Casey Bergman - Related publications

University of Georgia, Athens, Athens, GA, United States 
evolution, genomics, noncoding DNA
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21 most relevant papers in past 60 days:
Year Citation  Score
2022 Osterwalder M, Tran S, Hunter RD, Meky EM, von Maydell K, Harrington AN, Godoy J, Novak CS, Plajzer-Frick I, Zhu Y, Akiyama JA, Afzal V, Kvon EZ, Pennacchio LA, Dickel DE, et al. Characterization of Mammalian In Vivo Enhancers Using Mouse Transgenesis and CRISPR Genome Editing. Methods in Molecular Biology (Clifton, N.J.). 2403: 147-186. PMID 34913122 DOI: 10.1007/978-1-0716-1847-9_11   
2022 Stephan T, Burgess SM, Cheng H, Danko CG, Gill CA, Jarvis ED, Koepfli KP, Koltes JE, Lyons E, Ronald P, Ryder OA, Schriml LM, Soltis P, VandeWoude S, Zhou H, et al. Darwinian genomics and diversity in the tree of life. Proceedings of the National Academy of Sciences of the United States of America. 119. PMID 35042807 DOI: 10.1073/pnas.2115644119   
2022 Melonek J, Small I. Triticeae genome sequences reveal huge expansions of gene families implicated in fertility restoration. Current Opinion in Plant Biology. 66: 102166. PMID 35021148 DOI: 10.1016/j.pbi.2021.102166   
2022 Song B, Marco-Sola S, Moreto M, Johnson L, Buckler ES, Stitzer MC. AnchorWave: Sensitive alignment of genomes with high sequence diversity, extensive structural polymorphism, and whole-genome duplication. Proceedings of the National Academy of Sciences of the United States of America. 119. PMID 34934012 DOI: 10.1073/pnas.2113075119   
2022 Zheng Y, Yang D, Rong J, Chen L, Zhu Q, He T, Chen L, Ye J, Fan L, Gao Y, Zhang H, Gu L. Allele-aware chromosome-scale assembly of the allopolyploid genome of hexaploid Ma Bamboo (Dendrocalamus latiflorus Munro). Journal of Integrative Plant Biology. PMID 34990066 DOI: 10.1111/jipb.13217   
2022 Hurgobin B. Annotation of Protein-Coding Genes in Plant Genomes. Methods in Molecular Biology (Clifton, N.J.). 2443: 309-326. PMID 35037214 DOI: 10.1007/978-1-0716-2067-0_17   
2022 Yao X, Lu Z, Song Y, Hu X, Corlett RT. A chromosome-scale genome assembly for the holly (Ilex polyneura) provides insights into genomic adaptations to elevation in Southwest China. Horticulture Research. 9. PMID 35031793 DOI: 10.1093/hr/uhab049   
2022 Prunier J, Carrier A, Gilbert I, Poisson W, Albert V, Taillon J, Bourret V, Côté SD, Droit A, Robert C. CNVs with adaptive potential in : genome architecture and new annotated assembly. Life Science Alliance. 5. PMID 34911809 DOI: 10.26508/lsa.202101207   
2022 González-Sayer S, Oggenfuss U, García I, Aristizabal F, Croll D, Riaño-Pachon DM. High-quality genome assembly of Pseudocercospora ulei the main threat to natural rubber trees. Genetics and Molecular Biology. 45: e50510051. PMID 35037932 DOI: 10.1590/1678-4685-GMB-2021-0051   
2022 Darolti I, Mank JE. A bioinformatic toolkit to simultaneously identify sex and sex-linked regions. Molecular Ecology Resources. 22: 455-457. PMID 34662503 DOI: 10.1111/1755-0998.13530   
2022 Long R, Zhang F, Zhang Z, Li M, Chen L, Wang X, Liu W, Zhang T, Yu LX, He F, Jiang X, Yang X, Yang C, Wang Z, Kang J, et al. Genome assembly of alfalfa cultivar zhongmu-4 and identification of SNPs associated with agronomic traits. Genomics, Proteomics & Bioinformatics. PMID 35033678 DOI: 10.1016/j.gpb.2022.01.002   
2022 Bellinger MR, Datlof E, Selph KE, Gallaher TJ, Knope ML. A genome for Bidens hawaiensis: a member of a hexaploid Hawaiian plant adaptive radiation. The Journal of Heredity. PMID 34982822 DOI: 10.1093/jhered/esab077   
2022 Ma L, Wang Q, Zheng Y, Guo J, Yuan S, Fu A, Bai C, Zhao X, Zheng S, Wen C, Guo S, Gao L, Grierson D, Zuo J, Xu Y. Cucurbitaceae genome evolution, gene function and molecular breeding. Horticulture Research. PMID 35043161 DOI: 10.1093/hr/uhab057   
2022 Chen SH, Rossetto M, van der Merwe M, Lu-Irving P, Yap JS, Sauquet H, Bourke G, Amos TG, Bragg JG, Edwards RJ. Chromosome-level de novo genome assembly of Telopea speciosissima (New South Wales waratah) using long-reads, linked-reads and Hi-C. Molecular Ecology Resources. PMID 35016262 DOI: 10.1111/1755-0998.13574   
2022 Hogg CJ, Ottewell K, Latch P, Rossetto M, Biggs J, Gilbert A, Richmond S, Belov K. Threatened Species Initiative: Empowering conservation action using genomic resources. Proceedings of the National Academy of Sciences of the United States of America. 119. PMID 35042806 DOI: 10.1073/pnas.2115643118   
2022 Nunn A, Rodríguez-Arévalo I, Tandukar Z, Frels K, Contreras-Garrido A, Carbonell-Bejerano P, Zhang P, Ramos-Cruz D, Jandrasits K, Lanz C, Brusa A, Mirouze M, Dorn K, Galbraith D, Jarvis BA, et al. Chromosome-level Thlaspi arvense genome provides new tools for translational research and for a newly domesticated cash cover crop of the cooler climates. Plant Biotechnology Journal. PMID 34990041 DOI: 10.1111/pbi.13775   
2022 Reis ALM, Deveson IW, Madala BS, Wong T, Barker C, Xu J, Lennon N, Tong W, Mercer TR, . Using synthetic chromosome controls to evaluate the sequencing of difficult regions within the human genome. Genome Biology. 23: 19. PMID 35022065 DOI: 10.1186/s13059-021-02579-6   
2022 Song X, Gao HY, Herrup K, Hart RP. Optimized splitting of mixed-species RNA sequencing data. Journal of Bioinformatics and Computational Biology. 2250001. PMID 34991436 DOI: 10.1142/S0219720022500019   
2022 Li JJ, Liu C, Wang D, Guo DQ, Du HH. Characterization and analysis of complete chloroplast genome of (Blanco) Merrill. Mitochondrial Dna. Part B, Resources. 7: 89-90. PMID 34993321 DOI: 10.1080/23802359.2021.2009386   
2022 Kimbrel JA, Jeffrey BM, Ward CS. Prokaryotic Genome Annotation. Methods in Molecular Biology (Clifton, N.J.). 2349: 193-214. PMID 34718997 DOI: 10.1007/978-1-0716-1585-0_10   
2022 McCarthy AJ, Taylor PW. Analysis of Escherichia coli K1 Virulence Genes by Transposon-Directed Sequencing. Methods in Molecular Biology (Clifton, N.J.). 2377: 199-213. PMID 34709618 DOI: 10.1007/978-1-0716-1720-5_11