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Alexander L. Cope - Publications

Affiliations: 
University of Southern California, Los Angeles, CA, United States 
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12 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Jiang D, Cope AL, Zhang J, Pennell M. On the Decoupling of Evolutionary Changes in mRNA and Protein Levels. Molecular Biology and Evolution. 40. PMID 37498582 DOI: 10.1093/molbev/msad169  0.611
2023 Jiang D, Cope AL, Zhang J, Pennell M. Decoupling of evolutionary changes in mRNA and protein levels. Biorxiv : the Preprint Server For Biology. PMID 37066157 DOI: 10.1101/2023.04.08.536110  0.608
2022 Favate JS, Liang S, Cope AL, Yadavalli SS, Shah P. The landscape of transcriptional and 1translational changes over 22 years of bacterial adaptation. Elife. 11. PMID 36214449 DOI: 10.7554/eLife.81979  0.698
2022 Cope AL, Shah P. Intragenomic variation in non-adaptive nucleotide biases causes underestimation of selection on synonymous codon usage. Plos Genetics. 18: e1010256. PMID 35714134 DOI: 10.1371/journal.pgen.1010256  0.606
2022 Cope AL, Gilchrist MA. Quantifying shifts in natural selection on codon usage between protein regions: a population genetics approach. Bmc Genomics. 23: 408. PMID 35637464 DOI: 10.1186/s12864-022-08635-0  0.719
2022 Nikonorova IA, Wang J, Cope AL, Tilton PE, Power KM, Walsh JD, Akella JS, Krauchunas AR, Shah P, Barr MM. Isolation, profiling, and tracking of extracellular vesicle cargo in Caenorhabditis elegans. Current Biology : Cb. PMID 35334227 DOI: 10.1016/j.cub.2022.03.005  0.573
2022 Cope AL, Anderson F, Favate J, Jackson M, Mok A, Kurowska A, Liu J, MacKenzie E, Shivakumar V, Tilton P, Winterbourne SM, Xue S, Kavoussanakis K, Lareau LF, Shah P, et al. riboviz 2: A flexible and robust ribosome profiling data analysis and visualization workflow. Bioinformatics (Oxford, England). PMID 35157051 DOI: 10.1093/bioinformatics/btac093  0.69
2022 Cope AL, Vellappan S, Favate JS, Skalenko KS, Yadavalli SS, Shah P. Exploring Ribosome-Positioning on Translating Transcripts with Ribosome Profiling. Methods in Molecular Biology (Clifton, N.J.). 2404: 83-110. PMID 34694605 DOI: 10.1007/978-1-0716-1851-6_5  0.697
2021 Skalenko KS, Li L, Zhang Y, Vvedenskaya IO, Winkelman JT, Cope AL, Taylor DM, Shah P, Ebright RH, Kinney JB, Zhang Y, Nickels BE. Promoter-sequence determinants and structural basis of primer-dependent transcription initiation in . Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 34187896 DOI: 10.1073/pnas.2106388118  0.573
2020 Cope AL, O'Meara BC, Gilchrist MA. Gene expression of functionally-related genes coevolves across fungal species: detecting coevolution of gene expression using phylogenetic comparative methods. Bmc Genomics. 21: 370. PMID 32434474 DOI: 10.1186/S12864-020-6761-3  0.704
2018 Cope AL, Hettich RL, Gilchrist MA. Quantifying codon usage in signal peptides: Gene expression and amino acid usage explain apparent selection for inefficient codons. Biochimica Et Biophysica Acta. Biomembranes. 1860: 2479-2485. PMID 30279149 DOI: 10.1016/J.Bbamem.2018.09.010  0.71
2018 Landerer C, Cope A, Zaretzki R, Gilchrist MA. AnaCoDa: Analyzing Codon Data with Bayesian mixture models. Bioinformatics (Oxford, England). PMID 29522124 DOI: 10.1093/Bioinformatics/Bty138  0.675
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