 10.1101/2023.01.31.526407. bioRxiv. 2023. PMID: 36778228 Free PMC article. Preprint.
AcaFinder: Genome Mining for Anti-CRISPR-Associated Genes.
Yang B, Zheng J, Yin Y. Yang B, et al. Among authors: zheng j. mSystems. 2022 Dec 20;7(6):e0081722. doi: 10.1128/msystems.00817-22. Epub 2022 Nov 22. mSystems. 2022. PMID: 36413017 Free PMC article.
Genome mining for anti-CRISPR operons using machine learning.
Yang B, Khatri M, Zheng J, Deogun J, Yin Y. Yang B, et al. Among authors: zheng j. Bioinformatics. 2023 May 4;39(5):btad309. doi: 10.1093/bioinformatics/btad309. Bioinformatics. 2023. PMID: 37158576 Free PMC article.
dbAPIS: a database of anti-prokaryotic immune system genes.
Yan Y, Zheng J, Zhang X, Yin Y. Yan Y, et al. Among authors: zheng j. Nucleic Acids Res. 2024 Jan 5;52(D1):D419-D425. doi: 10.1093/nar/gkad932. Nucleic Acids Res. 2024. PMID: 37889074 Free PMC article.
Three de novo assembled wild cacao genomes from the Upper Amazon.
Nousias O, Zheng J, Li T, Meinhardt LW, Bailey B, Gutierrez O, Baruah IK, Cohen SP, Zhang D, Yin Y. Nousias O, et al. Among authors: zheng j. Sci Data. 2024 Apr 11;11(1):369. doi: 10.1038/s41597-024-03215-1. Sci Data. 2024. PMID: 38605066 Free PMC article.
Genomes of multicellular algal sisters to land plants illuminate signaling network evolution.
Feng X, Zheng J, Irisarri I, Yu H, Zheng B, Ali Z, de Vries S, Keller J, Fürst-Jansen JMR, Dadras A, Zegers JMS, Rieseberg TP, Dhabalia Ashok A, Darienko T, Bierenbroodspot MJ, Gramzow L, Petroll R, Haas FB, Fernandez-Pozo N, Nousias O, Li T, Fitzek E, Grayburn WS, Rittmeier N, Permann C, Rümpler F, Archibald JM, Theißen G, Mower JP, Lorenz M, Buschmann H, von Schwartzenberg K, Boston L, Hayes RD, Daum C, Barry K, Grigoriev IV, Wang X, Li FW, Rensing SA, Ben Ari J, Keren N, Mosquna A, Holzinger A, Delaux PM, Zhang C, Huang J, Mutwil M, de Vries J, Yin Y. Feng X, et al. Among authors: zheng b, zheng j. Nat Genet. 2024 May 1. doi: 10.1038/s41588-024-01737-3. Online ahead of print. Nat Genet. 2024. PMID: 38693345
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