| Parallel-META 2.0: enhanced metagenomic data analysis with functional annotation, high performance computing and advanced visualization X Su$, W Pan$, B Song, J Xu, K Ning PloS one 9 (3), e89323, 2014 | 80 | 2014 |
| A complete assembly of the rice Nipponbare reference genome L Shang, W He, T Wang, Y Yang, Q Xu, X Zhao, L Yang, H Zhang, X Li, ... Molecular Plant 16 (8), 1232-1236, 2023 | 22 | 2023 |
| OMGS: optical map-based genome scaffolding W Pan, T Jiang, S Lonardi Research in Computational Molecular Biology: 23rd Annual International …, 2019 | 20 | 2019 |
| Novo&Stitch: accurate reconciliation of genome assemblies via optical maps W Pan, SI Wanamaker, AMV Ah-Fong, HS Judelson, S Lonardi Bioinformatics 34 (13), i43-i51, 2018 | 17 | 2018 |
| Accurate detection of chimeric contigs via Bionano optical maps W Pan, S Lonardi Bioinformatics 35 (10), 1760-1762, 2019 | 16 | 2019 |
| WinHAP2: an extremely fast haplotype phasing program for long genotype sequences W Pan, Y Zhao, Y Xu, F Zhou BMC bioinformatics 15, 1-9, 2014 | 8 | 2014 |
| GFAP: ultrafast and accurate gene functional annotation software for plants D Xu, Y Yang, D Gong, X Chen, K Jin, H Jiang, W Yu, J Li, J Zhang, ... Plant Physiology 193 (3), 1745-1748, 2023 | 6 | 2023 |
| Validating genome-wide CRISPR-Cas9 function in the non-conventional yeast Yarrowia lipolytica C Schwartz, JF Cheng, R Evans, CA Schwartz, JM Wagner, S Anglin, ... BioRxiv, 358630, 2018 | 5 | 2018 |
| Novo&stitch: accurate reconciliation of genome assemblies via optical maps. Bioinformatics 34: i43–i51 W Pan, SI Wanamaker, AMV Ah-Fong, HS Judelson, S Lonardi | 5 | 2018 |
| Improving error-correcting capability in DNA digital storage via soft-decision decoding L Ding, S Wu, Z Hou, A Li, Y Xu, H Feng, W Pan, J Ruan National Science Review 11 (2), nwad229, 2024 | 2 | 2024 |
| Comparison of Hi-C-Based Scaffolding Tools on Plant Genomes Y Hou, L Wang, W Pan Genes 14 (12), 2147, 2023 | 1 | 2023 |
| CIDP: A multi-functional platform for designing CRISPR sgRNAs D Xu, J Zhang, X Zhao, Y Hou, H Jiang, W He, X Ma, W Pan Horticulture Research 10 (7), uhad092, 2023 | 1 | 2023 |
| RAfilter: an algorithm for detecting and filtering false-positive alignments in repetitive genomic regions J Yang, X Zhao, H Jiang, Y Yang, Y Hou, W Pan Horticulture Research 10 (1), uhac288, 2023 | 1 | 2023 |
| Comprehensive Assessment of Eleven de novo HiFi Assemblers on Complex Eukaryotic Genomes and Metagenomes W Yu, H Luo, J Yang, S Zhang, H Jiang, X Zhao, X Hui, D Sun, L Li, X Wei, ... bioRxiv, 2023.06. 29.546998, 2023 | 1 | 2023 |
| RAviz: a visualization tool for detecting false-positive alignments in repetitive genomic regions D Xu, Y Song, X Zhao, D Gong, Y Yang, W Pan Horticulture Research 9, uhac161, 2022 | 1 | 2022 |
| HiCancer: accurate and complete cancer genome phasing with Hi-C reads W Pan, D Gong, D Sun, H Luo Scientific Reports 11 (1), 6609, 2021 | 1 | 2021 |
| ThIEF: Finding genome-wide trajectories of epigenetics marks A Polishko, MA Hasan, W Pan, EM Bunnik, K Le Roch, S Lonardi 17th International Workshop on Algorithms in Bioinformatics (WABI 2017), 2017 | 1 | 2017 |
| MetaObtainer: A Tool for Obtaining Specified Species from Metagenomic Reads of Next-generation Sequencing W Pan, B Chen, Y Xu Interdisciplinary Sciences: Computational Life Sciences 7, 405-413, 2015 | 1 | 2015 |
| Haplotype-resolved assembly of auto-polyploid genomes via combining Hi-C and gametic data X Zhang, D Li, W Pan Scientific Reports 14 (1), 7892, 2024 | | 2024 |
| MCSS: microbial community simulator based on structure X Hui, J Yang, J Sun, F Liu, W Pan Frontiers in Microbiology 15, 1358257, 2024 | | 2024 |
Stefano LonardiProfessor of Computer Science, University of California, RiversideVerified email at cs.ucr.edu
