BPG is committed to discovery and dissemination of knowledge
Cited by in F6Publishing
For: Routh A, Head SR, Ordoukhanian P, Johnson JE. ClickSeq: Fragmentation-Free Next-Generation Sequencing via Click Ligation of Adaptors to Stochastically Terminated 3'-Azido cDNAs. J Mol Biol 2015;427:2610-6. [PMID: 26116762 DOI: 10.1016/j.jmb.2015.06.011] [Cited by in Crossref: 34] [Cited by in F6Publishing: 32] [Article Influence: 4.9] [Reference Citation Analysis]
Number Citing Articles
1 Routh A, Chang MW, Okulicz JF, Johnson JE, Torbett BE. CoVaMa: Co-Variation Mapper for disequilibrium analysis of mutant loci in viral populations using next-generation sequence data. Methods 2015;91:40-7. [PMID: 26408523 DOI: 10.1016/j.ymeth.2015.09.021] [Cited by in Crossref: 13] [Cited by in F6Publishing: 13] [Article Influence: 1.9] [Reference Citation Analysis]
2 Johnson BA, Xie X, Kalveram B, Lokugamage KG, Muruato A, Zou J, Zhang X, Juelich T, Smith JK, Zhang L, Bopp N, Schindewolf C, Vu M, Vanderheiden A, Swetnam D, Plante JA, Aguilar P, Plante KS, Lee B, Weaver SC, Suthar MS, Routh AL, Ren P, Ku Z, An Z, Debbink K, Shi PY, Freiberg AN, Menachery VD. Furin Cleavage Site Is Key to SARS-CoV-2 Pathogenesis. bioRxiv 2020:2020. [PMID: 32869021 DOI: 10.1101/2020.08.26.268854] [Cited by in Crossref: 44] [Cited by in F6Publishing: 11] [Article Influence: 22.0] [Reference Citation Analysis]
3 Muruato A, Vu MN, Johnson BA, Davis-Gardner ME, Vanderheiden A, Lokugmage K, Schindewolf C, Crocquet-Valdes PA, Langsjoen RM, Plante JA, Plante KS, Weaver SC, Debbink K, Routh AL, Walker D, Suthar MS, Xie X, Shi PY, Menachery VD. Mouse Adapted SARS-CoV-2 protects animals from lethal SARS-CoV challenge. bioRxiv 2021:2021. [PMID: 33972939 DOI: 10.1101/2021.05.03.442357] [Cited by in Crossref: 5] [Cited by in F6Publishing: 2] [Article Influence: 5.0] [Reference Citation Analysis]
4 Miura F, Fujino T, Kogashi K, Shibata Y, Miura M, Isobe H, Ito T. Triazole linking for preparation of a next-generation sequencing library from single-stranded DNA. Nucleic Acids Res 2018;46:e95. [PMID: 29846671 DOI: 10.1093/nar/gky452] [Cited by in Crossref: 6] [Cited by in F6Publishing: 7] [Article Influence: 2.0] [Reference Citation Analysis]
5 Jensen MK, Elrod ND, Yalamanchili HK, Ji P, Lin A, Liu Z, Wagner EJ. Application and design considerations for 3'-end sequencing using click-chemistry. Methods Enzymol 2021;655:1-23. [PMID: 34183117 DOI: 10.1016/bs.mie.2021.03.012] [Cited by in Crossref: 2] [Cited by in F6Publishing: 2] [Article Influence: 2.0] [Reference Citation Analysis]
6 Shi L, Qalieh A, Lam MM, Keil JM, Kwan KY. Robust elimination of genome-damaged cells safeguards against brain somatic aneuploidy following Knl1 deletion. Nat Commun 2019;10:2588. [PMID: 31197172 DOI: 10.1038/s41467-019-10411-w] [Cited by in Crossref: 9] [Cited by in F6Publishing: 7] [Article Influence: 3.0] [Reference Citation Analysis]
7 Elrod ND, Jaworski EA, Ji P, Wagner EJ, Routh A. Development of Poly(A)-ClickSeq as a tool enabling simultaneous genome-wide poly(A)-site identification and differential expression analysis. Methods 2019;155:20-9. [PMID: 30625385 DOI: 10.1016/j.ymeth.2019.01.002] [Cited by in Crossref: 13] [Cited by in F6Publishing: 8] [Article Influence: 4.3] [Reference Citation Analysis]
8 Jaworski E, Langsjoen RM, Judy B, Newman P, Plante JA, Plante KS, Miller AL, Zhou Y, Swetnam D, Dong J, Ren P, Pyles RB, Ksiazek T, Menachery VD, Weaver SC, Routh A. Tiled-ClickSeq for targeted sequencing of complete coronavirus genomes with simultaneous capture of RNA recombination and minority variants. bioRxiv 2021:2021. [PMID: 33758846 DOI: 10.1101/2021.03.10.434828] [Cited by in Crossref: 1] [Article Influence: 1.0] [Reference Citation Analysis]
9 Keil JM, Doyle DZ, Qalieh A, Lam MM, Funk OH, Qalieh Y, Shi L, Mohan N, Sorel A, Kwan KY. Symmetric neural progenitor divisions require chromatin-mediated homologous recombination DNA repair by Ino80. Nat Commun 2020;11:3839. [PMID: 32737294 DOI: 10.1038/s41467-020-17551-4] [Cited by in Crossref: 4] [Cited by in F6Publishing: 3] [Article Influence: 2.0] [Reference Citation Analysis]
10 Jaworski E, Langsjoen RM, Mitchell B, Judy B, Newman P, Plante JA, Plante KS, Miller AL, Zhou Y, Swetnam D, Sotcheff S, Morris V, Saada N, Machado RR, McConnell A, Widen SG, Thompson J, Dong J, Ren P, Pyles RB, Ksiazek TG, Menachery VD, Weaver SC, Routh AL. Tiled-ClickSeq for targeted sequencing of complete coronavirus genomes with simultaneous capture of RNA recombination and minority variants. Elife 2021;10:e68479. [PMID: 34581669 DOI: 10.7554/eLife.68479] [Cited by in F6Publishing: 1] [Reference Citation Analysis]
11 Fitzpatrick AH, Rupnik A, O'Shea H, Crispie F, Keaveney S, Cotter P. High Throughput Sequencing for the Detection and Characterization of RNA Viruses. Front Microbiol 2021;12:621719. [PMID: 33692767 DOI: 10.3389/fmicb.2021.621719] [Reference Citation Analysis]
12 Soto-Acosta R, Edwards TC, Dreis CD, Krishna VD, Cheeran MC, Qiu L, Xie J, Bonnac LF, Geraghty RJ. Enhancing the Antiviral Potency of Nucleobases for Potential Broad-Spectrum Antiviral Therapies. Viruses 2021;13:2508. [PMID: 34960780 DOI: 10.3390/v13122508] [Reference Citation Analysis]
13 Ordoukhanian P, Nichols J, Head SR. Primer Extension, Capture, and On-Bead cDNA Ligation: An Efficient RNAseq Library Prep Method for Determining Reverse Transcription Termination Sites. Methods Mol Biol 2018;1712:253-61. [PMID: 29224079 DOI: 10.1007/978-1-4939-7514-3_16] [Cited by in Crossref: 1] [Article Influence: 0.3] [Reference Citation Analysis]
14 Routh A, Ji P, Jaworski E, Xia Z, Li W, Wagner EJ. Poly(A)-ClickSeq: click-chemistry for next-generation 3΄-end sequencing without RNA enrichment or fragmentation. Nucleic Acids Res 2017;45:e112. [PMID: 28449108 DOI: 10.1093/nar/gkx286] [Cited by in Crossref: 28] [Cited by in F6Publishing: 29] [Article Influence: 5.6] [Reference Citation Analysis]
15 Langsjoen RM, Muruato AE, Kunkel SR, Jaworski E, Routh A. Differential Alphavirus Defective RNA Diversity between Intracellular and Extracellular Compartments Is Driven by Subgenomic Recombination Events. mBio 2020;11:e00731-20. [PMID: 32817101 DOI: 10.1128/mBio.00731-20] [Cited by in Crossref: 1] [Cited by in F6Publishing: 2] [Article Influence: 0.5] [Reference Citation Analysis]
16 Abel GR Jr, Calabrese ZA, Ayco J, Hein JE, Ye T. Measuring and Suppressing the Oxidative Damage to DNA During Cu(I)-Catalyzed Azide-Alkyne Cycloaddition. Bioconjug Chem 2016;27:698-704. [PMID: 26829457 DOI: 10.1021/acs.bioconjchem.5b00665] [Cited by in Crossref: 41] [Cited by in F6Publishing: 34] [Article Influence: 6.8] [Reference Citation Analysis]
17 Alnaji FG, Holmes JR, Rendon G, Vera JC, Fields CJ, Martin BE, Brooke CB. Sequencing Framework for the Sensitive Detection and Precise Mapping of Defective Interfering Particle-Associated Deletions across Influenza A and B Viruses. J Virol 2019;93:e00354-19. [PMID: 30867305 DOI: 10.1128/JVI.00354-19] [Cited by in Crossref: 26] [Cited by in F6Publishing: 15] [Article Influence: 8.7] [Reference Citation Analysis]
18 Doyle DZ, Lam MM, Qalieh A, Qalieh Y, Sorel A, Funk OH, Kwan KY. Chromatin remodeler Arid1a regulates subplate neuron identity and wiring of cortical connectivity. Proc Natl Acad Sci U S A 2021;118:e2100686118. [PMID: 34011608 DOI: 10.1073/pnas.2100686118] [Cited by in F6Publishing: 1] [Reference Citation Analysis]
19 Muruato A, Vu MN, Johnson BA, Davis-Gardner ME, Vanderheiden A, Lokugamage K, Schindewolf C, Crocquet-Valdes PA, Langsjoen RM, Plante JA, Plante KS, Weaver SC, Debbink K, Routh AL, Walker D, Suthar MS, Shi PY, Xie X, Menachery VD. Mouse-adapted SARS-CoV-2 protects animals from lethal SARS-CoV challenge. PLoS Biol 2021;19:e3001284. [PMID: 34735434 DOI: 10.1371/journal.pbio.3001284] [Cited by in F6Publishing: 1] [Reference Citation Analysis]
20 Jaworski E, Routh A. Parallel ClickSeq and Nanopore sequencing elucidates the rapid evolution of defective-interfering RNAs in Flock House virus. PLoS Pathog 2017;13:e1006365. [PMID: 28475646 DOI: 10.1371/journal.ppat.1006365] [Cited by in Crossref: 37] [Cited by in F6Publishing: 30] [Article Influence: 7.4] [Reference Citation Analysis]
21 Peccoud J, Lequime S, Moltini-Conclois I, Giraud I, Lambrechts L, Gilbert C. A Survey of Virus Recombination Uncovers Canonical Features of Artificial Chimeras Generated During Deep Sequencing Library Preparation. G3 (Bethesda) 2018;8:1129-38. [PMID: 29434031 DOI: 10.1534/g3.117.300468] [Cited by in Crossref: 11] [Cited by in F6Publishing: 10] [Article Influence: 2.8] [Reference Citation Analysis]
22 Reyes-Ruiz JM, Osuna-Ramos JF, Bautista-Carbajal P, Jaworski E, Soto-Acosta R, Cervantes-Salazar M, Angel-Ambrocio AH, Castillo-Munguía JP, Chávez-Munguía B, De Nova-Ocampo M, Routh A, Del Ángel RM, Salas-Benito JS. Mosquito cells persistently infected with dengue virus produce viral particles with host-dependent replication. Virology 2019;531:1-18. [PMID: 30844508 DOI: 10.1016/j.virol.2019.02.018] [Cited by in Crossref: 6] [Cited by in F6Publishing: 5] [Article Influence: 2.0] [Reference Citation Analysis]
23 Jaworski E, Routh A. ClickSeq: Replacing Fragmentation and Enzymatic Ligation with Click-Chemistry to Prevent Sequence Chimeras. Methods Mol Biol 2018;1712:71-85. [PMID: 29224069 DOI: 10.1007/978-1-4939-7514-3_6] [Cited by in Crossref: 10] [Cited by in F6Publishing: 7] [Article Influence: 2.5] [Reference Citation Analysis]
24 Baraniak D, Boryski J. Triazole-Modified Nucleic Acids for the Application in Bioorganic and Medicinal Chemistry. Biomedicines 2021;9:628. [PMID: 34073038 DOI: 10.3390/biomedicines9060628] [Reference Citation Analysis]
25 Chu Y, Elrod N, Wang C, Li L, Chen T, Routh A, Xia Z, Li W, Wagner EJ, Ji P. Nudt21 regulates the alternative polyadenylation of Pak1 and is predictive in the prognosis of glioblastoma patients. Oncogene 2019;38:4154-68. [PMID: 30705404 DOI: 10.1038/s41388-019-0714-9] [Cited by in Crossref: 21] [Cited by in F6Publishing: 23] [Article Influence: 7.0] [Reference Citation Analysis]
26 Johnson BA, Xie X, Bailey AL, Kalveram B, Lokugamage KG, Muruato A, Zou J, Zhang X, Juelich T, Smith JK, Zhang L, Bopp N, Schindewolf C, Vu M, Vanderheiden A, Winkler ES, Swetnam D, Plante JA, Aguilar P, Plante KS, Popov V, Lee B, Weaver SC, Suthar MS, Routh AL, Ren P, Ku Z, An Z, Debbink K, Diamond MS, Shi PY, Freiberg AN, Menachery VD. Loss of furin cleavage site attenuates SARS-CoV-2 pathogenesis. Nature 2021;591:293-9. [PMID: 33494095 DOI: 10.1038/s41586-021-03237-4] [Cited by in Crossref: 99] [Cited by in F6Publishing: 95] [Article Influence: 99.0] [Reference Citation Analysis]
27 Kollaschinski M, Sobotta J, Schalk A, Frischmuth T, Graf B, Serdjukow S. Efficient DNA Click Reaction Replaces Enzymatic Ligation. Bioconjug Chem 2020;31:507-12. [PMID: 31874033 DOI: 10.1021/acs.bioconjchem.9b00805] [Cited by in Crossref: 2] [Cited by in F6Publishing: 3] [Article Influence: 1.0] [Reference Citation Analysis]
28 Oh S, Jo Y, Jung S, Yoon S, Yoo KH. From genome sequencing to the discovery of potential biomarkers in liver disease. BMB Rep 2020;53:299-310. [DOI: 10.5483/bmbrep.2020.53.6.074] [Cited by in Crossref: 2] [Article Influence: 1.0] [Reference Citation Analysis]
29 Loiseau V, Herniou EA, Moreau Y, Lévêque N, Meignin C, Daeffler L, Federici B, Cordaux R, Gilbert C. Wide spectrum and high frequency of genomic structural variation, including transposable elements, in large double-stranded DNA viruses. Virus Evol 2020;6:vez060. [PMID: 32002191 DOI: 10.1093/ve/vez060] [Cited by in Crossref: 13] [Cited by in F6Publishing: 11] [Article Influence: 6.5] [Reference Citation Analysis]
30 Kautz TF, Jaworski E, Routh A, Forrester NL. A Low Fidelity Virus Shows Increased Recombination during the Removal of an Alphavirus Reporter Gene. Viruses 2020;12:E660. [PMID: 32575413 DOI: 10.3390/v12060660] [Cited by in Crossref: 2] [Cited by in F6Publishing: 1] [Article Influence: 1.0] [Reference Citation Analysis]
31 Zhou Y, Routh A. Mapping RNA-capsid interactions and RNA secondary structure within virus particles using next-generation sequencing. Nucleic Acids Res 2020;48:e12. [PMID: 31799606 DOI: 10.1093/nar/gkz1124] [Cited by in Crossref: 8] [Cited by in F6Publishing: 6] [Article Influence: 4.0] [Reference Citation Analysis]
32 Rezelj VV, Levi LI, Vignuzzi M. The defective component of viral populations. Curr Opin Virol 2018;33:74-80. [PMID: 30099321 DOI: 10.1016/j.coviro.2018.07.014] [Cited by in Crossref: 53] [Cited by in F6Publishing: 39] [Article Influence: 13.3] [Reference Citation Analysis]
33 Kapustina Ž, Medžiūnė J, Alzbutas G, Rokaitis I, Matjošaitis K, Mackevičius G, Žeimytė S, Karpus L, Lubys A. High-resolution microbiome analysis enabled by linking of 16S rRNA gene sequences with adjacent genomic contexts. Microb Genom 2021;7. [PMID: 34473015 DOI: 10.1099/mgen.0.000624] [Reference Citation Analysis]
34 Wang CH, Nie K, Zhang Y, Wang J, Zhou SF, Li XN, Zhou HY, Qi SX, Ma XJ. An Improved Barcoded Oligonucleotide Primers-based Next-generation Sequencing Approach for Direct Identification of Viral Pathogens in Clinical Specimens. Biomed Environ Sci 2017;30:22-34. [PMID: 28245896 DOI: 10.3967/bes2017.003] [Cited by in F6Publishing: 4] [Reference Citation Analysis]