GOPhage: protein function annotation for bacteriophages by integrating the genomic context.

Yanni Sun City University of Hong Kong, Department of Electrical Engineering Michigan State University, East Lansing, MI, USA https://orcid.org/0000-0003-1373-8023 https://www.wikidata.org/entity/Q63368381

Jiaojiao Guan Yongxin Ji Cheng Peng 0020 Wei Zou Xubo Tang Jiayu Shang Yanni Sun GOPhage: protein function annotation for bacteriophages by integrating the genomic context. 2025 January 26 Briefings Bioinform. 1 https://doi.org/10.1093/bib/bbaf014 db/journals/bib/bib26.html#GuanJPZTSS24 streams/journals/bib

Xue Liu Jianbin Kong Yongtao Shan Ziyue Yang Jiafan Miao Yuanfei Pan Tianyang Luo Zhiyuan Shi Yingmei Wang Qinyu Gou Chunhui Yang Hanzong Li Chunmei Li Shaochuan Li Xu Zhang Yanni Sun Edward C. Holmes Deyin Guo Mang Shi SegFinder: an automated tool for identifying complete RNA virus genome segments through co-occurrence in multiple sequenced samples. 2025 July 26 Briefings Bioinform. 4 https://doi.org/10.1093/bib/bbaf358 db/journals/bib/bib26.html#LiuKSYMPLSWGYLLLZSHGS25 streams/journals/bib

Jiayu Shang Cheng Peng 0020 Jiaojiao Guan Dehan Cai Donglin Wang Yanni Sun From genomic signals to prediction tools: a critical feature analysis and rigorous benchmark for phage-host prediction. 2025 26 Briefings Bioinform. 5 https://doi.org/10.1093/bib/bbaf626 db/journals/bib/bib26.html#ShangPGCWS25 streams/journals/bib

Xiling Luo Le Ou-Yang Yang Shen Yanni Sun Jiayu Shang Reinforcement learning-guided sample selection for improved identification of phage receptor binding proteins. 2025 30- 26 Briefings Bioinform. Supplement_1 https://doi.org/10.1093/bib/bbaf631.045 db/journals/bib/bib26.html#LuoOSSS25 streams/journals/bib

Wei Zou Yongxin Ji Jiaojiao Guan Yanni Sun MOSTPLAS: a self-correction multi-label learning model for plasmid host range prediction. 2025 41 Bioinform. 3 https://doi.org/10.1093/bioinformatics/btaf075 db/journals/bioinformatics/bioinformatics41.html#ZouJGS25

Fuchuan Qu Cheng Peng 0020 Jiaojiao Guan Donglin Wang Yanni Sun Jiayu Shang GiantHunter: accurate detection of giant virus in metagenomic data using reinforcement-learning and Monte Carlo tree search. i30-i39 2025 41 Bioinform. Supplement_1 https://doi.org/10.1093/bioinformatics/btaf239 db/journals/bioinformatics/bioinformatics41.html#Qu0GWSS25

Xiangyu Dong 0002 Xingyi Zhang 0003 Yanni Sun Lei Chen 0031 Mingxuan Yuan Sibo Wang 0001 SmoothGNN: Smoothing-aware GNN for Unsupervised Node Anomaly Detection. 1225-1236 2025 WWW https://doi.org/10.1145/3696410.3714615 conf/www/2025 db/conf/www/www2025.html#00020SCY025

Runzhou Yu Ziyi Huang Theo Y. C. Lam Yanni Sun Utilizing profile hidden Markov model databases for discovering viruses from metagenomic data: a comprehensive review. 2024 July 25 Briefings Bioinform. 4 https://doi.org/10.1093/bib/bbae292 db/journals/bib/bib25.html#YuHLS24 streams/journals/bib

Jiayu Shang Cheng Peng 0020 Yongxin Ji Jiaojiao Guan Dehan Cai Xubo Tang Yanni Sun Accurate and efficient protein embedding using multi-teacher distillation learning. 2024 40 Bioinform. 9 https://doi.org/10.1093/bioinformatics/btae567 db/journals/bioinformatics/bioinformatics40.html#Shang0JGCTS24

Yilin Zhu Guowei Chen Yanni Sun VirTAXA: enhancing RNA virus taxonomic classification with remote homology search and tree-based validation. 2024 40 Bioinform. 10 https://doi.org/10.1093/bioinformatics/btae575 db/journals/bioinformatics/bioinformatics40.html#ZhuCS24

Cheng Peng 0020 Jiayu Shang Jiaojiao Guan Donglin Wang Yanni Sun ViraLM: empowering virus discovery through the genome foundation model. 2024 40 Bioinform. 12 https://doi.org/10.1093/bioinformatics/btae704 db/journals/bioinformatics/bioinformatics40.html#0020SGWS24

Ziyi Huang Dehan Cai Yanni Sun Towards more accurate microbial source tracking via non-negative matrix factorization (NMF). i68-i78 2024 40 Bioinform. Supplement_1 https://doi.org/10.1093/bioinformatics/btae227 db/journals/bioinformatics/bioinformatics40.html#HuangCS24

Xiangyu Dong 0002 Xingyi Zhang 0003 Yanni Sun Lei Chen 0031 Mingxuan Yuan Sibo Wang 0001 SmoothGNN: Smoothing-based GNN for Unsupervised Node Anomaly Detection. 2024 abs/2405.17525 CoRR https://doi.org/10.48550/arXiv.2405.17525 db/journals/corr/corr2405.html#abs-2405-17525

Jiaojiao Guan Yongxin Ji Cheng Peng 0020 Wei Zou Xubo Tang Jiayu Shang Yanni Sun PhaGO: Protein function annotation for bacteriophages by integrating the genomic context. 2024 abs/2408.06402 CoRR https://doi.org/10.48550/arXiv.2408.06402 db/journals/corr/corr2408.html#abs-2408-06402 streams/journals/corr

Jingzhe Jiang Wen-Guang Yuan Jiayu Shang Ying-Hui Shi Li-Ling Yang Min Liu Peng Zhu Tao Jin Yanni Sun Li-Hong Yuan Virus classification for viral genomic fragments using PhaGCN2. 2023 January 24 Briefings Bioinform. 1 https://doi.org/10.1093/bib/bbac505 db/journals/bib/bib24.html#JiangYSSYLZJSY23

Jiayu Shang Xubo Tang Yanni Sun PhaTYP: predicting the lifestyle for bacteriophages using BERT. 2023 January 24 Briefings Bioinform. 1 https://doi.org/10.1093/bib/bbac487 db/journals/bib/bib24.html#ShangTS23

Runzhou Yu Syed Muhammad Umer Abdullah Yanni Sun HMMPolish: a coding region polishing tool for TGS-sequenced RNA viruses. 2023 September 24 Briefings Bioinform. 5 https://doi.org/10.1093/bib/bbad264 db/journals/bib/bib24.html#YuAS23

Jiaojiao Guan Cheng Peng 0020 Jiayu Shang Xubo Tang Yanni Sun PhaGenus: genus-level classification of bacteriophages using a Transformer model. 2023 September 24 Briefings Bioinform. 6 https://doi.org/10.1093/bib/bbad408 db/journals/bib/bib24.html#GuanPSTS23 streams/journals/bib

Runzhou Yu Dehan Cai Yanni Sun AccuVIR: an ACCUrate VIRal genome assembly tool for third-generation sequencing data. 2023 January 39 Bioinform. 1 https://doi.org/10.1093/bioinformatics/btac827 db/journals/bioinformatics/bioinformatics39.html#YuCS23

Guowei Chen Xubo Tang Mang Shi Yanni Sun VirBot: an RNA viral contig detector for metagenomic data. 2023 March 39 Bioinform. 3 https://doi.org/10.1093/bioinformatics/btad093 db/journals/bioinformatics/bioinformatics39.html#ChenTSS23

Yongxin Ji Jiayu Shang Xubo Tang Yanni Sun HOTSPOT: hierarchical host prediction for assembled plasmid contigs with transformer. 2023 May 39 Bioinform. 5 https://doi.org/10.1093/bioinformatics/btad283 db/journals/bioinformatics/bioinformatics39.html#JiSTS23

Herui Liao Jiayu Shang Yanni Sun GDmicro: classifying host disease status with GCN and deep adaptation network based on the human gut microbiome data. 2023 December 39 Bioinform. 12 https://doi.org/10.1093/bioinformatics/btad747 db/journals/bioinformatics/bioinformatics39.html#LiaoSS23

Jiayu Shang Cheng Peng 0020 Xubo Tang Yanni Sun PhaVIP: Phage VIrion Protein classification based on chaos game representation and Vision Transformer. 30-39 2023 39 Bioinform. Supplement-1 https://doi.org/10.1093/bioinformatics/btad229 db/journals/bioinformatics/bioinformatics39.html#ShangPTS23

Yanni Sun Baohua Yu Research on the Method Matching of Manufacturing Service Resources in a Cloud Manufacturing Environment. 398-407 2023 ICCAI https://doi.org/10.1145/3594315.3594348 conf/iccai/2023 db/conf/iccai/iccai2023.html#SunY23

Xubo Tang Jiayu Shang Yanni Sun RdRp-based sensitive taxonomic classification of RNA viruses for metagenomic data. 2022 23 Briefings Bioinform. 2 https://doi.org/10.1093/bib/bbac011 db/journals/bib/bib23.html#TangSS22

Jiayu Shang Xubo Tang Ruocheng Guo Yanni Sun Accurate identification of bacteriophages from metagenomic data using Transformer. 2022 23 Briefings Bioinform. 4 https://doi.org/10.1093/bib/bbac258 db/journals/bib/bib23.html#ShangTGS22

Jiayu Shang Yanni Sun CHERRY: a Computational metHod for accuratE pRediction of virus-pRokarYotic interactions using a graph encoder-decoder model. 2022 23 Briefings Bioinform. 5 https://doi.org/10.1093/bib/bbac182 db/journals/bib/bib23.html#ShangS22

Dehan Cai Yanni Sun Reconstructing viral haplotypes using long reads. 2127-2134 2022 38 Bioinform. 8 https://doi.org/10.1093/bioinformatics/btac089 db/journals/bioinformatics/bioinformatics38.html#CaiS22

Dehan Cai Jiayu Shang Yanni Sun HaploDMF: viral haplotype reconstruction from long reads via deep matrix factorization. 5360-5367 2022 December 38 Bioinform. 24 https://doi.org/10.1093/bioinformatics/btac708 db/journals/bioinformatics/bioinformatics38.html#CaiSS22

Jiayu Shang Yanni Sun CHERRY: a Computational metHod for accuratE pRediction of virus-pRokarYotic interactions using a graph encoder-decoder model. 2022 abs/2201.01018 CoRR https://arxiv.org/abs/2201.01018 db/journals/corr/corr2201.html#abs-2201-01018

Jiayu Shang Jingzhe Jiang Yanni Sun Bacteriophage classification for assembled contigs using graph convolutional network. 25-33 2021 37 Bioinform. Supplement https://doi.org/10.1093/bioinformatics/btab293 db/journals/bioinformatics/bioinformatics37.html#ShangJS21

Jiayu Shang Jingzhe Jiang Yanni Sun Bacteriophage classification for assembled contigs using Graph Convolutional Network. 2021 abs/2102.03746 CoRR https://arxiv.org/abs/2102.03746 db/journals/corr/corr2102.html#abs-2102-03746

Jiayu Shang Yanni Sun Detecting the hosts of bacteriophages using GCN-based semi-supervised learning. 2021 abs/2105.13570 CoRR https://arxiv.org/abs/2105.13570 db/journals/corr/corr2105.html#abs-2105-13570

Ruixuan Huang William C. Cho Yanni Sun Kei Hang Katie Chan The Lung Cancer Associated MicroRNAs and Single Nucleotides Polymorphisms: a Mendelian Randomization Analysis. 2346-2352 2020 EMBC https://doi.org/10.1109/EMBC44109.2020.9176344 https://www.wikidata.org/entity/Q100447836 conf/embc/2020 db/conf/embc/embc2020.html#HuangCSC20

Nan Du 0003 Jiayu Shang Yanni Sun ProDOMA: improve PROtein DOMAin classification for third-generation sequencing reads using deep learning. 2020 abs/2009.12591 CoRR https://arxiv.org/abs/2009.12591 db/journals/corr/corr2009.html#abs-2009-12591

Jiao Chen 0002 Jiating Huang Yanni Sun TAR-VIR: a pipeline for TARgeted VIRal strain reconstruction from metagenomic data. 305:1-305:14 2019 20 BMC Bioinform. 1 https://doi.org/10.1186/s12859-019-2878-2 https://www.wikidata.org/entity/Q92522064 db/journals/bmcbi/bmcbi20.html#ChenHS19

Jiao Chen 0002 Jiayu Shang Jianrong Wang Yanni Sun A binning tool to reconstruct viral haplotypes from assembled contigs. 544:1-544:13 2019 20 BMC Bioinform. 1 https://doi.org/10.1186/s12859-019-3138-1 https://www.wikidata.org/entity/Q91101477 db/journals/bmcbi/bmcbi20.html#ChenSWS19

Prapaporn Techa-angkoon Kevin L. Childs Yanni Sun GPRED-GC: a Gene PREDiction model accounting for 5 <sup>′</sup>- 3<sup>′</sup> GC gradient. 482 2019 20-S BMC Bioinform. 15 https://doi.org/10.1186/s12859-019-3047-3 https://www.wikidata.org/entity/Q92236949 db/journals/bmcbi/bmcbi20S.html#Techa-angkoonCS19

Xubo Tang Yanni Sun Fast and accurate microRNA search using CNN. 646 2019 20-S BMC Bioinform. 23 https://doi.org/10.1186/s12859-019-3279-2 https://www.wikidata.org/entity/Q92283036 db/journals/bmcbi/bmcbi20S.html#TangS19

Nan Du 0003 Jiao Chen 0002 Yanni Sun Improving the sensitivity of long read overlap detection using grouped short k-mer matches. 2019 20 BMC Genom. S2 https://doi.org/10.1186/s12864-019-5475-x https://www.wikidata.org/entity/Q64075233 db/journals/bmcgenomics/bmcgenomics20S.html#DuCS19

Jiao Chen 0002 Yingchao Zhao 0001 Yanni Sun De novo haplotype reconstruction in viral quasispecies using paired-end read guided path finding. 2927-2935 2018 34 Bioinform. 17 https://doi.org/10.1093/bioinformatics/bty202 https://www.wikidata.org/entity/Q53832601 db/journals/bioinformatics/bioinformatics34.html#ChenZS18

Prapaporn Techa-angkoon Yanni Sun Jikai Lei A sensitive short read homology search tool for paired-end read sequencing data. 77-89 2017 18 BMC Bioinform. S-12 https://doi.org/10.1186/s12859-017-1826-2 https://www.wikidata.org/entity/Q42628174 db/journals/bmcbi/bmcbi18S.html#Techa-angkoonSL17

Jiao Chen 0002 Dongxiao Zhu Yanni Sun Cap-seq reveals complicated miRNA transcriptional mechanisms in C. elegans and mouse. 352-367 2017 5 Quant. Biol. 4 https://doi.org/10.1007/s40484-017-0123-4 db/journals/quanbio/quanbio5.html#ChenZS17

Jikai Lei Yanni Sun Assemble CRISPRs from metagenomic sequencing data. 520-528 2016 32 Bioinform. 17 https://doi.org/10.1093/bioinformatics/btw456 https://www.wikidata.org/entity/Q31126291 db/journals/bioinformatics/bioinformatics32.html#LeiS16

Nan Du 0003 Yanni Sun Improve homology search sensitivity of PacBio data by correcting frameshifts. 529-537 2016 32 Bioinform. 17 https://doi.org/10.1093/bioinformatics/btw458 https://www.wikidata.org/entity/Q31126294 db/journals/bioinformatics/bioinformatics32.html#DuS16

Yanni Sun Xinhua Chen Application and Realization of Improved Apriori Algorism in Hadoop Simulation Platform for Mass Data Process. 16-19 2016 12 Int. J. Online Eng. 2 https://doi.org/10.3991/ijoe.v12i02.5037 db/journals/ijoe/ijoe12.html#SunC16

Xinhua Chen Yanni Sun Computer Network Simulation Modeling Based on Object Oriented Petri Net. 25-28 2016 12 Int. J. Online Eng. 2 https://doi.org/10.3991/ijoe.v12i02.5039 db/journals/ijoe/ijoe12.html#ChenS16

Cheng Yuan 0001 Jikai Lei James R. Cole Yanni Sun Reconstructing 16S rRNA genes in metagenomic data. 35-43 2015 31 Bioinform. 12 https://doi.org/10.1093/bioinformatics/btv231 https://www.wikidata.org/entity/Q30971304 db/journals/bioinformatics/bioinformatics31.html#YuanLCS15

Rujira Achawanantakun Jiao Chen 0002 Yanni Sun Yuan Zhang LncRNA-ID: Long non-coding RNA IDentification using balanced random forests. 3897-3905 2015 31 Bioinform. 24 https://doi.org/10.1093/bioinformatics/btv480 https://www.wikidata.org/entity/Q40598358 db/journals/bioinformatics/bioinformatics31.html#AchawanantakunC15

Jikai Lei Yanni Sun miR-PREFeR: an accurate, fast and easy-to-use plant miRNA prediction tool using small RNA-Seq data. 2837-2839 2014 30 Bioinform. 19 https://doi.org/10.1093/bioinformatics/btu380 https://www.wikidata.org/entity/Q30831196 db/journals/bioinformatics/bioinformatics30.html#LeiS14

James R. Cole Qiong Wang Jordan A. Fish Benli Chai Donna M. McGarrell Yanni Sun C. Titus Brown Andrea Porras-Alfaro Cheryl R. Kuske James M. Tiedje Ribosomal Database Project: data and tools for high throughput rRNA analysis. 633-642 2014 42 Nucleic Acids Res. Database-Issue https://doi.org/10.1093/nar/gkt1244 https://www.wikidata.org/entity/Q30703827 db/journals/nar/nar42.html#ColeWFCMSBPKT14

Yuan Zhang Yanni Sun James R. Cole A Scalable and Accurate Targeted Gene Assembly Tool (SAT-Assembler) for Next-Generation Sequencing Data. 2014 10 PLoS Comput. Biol. 8 https://doi.org/10.1371/journal.pcbi.1003737 https://www.wikidata.org/entity/Q30842667 db/journals/ploscb/ploscb10.html#ZhangSC14

Yuan Zhang Yanni Sun James R. Cole A Sensitive and Accurate protein domain cLassification Tool (SALT) for short reads. 2103-2111 2013 29 Bioinform. 17 https://doi.org/10.1093/bioinformatics/btt357 https://www.wikidata.org/entity/Q47877187 db/journals/bioinformatics/bioinformatics29.html#ZhangSC13

Rujira Achawanantakun Yanni Sun Shape and secondary structure prediction for ncRNAs including pseudoknots based on linear SVM. S1 2013 14 BMC Bioinform. S-2 https://doi.org/10.1186/1471-2105-14-S2-S1 https://www.wikidata.org/entity/Q28709926 db/journals/bmcbi/bmcbi14S.html#AchawanantakunS13

Cheng Yuan 0001 Yanni Sun Efficient known ncRNA search including pseudoknots. S25 2013 14 BMC Bioinform. S-2 https://doi.org/10.1186/1471-2105-14-S2-S25 https://www.wikidata.org/entity/Q34569815 db/journals/bmcbi/bmcbi14S.html#YuanS13

Jikai Lei Prapaporn Techa-angkoon Yanni Sun Chain-RNA: A Comparative ncRNA Search Tool Based on the Two-Dimensional Chain Algorithm. 274-285 2013 10 IEEE ACM Trans. Comput. Biol. Bioinform. 2 https://doi.org/10.1109/TCBB.2012.137 https://doi.ieeecomputersociety.org/10.1109/TCBB.2012.137 https://dl.acm.org/doi/10.1109/TCBB.2012.137 https://www.wikidata.org/entity/Q43599736 db/journals/tcbb/tcbb10.html#LeiTS13

Prapaporn Techa-angkoon Yanni Sun glu-RNA: aliGn highLy strUctured ncRNAs using only sequence similarity. 508 2013 BCB https://doi.org/10.1145/2506583.2506617 conf/bcb/2013 db/conf/bcb/bcb2013.html#Techa-angkoonS13 Jikai Lei Prapaporn Techa-angkoon Yanni Sun Rujira Achawanantakun ChainKnot: a comparative H-type pseudoknot prediction tool using multiple ab initio folding tools. 535 2013 BCB https://doi.org/10.1145/2506583.2506626 conf/bcb/2013 db/conf/bcb/bcb2013.html#LeiTSA13

Yanni Sun Osama Aljawad Jikai Lei Alex Liu Genome-scale NCRNA homology search using a Hamming distance-based filtration strategy. S12 2012 13 BMC Bioinform. S-3 https://doi.org/10.1186/1471-2105-13-S3-S12 https://www.wikidata.org/entity/Q34247854 db/journals/bmcbi/bmcbi13S.html#SunALL12

Yanni Sun Jeremy Buhler Cheng Yuan 0001 Designing Filters for Fast-Known NcRNA Identification. 774-787 2012 9 IEEE ACM Trans. Comput. Biol. Bioinform. 3 https://doi.org/10.1109/TCBB.2011.149 https://doi.ieeecomputersociety.org/10.1109/TCBB.2011.149 https://dl.acm.org/doi/10.1109/TCBB.2011.149 https://www.wikidata.org/entity/Q48054578 db/journals/tcbb/tcbb9.html#SunBY12

Yuan Zhang Yanni Sun PseudoDomain: identification of processed pseudogenes based on protein domain classification. 178-185 2012 BCB https://doi.org/10.1145/2382936.2382959 conf/bcb/2012 db/conf/bcb/bcb2012.html#ZhangS12 Yuan Zhang Yanni Sun MetaDomain: A Profile HMM-Based Protein Domain Classification Tool for Short Sequences. 271-282 2012 Pacific Symposium on Biocomputing http://psb.stanford.edu/psb-online/proceedings/psb12/zhang-y.pdf conf/psb/2012 db/conf/psb/psb2012.html#ZhangS12

Yuan Zhang Yanni Sun HMM-FRAME: accurate protein domain classification for metagenomic sequences in the presence of frameshift errors. 198 2011 12 BMC Bioinform. https://doi.org/10.1186/1471-2105-12-198 https://www.wikidata.org/entity/Q33910470 db/journals/bmcbi/bmcbi12.html#ZhangS11

Rujira Achawanantakun Yanni Sun Seyedeh Shohreh Takyar Ncrna Consensus Secondary Structure Derivation Using Grammar Strings. 317-337 2011 9 J. Bioinform. Comput. Biol. 2 https://doi.org/10.1142/S0219720011005501 https://www.wikidata.org/entity/Q83980143 db/journals/jbcb/jbcb9.html#AchawanantakunST11

Osama Aljawad Yanni Sun Alex Liu Jikai Lei NcRNA homology search using Hamming distance seeds. 209-217 2011 BCB https://doi.org/10.1145/2147805.2147828 conf/bcb/2011 db/conf/bcb/bcb2011.html#AljawadSLL11 Stuart King Yanni Sun James R. Cole Sakti Pramanik BLAST Tree: Fast Filtering for Genomic Sequence Classification. 58-65 2010 BIBE https://doi.org/10.1109/BIBE.2010.74 https://doi.ieeecomputersociety.org/10.1109/BIBE.2010.74 conf/bibe/2010 db/conf/bibe/bibe2010.html#KingSCP10

Yanni Sun Jeremy Buhler Designing Patterns and Profiles for Faster HMM Search. 232-243 2009 6 IEEE ACM Trans. Comput. Biol. Bioinform. 2 https://doi.org/10.1109/TCBB.2008.14 https://doi.ieeecomputersociety.org/10.1109/TCBB.2008.14 https://dl.acm.org/doi/10.1109/TCBB.2008.14 https://www.wikidata.org/entity/Q45733410 db/journals/tcbb/tcbb6.html#SunB09

Yanni Sun Jeremy Buhler Designing patterns for profile HMM search. 42-43 2007 23 Bioinform. 2 https://doi.org/10.1093/bioinformatics/btl323 https://www.wikidata.org/entity/Q48416991 db/journals/bioinformatics/bioinformatics23.html#SunB07

Yanni Sun Jeremy Buhler Choosing the best heuristic for seeded alignment of DNA sequences. 133 2006 7 BMC Bioinform. https://doi.org/10.1186/1471-2105-7-133 https://www.wikidata.org/entity/Q33236280 db/journals/bmcbi/bmcbi7.html#SunB06

Yanni Sun Jeremy Buhler Designing Multiple Simultaneous Seeds for DNA Similarity Search. 847-861 2005 12 J. Comput. Biol. 6 https://doi.org/10.1089/cmb.2005.12.847 https://www.wikidata.org/entity/Q51369875 db/journals/jcb/jcb12.html#SunB05

Jeremy Buhler Uri Keich Yanni Sun Designing seeds for similarity search in genomic DNA. 342-363 2005 70 J. Comput. Syst. Sci. 3 https://doi.org/10.1016/j.jcss.2004.12.003 db/journals/jcss/jcss70.html#BuhlerKS05

Yanni Sun Jeremy Buhler Designing multiple simultaneous seeds for DNA similarity search. 76-84 2004 conf/recomb/2004 RECOMB https://doi.org/10.1145/974614.974625 db/conf/recomb/recomb2004.html#SunB04 Jeremy Buhler Uri Keich Yanni Sun Designing seeds for similarity search in genomic DNA. 67-75 2003 conf/recomb/2003 RECOMB https://doi.org/10.1145/640075.640083 db/conf/recomb/recomb2003.html#BuhlerKS03 Syed Muhammad Umer Abdullah Rujira Achawanantakun Osama Aljawad C. Titus Brown Jeremy Buhler Dehan Cai Benli Chai Kei Hang Katie Chan Guowei Chen Jiao Chen 0002 Lei Chen 0031 Xinhua Chen Kevin L. Childs William C. Cho James R. Cole Xiangyu Dong 0002 Nan Du 0003 Jordan A. Fish Qinyu Gou Jiaojiao Guan Deyin Guo Ruocheng Guo Edward C. Holmes Jiating Huang Ruixuan Huang Ziyi Huang Yongxin Ji Jingzhe Jiang Tao Jin Uri Keich Stuart King Jianbin Kong Cheryl R. Kuske Theo Y. C. Lam Jikai Lei Chunmei Li Hanzong Li Shaochuan Li Herui Liao Alex Liu Min Liu Xue Liu Tianyang Luo Xiling Luo Donna M. McGarrell Jiafan Miao Le Ou-Yang Yuanfei Pan Cheng Peng 0020 Andrea Porras-Alfaro Sakti Pramanik Fuchuan Qu Yongtao Shan Jiayu Shang Yang Shen Mang Shi Ying-Hui Shi Zhiyuan Shi Seyedeh Shohreh Takyar Xubo Tang Prapaporn Techa-angkoon James M. Tiedje Donglin Wang Jianrong Wang Qiong Wang Sibo Wang 0001 Yingmei Wang Chunhui Yang Li-Ling Yang Ziyue Yang Baohua Yu Runzhou Yu Cheng Yuan 0001 Li-Hong Yuan Mingxuan Yuan Wen-Guang Yuan Xingyi Zhang 0003 Xu Zhang Yuan Zhang Yingchao Zhao 0001 Dongxiao Zhu Peng Zhu Yilin Zhu Wei Zou