| RNA genome conservation and secondary structure in SARS-CoV-2 and SARS-related viruses: a first look R Rangan, IN Zheludev, RJ Hagey, EA Pham, HK Wayment-Steele, ... Rna 26 (8), 937-959, 2020 | 287 | 2020 |
| Accelerated cryo-EM-guided determination of three-dimensional RNA-only structures K Kappel, K Zhang, Z Su, AM Watkins, W Kladwang, S Li, G Pintilie, ... Nature methods 17 (7), 699-707, 2020 | 170 | 2020 |
| Cryo-EM and antisense targeting of the 28-kDa frameshift stimulation element from the SARS-CoV-2 RNA genome K Zhang, IN Zheludev, RJ Hagey, R Haslecker, YJ Hou, R Kretsch, ... Nature Structural & Molecular Biology 28 (9), 747-754, 2021 | 122 | 2021 |
| De novo 3D models of SARS-CoV-2 RNA elements from consensus experimental secondary structures R Rangan, AM Watkins, J Chacon, R Kretsch, W Kladwang, IN Zheludev, ... Nucleic acids research 49 (6), 3092-3108, 2021 | 70 | 2021 |
| Hybrids of RNA viruses and viroid-like elements replicate in fungi M Forgia, B Navarro, S Daghino, A Cervera, A Gisel, S Perotto, ... Nature Communications 14 (1), 2591, 2023 | 48 | 2023 |
| Cryo-electron microscopy and exploratory antisense targeting of the 28-kDa frameshift stimulation element from the SARS-CoV-2 RNA genome K Zhang, IN Zheludev, RJ Hagey, MTP Wu, R Haslecker, YJ Hou, ... Biorxiv, 2020.07. 18.209270, 2020 | 42 | 2020 |
| Viroid-like colonists of human microbiomes IN Zheludev, RC Edgar, MJ Lopez-Galiano, M De la Peña, A Babaian, ... BioRxiv, 2024 | 22 | 2024 |
| RNA target highlights in CASP15: Evaluation of predicted models by structure providers RC Kretsch, ES Andersen, JM Bujnicki, W Chiu, R Das, B Luo, ... Proteins: Structure, Function, and Bioinformatics 91 (12), 1600-1615, 2023 | 18 | 2023 |
| De novo 3D models of SARS-CoV-2 RNA elements and small-molecule-binding RNAs to aid drug discovery R Rangan, AM Watkins, J Chacon, W Kladwang, IN Zheludev, J Townley, ... BioRxiv, 2020.04. 14.041962, 2020 | 17 | 2020 |
| SPLASH: a statistical, reference-free genomic algorithm unifies biological discovery K Chaung, TZ Baharav, G Henderson, IN Zheludev, PL Wang, J Salzman Cell 186 (25), 5440-5456. e26, 2023 | 10 | 2023 |
| Exploring the evolutionary history of kinetic stability in the α-Lytic protease family CF Nixon, SA Lim, ZR Sailer, IN Zheludev, CL Gee, BA Kelch, MJ Harms, ... Biochemistry 60 (3), 170-181, 2021 | 8 | 2021 |
| Ribosolve: Rapid determination of three-dimensional RNA-only structures K Kappel, K Zhang, Z Su, W Kladwang, S Li, G Pintilie, VV Topkar, ... BioRxiv, 717801, 2019 | 6 | 2019 |
| Tertiary folds of the SL5 RNA from the 5′ proximal region of SARS-CoV-2 and related coronaviruses RC Kretsch, L Xu, IN Zheludev, X Zhou, R Huang, G Nye, S Li, K Zhang, ... Proceedings of the National Academy of Sciences 121 (10), e2320493121, 2024 | 5 | 2024 |
| Restriction endonuclease-based modification-dependent enrichment (REMoDE) of DNA for metagenomic sequencing SU Enam, JL Cherry, SR Leonard, IN Zheludev, DJ Lipman, AZ Fire Applied and Environmental Microbiology 89 (1), e01670-22, 2023 | 5 | 2023 |
| Extant hybrids of RNA viruses and viroid-like elements M Forgia, B Navarro, S Daghino, A Cervera, A Gisel, S Perotto, ... bioRxiv, 2022.08. 21.504695, 2022 | 4 | 2022 |
| A statistical, reference-free algorithm subsumes myriad problems in genome science and enables novel discovery K Chaung, T Baharav, I Zheludev, J Salzman BioRxiv, 2022.06. 24.497555, 2022 | 4 | 2022 |
| A statistical reference-free algorithm subsumes and generalizes common genomic sequence analysis and uncovers novel biological regulation K Chaung, TZ Baharav, G Henderson, P Wang, IN Zheludev, J Salzman | 3 | 2022 |
| A Statistical Reference-Free Genomic Algorithm Subsumes Common Workflows and Enables Novel Discovery.” bioRxiv: The Preprint Server for Biology, July K Chaung, TZ Baharav, IN Zheludev, J Salzman | 1 | 2022 |
| Systems and Methods to Enhance RNA Transcription and Uses Thereof E Sharma, I Zheludev US Patent App. 18/005,515, 2023 | | 2023 |
