Walter N. Moss, Ph.D. - Publications

Affiliations: 
2011 School of Arts and Sciences University of Rochester, Rochester, NY 
Area:
Bioinformatics Biology, Biochemistry, General Biophysics

73 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
2024 Dhar D, Mehanovic S, Moss W, Miller CL. Sequences at gene segment termini inclusive of untranslated regions and partial open reading frames play a critical role in mammalian orthoreovirus S gene packaging. Plos Pathogens. 20: e1012037. PMID 38394338 DOI: 10.1371/journal.ppat.1012037  0.345
2024 Tompkins VS, Xue Z, Peterson JM, Rouse WB, O'Leary CA, Moss WN. Identification of MYC intron 2 regions that modulate expression. Plos One. 19: e0296889. PMID 38236931 DOI: 10.1371/journal.pone.0296889  0.345
2023 Haltom J, Trovao NS, Guarnieri J, Vincent P, Singh U, Tsoy S, O'Leary CA, Bram Y, Widjaja GA, Cen Z, Meller R, Baylin SB, Moss WN, Nikolau BJ, Enguita FJ, et al. SARS-CoV-2 Orphan Gene ORF10 Contributes to More Severe COVID-19 Disease. Medrxiv : the Preprint Server For Health Sciences. PMID 38076862 DOI: 10.1101/2023.11.27.23298847  0.302
2023 Peterson JM, O'Leary CA, Coppenbarger EC, Tompkins VS, Moss WN. Discovery of RNA secondary structural motifs using sequence-ordered thermodynamic stability and comparative sequence analysis. Methodsx. 11: 102275. PMID 37448951 DOI: 10.1016/j.mex.2023.102275  0.463
2023 Dhar D, Mehanovic S, Moss W, Miller CL. Sequences at gene segment termini inclusive of untranslated regions and partial open reading frames play a critical role in mammalian orthoreovirus S gene packaging. Biorxiv : the Preprint Server For Biology. PMID 37292944 DOI: 10.1101/2023.05.25.542362  0.336
2023 Mirska B, Woźniak T, Lorent D, Ruszkowska A, Peterson JM, Moss WN, Mathews DH, Kierzek R, Kierzek E. In vivo secondary structural analysis of Influenza A virus genomic RNA. Cellular and Molecular Life Sciences : Cmls. 80: 136. PMID 37131079 DOI: 10.1007/s00018-023-04764-1  0.725
2023 Tong Y, Gibaut QMR, Rouse W, Childs-Disney JL, Suresh BM, Abegg D, Choudhary S, Akahori Y, Adibekian A, Moss WN, Disney MD. Correction to "Transcriptome-Wide Mapping of Small-Molecule RNA-Binding Sites in Cells Informs an Isoform-Specific Degrader of mRNA". Journal of the American Chemical Society. PMID 37058601 DOI: 10.1021/jacs.3c02644  0.777
2022 Rouse WB, Gart J, Peysakhova L, Moss WN. Analysis of key genes in reveals conserved RNA structural motifs and regions with apparent pressure to remain unstructured. Frontiers in Tropical Diseases. 3. PMID 37006713 DOI: 10.3389/fitd.2022.1009362  0.446
2022 Andrews RJ, Rouse WB, O'Leary CA, Booher NJ, Moss WN. ScanFold 2.0: a rapid approach for identifying potential structured RNA targets in genomes and transcriptomes. Peerj. 10: e14361. PMID 36389431 DOI: 10.7717/peerj.14361  0.343
2022 O'Leary CA, Van Tompkins S, Rouse WB, Nam G, Moss WN. Thermodynamic and structural characterization of an EBV infected B-cell lymphoma transcriptome. Nar Genomics and Bioinformatics. 4: lqac082. PMID 36285286 DOI: 10.1093/nargab/lqac082  0.434
2022 Rouse WB, O'Leary CA, Booher NJ, Moss WN. Expansion of the RNAStructuromeDB to include secondary structural data spanning the human protein-coding transcriptome. Scientific Reports. 12: 14515. PMID 36008510 DOI: 10.1038/s41598-022-18699-3  0.355
2022 Singh NN, O'Leary CA, Eich T, Moss WN, Singh RN. Structural Context of a Critical Exon of Spinal Muscular Atrophy Gene. Frontiers in Molecular Biosciences. 9: 928581. PMID 35847983 DOI: 10.3389/fmolb.2022.928581  0.347
2022 Tong Y, Gibaut QMR, Rouse W, Childs-Disney JL, Suresh BM, Abegg D, Choudhary S, Akahori Y, Adibekian A, Moss WN, Disney MD. . Journal of the American Chemical Society. 144: 11620-11625. PMID 35737519 DOI: 10.1021/jacs.2c01929  0.788
2022 Szutkowska B, Wieczorek K, Kierzek R, Zmora P, Peterson JM, Moss WN, Mathews DH, Kierzek E. Secondary Structure of Influenza A Virus Genomic Segment 8 RNA Folded in a Cellular Environment. International Journal of Molecular Sciences. 23. PMID 35269600 DOI: 10.3390/ijms23052452  0.743
2022 Soszynska-Jozwiak M, Ruszkowska A, Kierzek R, O'Leary CA, Moss WN, Kierzek E. Secondary Structure of Subgenomic RNA M of SARS-CoV-2. Viruses. 14. PMID 35215915 DOI: 10.3390/v14020322  0.423
2022 Tompkins VS, Rouse WB, O'Leary CA, Andrews RJ, Moss WN. Analyses of human cancer driver genes uncovers evolutionarily conserved RNA structural elements involved in posttranscriptional control. Plos One. 17: e0264025. PMID 35213597 DOI: 10.1371/journal.pone.0264025  0.345
2022 Rouse WB, Andrews RJ, Booher NJ, Wang J, Woodman ME, Dow ER, Jessop TC, Moss WN. Prediction and analysis of functional RNA structures within the integrative genomics viewer. Nar Genomics and Bioinformatics. 4: lqab127. PMID 35047817 DOI: 10.1093/nargab/lqab127  0.468
2022 Peterson JM, O'Leary CA, Moss WN. In silico analysis of local RNA secondary structure in influenza virus A, B and C finds evidence of widespread ordered stability but little evidence of significant covariation. Scientific Reports. 12: 310. PMID 35013354 DOI: 10.1038/s41598-021-03767-x  0.507
2022 Kauffmann AD, Kennedy SD, Moss WN, Kierzek E, Kierzek R, Turner DH. Nuclear Magnetic Resonance reveals a two hairpin equilibrium near the 3'-splice site of Influenza A segment 7 mRNA that can be shifted by oligonucleotides. Rna (New York, N.Y.). PMID 34983822 DOI: 10.1261/rna.078951.121  0.497
2021 Soszynska-Jozwiak M, Pszczola M, Piasecka J, Peterson JM, Moss WN, Taras-Goslinska K, Kierzek R, Kierzek E. Universal and strain specific structure features of segment 8 genomic RNA of influenza A virus - application of 4-thiouridine photocrosslinking. The Journal of Biological Chemistry. 101245. PMID 34688660 DOI: 10.1016/j.jbc.2021.101245  0.548
2021 Dooley SK, Baken EK, Moss WN, Howe A, Young JK. Identification and Evolution of Cas9 tracrRNAs. The Crispr Journal. 4: 438-447. PMID 34152211 DOI: 10.1089/crispr.2020.0093  0.356
2021 Andrews RJ, O'Leary CA, Tompkins VS, Peterson JM, Haniff HS, Williams C, Disney MD, Moss WN. A map of the SARS-CoV-2 RNA structurome. Nar Genomics and Bioinformatics. 3: lqab043. PMID 34046592 DOI: 10.1093/nargab/lqab043  0.68
2021 Michalak P, Piasecka J, Szutkowska B, Kierzek R, Biala E, Moss WN, Kierzek E. Conserved Structural Motifs of Two Distant IAV Subtypes in Genomic Segment 5 RNA. Viruses. 13. PMID 33810157 DOI: 10.3390/v13030525  0.547
2020 Haniff HS, Tong Y, Liu X, Chen JL, Suresh BM, Andrews RJ, Peterson JM, O'Leary CA, Benhamou RI, Moss WN, Disney MD. Targeting the SARS-CoV-2 RNA Genome with Small Molecule Binders and Ribonuclease Targeting Chimera (RIBOTAC) Degraders. Acs Central Science. 6: 1713-1721. PMID 33140033 DOI: 10.1021/acscentsci.0c00984  0.657
2020 Andrews RJ, O'Leary CA, Moss WN. A survey of RNA secondary structural propensity encoded within human herpesvirus genomes: global comparisons and local motifs. Peerj. 8: e9882. PMID 32974099 DOI: 10.7717/Peerj.9882  0.519
2020 Ursu A, Childs-Disney JL, Andrews RJ, O'Leary CA, Meyer SM, Angelbello AJ, Moss WN, Disney MD. Design of small molecules targeting RNA structure from sequence. Chemical Society Reviews. PMID 32935689 DOI: 10.1039/D0Cs00455C  0.79
2020 Andrews RJ, Peterson JM, Haniff HS, Chen J, Williams C, Grefe M, Disney MD, Moss WN. An map of the SARS-CoV-2 RNA Structurome. Biorxiv : the Preprint Server For Biology. PMID 32511381 DOI: 10.1101/2020.04.17.045161  0.694
2020 Pavlovic Djuranovic S, Erath J, Andrews RJ, Bayguinov PO, Chung JJ, Chalker DL, Fitzpatrick JA, Moss WN, Szczesny P, Djuranovic S. translational machinery condones polyadenosine repeats. Elife. 9. PMID 32469313 DOI: 10.7554/Elife.57799  0.359
2020 Moss LI, Tompkins VS, Moss WN. Differential expression analysis comparing EBV uninfected to infected human cell lines identifies induced non-micro small non-coding RNAs. Non-Coding Rna Research. 5: 32-36. PMID 32154466 DOI: 10.1016/J.Ncrna.2020.02.002  0.483
2020 Benhamou RI, Angelbello AJ, Andrews RJ, Wang ET, Moss WN, Disney MD. Structure-Specific Cleavage of an RNA Repeat Expansion with a Dimeric Small Molecule Is Advantageous over Sequence-Specific Recognition by an Oligonucleotide. Acs Chemical Biology. PMID 31927948 DOI: 10.1021/Acschembio.9B00958  0.678
2020 Zhang P, Park HJ, Zhang J, Junn E, Andrews RJ, Velagapudi SP, Abegg D, Vishnu K, Costales MG, Childs-Disney JL, Adibekian A, Moss WN, Mouradian MM, Disney MD. Translation of the intrinsically disordered protein α-synuclein is inhibited by a small molecule targeting its structured mRNA. Proceedings of the National Academy of Sciences of the United States of America. PMID 31900363 DOI: 10.1073/Pnas.1905057117  0.745
2019 Andrews RJ, Moss WN. Mapping the RNA structural landscape of viral genomes. Methods (San Diego, Calif.). PMID 31711930 DOI: 10.1016/J.Ymeth.2019.11.001  0.566
2019 Chen JL, Moss WN, Spencer A, Zhang P, Childs-Disney JL, Disney MD. The RNA encoding the microtubule-associated protein tau has extensive structure that affects its biology. Plos One. 14: e0219210. PMID 31291322 DOI: 10.1371/Journal.Pone.0219210  0.798
2019 O'Leary CA, Andrews RJ, Tompkins VS, Chen JL, Childs-Disney JL, Disney MD, Moss WN. RNA structural analysis of the MYC mRNA reveals conserved motifs that affect gene expression. Plos One. 14: e0213758. PMID 31206539 DOI: 10.1371/Journal.Pone.0213758  0.786
2019 Andrews RJ, Moss WN. Computational approaches for the discovery of splicing regulatory RNA structures. Biochimica Et Biophysica Acta. Gene Regulatory Mechanisms. PMID 31048028 DOI: 10.1016/J.Bbagrm.2019.04.007  0.606
2019 Angelbello AJ, Rzuczek SG, Mckee KK, Chen JL, Olafson H, Cameron MD, Moss WN, Wang ET, Disney MD. Precise small-molecule cleavage of an r(CUG) repeat expansion in a myotonic dystrophy mouse model. Proceedings of the National Academy of Sciences of the United States of America. PMID 30926669 DOI: 10.1073/Pnas.1901484116  0.647
2019 Michalak P, Soszynska-Jozwiak M, Biala E, Moss WN, Kesy J, Szutkowska B, Lenartowicz E, Kierzek R, Kierzek E. Secondary structure of the segment 5 genomic RNA of influenza A virus and its application for designing antisense oligonucleotides. Scientific Reports. 9: 3801. PMID 30846846 DOI: 10.1038/S41598-019-40443-7  0.6
2019 Kumarasinghe N, Moss WN. Analysis of a structured intronic region of the LMP2 pre-mRNA from EBV reveals associations with human regulatory proteins and nuclear actin. Bmc Research Notes. 12: 33. PMID 30658689 DOI: 10.1186/S13104-019-4070-1  0.586
2018 Andrews RJ, Roche J, Moss WN. ScanFold: an approach for genome-wide discovery of local RNA structural elements-applications to Zika virus and HIV. Peerj. 6: e6136. PMID 30627482 DOI: 10.7717/Peerj.6136  0.557
2018 Ungerleider N, Jain V, Wang Y, Maness NJ, Blair RV, Alvarez X, Midkiff C, Kolson D, Bai S, Roberts C, Moss WN, Wang X, Serfecz J, Seddon M, Lehman T, et al. Comparative analysis of gammaherpesvirus circRNA repertoires: conserved and unique viral circRNAs. Journal of Virology. PMID 30567979 DOI: 10.1128/JVI.01952-18  0.395
2018 Moss WN. The ensemble diversity of non-coding RNA structure is lower than random sequence. Non-Coding Rna Research. 3: 100-107. PMID 30175283 DOI: 10.1016/J.Ncrna.2018.04.005  0.547
2018 Ungerleider N, Concha M, Lin Z, Roberts C, Wang X, Cao S, Baddoo M, Moss WN, Yu Y, Seddon M, Lehman T, Tibbetts S, Renne R, Dong Y, Flemington EK. The Epstein Barr virus circRNAome. Plos Pathogens. 14: e1007206. PMID 30080890 DOI: 10.1371/Journal.Ppat.1007206  0.557
2018 Tompkins VS, Valverde DP, Moss WN. Human regulatory proteins associate with non-coding RNAs from the EBV IR1 region. Bmc Research Notes. 11: 139. PMID 29458410 DOI: 10.1186/S13104-018-3250-8  0.541
2017 Andrews RJ, Baber L, Moss WN. RNAStructuromeDB: A genome-wide database for RNA structural inference. Scientific Reports. 7: 17269. PMID 29222504 DOI: 10.1038/S41598-017-17510-Y  0.522
2017 Moss WN. RNA2DMut: A web tool for the design and analysis of RNA structure mutations. Rna (New York, N.Y.). PMID 29183923 DOI: 10.1261/Rna.063933.117  0.562
2017 Soszynska-Jozwiak M, Michalak P, Moss WN, Kierzek R, Kesy J, Kierzek E. Influenza virus segment 5 (+)RNA - secondary structure and new targets for antiviral strategies. Scientific Reports. 7: 15041. PMID 29118447 DOI: 10.1038/S41598-017-15317-5  0.652
2016 Ruszkowska A, Lenartowicz E, Moss WN, Kierzek R, Kierzek E. Secondary structure model of the naked segment 7 influenza A virus genomic RNA. The Biochemical Journal. PMID 27694388 DOI: 10.1042/Bcj20160651  0.611
2016 Pawlica P, Moss WN, Steitz JA. Host miRNA degradation by Herpesvirus saimiri small nuclear RNA requires an unstructured interacting region. Rna (New York, N.Y.). PMID 27335146 DOI: 10.1261/Rna.054817.115  0.378
2016 Lenartowicz E, Kesy J, Ruszkowska A, Soszynska-Jozwiak M, Michalak P, Moss WN, Turner DH, Kierzek R, Kierzek E. Self-Folding of Naked Segment 8 Genomic RNA of Influenza A Virus. Plos One. 11: e0148281. PMID 26848969 DOI: 10.1371/Journal.Pone.0148281  0.647
2016 Steitz JA, Lee N, Moss WN, Yario TA, Vilborg A, Passarelli MC, Tycowski KT. Abstract IA14: Noncoding RNAs of viral and cellular origin: Links to oncogenesis Cancer Research. 76. DOI: 10.1158/1538-7445.Nonrna15-Ia14  0.537
2015 Fang R, Moss WN, Rutenberg-Schoenberg M, Simon MD. Probing Xist RNA Structure in Cells Using Targeted Structure-Seq. Plos Genetics. 11: e1005668. PMID 26646615 DOI: 10.1371/Journal.Pgen.1005668  0.556
2015 Soszynska-Jozwiak M, Michalak P, Moss WN, Kierzek R, Kierzek E. A Conserved Secondary Structural Element in the Coding Region of the Influenza A Virus Nucleoprotein (NP) mRNA Is Important for the Regulation of Viral Proliferation. Plos One. 10: e0141132. PMID 26488402 DOI: 10.1371/Journal.Pone.0141132  0.659
2015 Moss WN, Steitz JA. In silico discovery and modeling of non-coding RNA structure in viruses. Methods (San Diego, Calif.). PMID 26116541 DOI: 10.1016/J.Ymeth.2015.06.015  0.568
2015 Cao S, Moss W, O'Grady T, Concha M, Strong MJ, Wang X, Yu Y, Baddoo M, Zhang K, Fewell C, Lin Z, Dong Y, Flemington EK. New Noncoding Lytic Transcripts Derived from the Epstein-Barr Virus Latency Origin of Replication, oriP, Are Hyperedited, Bind the Paraspeckle Protein, NONO/p54nrb, and Support Viral Lytic Transcription. Journal of Virology. 89: 7120-32. PMID 25926645 DOI: 10.1128/Jvi.00608-15  0.578
2015 Tycowski KT, Guo YE, Lee N, Moss WN, Vallery TK, Xie M, Steitz JA. Viral noncoding RNAs: more surprises. Genes & Development. 29: 567-84. PMID 25792595 DOI: 10.1101/Gad.259077.115  0.503
2015 Lee N, Moss WN, Yario TA, Steitz JA. EBV noncoding RNA binds nascent RNA to drive host PAX5 to viral DNA. Cell. 160: 607-18. PMID 25662012 DOI: 10.1016/J.Cell.2015.01.015  0.557
2015 Cao S, Strong MJ, Wang X, Moss WN, Concha M, Lin Z, O'Grady T, Baddoo M, Fewell C, Renne R, Flemington EK. High-throughput RNA sequencing-based virome analysis of 50 lymphoma cell lines from the Cancer Cell Line Encyclopedia project. Journal of Virology. 89: 713-29. PMID 25355872 DOI: 10.1128/Jvi.02570-14  0.409
2014 Jiang T, Kennedy SD, Moss WN, Kierzek E, Turner DH. Secondary structure of a conserved domain in an intron of influenza A M1 mRNA. Biochemistry. 53: 5236-48. PMID 25026548 DOI: 10.1021/Bi500611J  0.609
2014 Moss WN, Lee N, Pimienta G, Steitz JA. RNA families in Epstein-Barr virus. Rna Biology. 11: 10-7. PMID 24441309 DOI: 10.4161/Rna.27488  0.591
2014 Dela-Moss LI, Moss WN, Turner DH. Identification of conserved RNA secondary structures at influenza B and C splice sites reveals similarities and differences between influenza A, B, and C. Bmc Research Notes. 7: 22. PMID 24405943 DOI: 10.1186/1756-0500-7-22  0.813
2013 Moss WN. Computational prediction of RNA secondary structure. Methods in Enzymology. 530: 3-65. PMID 24034313 DOI: 10.1016/B978-0-12-420037-1.00001-4  0.502
2013 Priore SF, Kierzek E, Kierzek R, Baman JR, Moss WN, Dela-Moss LI, Turner DH. Secondary structure of a conserved domain in the intron of influenza A NS1 mRNA. Plos One. 8: e70615. PMID 24023714 DOI: 10.1371/Journal.Pone.0070615  0.795
2013 Priore SF, Moss WN, Turner DH. Influenza B virus has global ordered RNA structure in (+) and (-) strands but relatively less stable predicted RNA folding free energy than allowed by the encoded protein sequence. Bmc Research Notes. 6: 330. PMID 23958134 DOI: 10.1186/1756-0500-6-330  0.833
2013 Moss WN, Steitz JA. Genome-wide analyses of Epstein-Barr virus reveal conserved RNA structures and a novel stable intronic sequence RNA. Bmc Genomics. 14: 543. PMID 23937650 DOI: 10.1186/1471-2164-14-543  0.584
2012 Moss WN, Dela-Moss LI, Priore SF, Turner DH. The influenza A segment 7 mRNA 3' splice site pseudoknot/hairpin family. Rna Biology. 9: 1305-10. PMID 23064116 DOI: 10.4161/Rna.22343  0.782
2012 Moss WN, Dela-Moss LI, Kierzek E, Kierzek R, Priore SF, Turner DH. The 3' splice site of influenza A segment 7 mRNA can exist in two conformations: a pseudoknot and a hairpin. Plos One. 7: e38323. PMID 22685560 DOI: 10.1371/Journal.Pone.0038323  0.783
2012 Priore SF, Moss WN, Turner DH. Influenza A virus coding regions exhibit host-specific global ordered RNA structure. Plos One. 7: e35989. PMID 22558296 DOI: 10.1371/Journal.Pone.0035989  0.816
2012 Moss WN, Dela-Moss LI, Kierzek E, Kierzek R, Priore SF, Turner DH. Correction: The 3′ Splice Site of Influenza A Segment 7 mRNA Can Exist in Two Conformations: A Pseudoknot and a Hairpin Plos One. 7. DOI: 10.1371/annotation/b3e4a549-7b87-41ac-a9a7-78d2e77ea7a5  0.777
2011 Moss WN, Eickbush DG, Lopez MJ, Eickbush TH, Turner DH. The R2 retrotransposon RNA families. Rna Biology. 8: 714-8. PMID 21734471 DOI: 10.4161/Rna.8.5.16033  0.532
2011 Moss WN, Priore SF, Turner DH. Identification of potential conserved RNA secondary structure throughout influenza A coding regions. Rna (New York, N.Y.). 17: 991-1011. PMID 21536710 DOI: 10.1261/Rna.2619511  0.85
2010 Mathews DH, Moss WN, Turner DH. Folding and finding RNA secondary structure. Cold Spring Harbor Perspectives in Biology. 2: a003665. PMID 20685845 DOI: 10.1101/Cshperspect.A003665  0.704
2009 Kierzek E, Christensen SM, Eickbush TH, Kierzek R, Turner DH, Moss WN. Secondary structures for 5' regions of R2 retrotransposon RNAs reveal a novel conserved pseudoknot and regions that evolve under different constraints. Journal of Molecular Biology. 390: 428-42. PMID 19397915 DOI: 10.1016/J.Jmb.2009.04.048  0.534
2008 Kierzek E, Kierzek R, Moss WN, Christensen SM, Eickbush TH, Turner DH. Isoenergetic penta- and hexanucleotide microarray probing and chemical mapping provide a secondary structure model for an RNA element orchestrating R2 retrotransposon protein function. Nucleic Acids Research. 36: 1770-82. PMID 18252773 DOI: 10.1093/Nar/Gkm1085  0.561
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