GenSAS Citations

Here are the researchers who have cited GenSAS:

2023

  1. Sumner, J. T., Andrasz, C. L., Johnson, C. A., Wax, S., Anderson, P., Keeling, E. L., & Davidson, J. M. (2023). De novo genome assembly and comparative genomics for the colonial ascidian Botrylloides violaceus. G3: Genes, Genomes, Genetics, 13(10), jkad181.
  2. Ghosh Dasgupta, M., Senthilkumar, S., Muthulakshmi, E., & Balasubramanian, A. (2023). The draft genome reveals early duplication event in Pterocarpus santalinus: an endemic timber species. Planta, 258(2), 27.
  3. Gadagkar, S. R., Baeza, J. A., Buss, K., & Johnson, N. (2023). De-novo whole genome assembly of the orange jewelweed, Impatiens capensis Meerb.(Balsaminaceae) using nanopore long-read sequencing. PeerJ, 11, e16328.
  4. Rahmati-Holasoo, H., Ghalyanchilangeroudi, A., Kafi, Z. Z., Marandi, A., Shokrpoor, S., Imantalab, B., & Mousavi, H. E. (2023). Detection of lymphocystis disease virus (LCDV) from yellowbar angelfish (Pomacanthus maculosus Forsskål, 1775) in Iran: Histopathological and phylogenetic analysis. Aquaculture, 562, 738862. 
    Cited By
  5. Tateo, F., Bononi, M., Castorina, G., Colecchia, S. A., De Benedetti, S., Consonni, G., & Geuna, F. (2023). Whole-genome resequencing-based characterization of a durum wheat landrace showing similarity to ‘Senatore Cappelli’. Plos one, 18(9), e0291430.
  6. Han, H., Jang, Y. J., Oh, Y., Marin, M. V., Huguet-Tapia, J., Peres, N. A., & Lee, S. (2023). Chromosome-Scale Genome Resource for Two Neopestalotiopsis spp. Isolates with Different Virulence in Strawberry (Fragaria× ananassa). PhytoFrontiers, (ja).
  7. Spawton, K. A., Peever, T., & du Toit, L. J. (2023). Genome resource for Stemphylium beticola, one of the causal agents of Stemphylium leaf spot of spinach (Spinacia oleracea). PhytoFrontiers, (ja).
  8. Quade, A., Park, R. F., Stodart, B. J., Ding, Y., Zhang, P., Thang, M., ... & Ash, G. J. (2023). Phenotypic and genotypic diversity of Puccinia sorghi in Eastern Australia: implications for maize breeding programs. PhytoFrontiers™, PHYTOFR-12.
  9. Paguirigan, J. A. G., Kim, J. A., Hur, J. S., & Kim, W. (2023). Identification of a biosynthetic gene cluster for a red pigment cristazarin produced by a lichen-forming fungus Cladonia metacorallifera. Plos one, 18(6), e0287559.
  10. Cheng, F., Dennis, A. B., Osuoha, J. I., Canitz, J., Kirschbaum, F., & Tiedemann, R. (2023). A new genome assembly of an African weakly electric fish (Campylomormyrus compressirostris, Mormyridae) indicates rapid gene family evolution in Osteoglossomorpha. BMC genomics, 24(1), 129.  
    Cited By
  11. Alsubaie, B., Kharabian-Masouleh, A., Furtado, A., Al-Dossary, O., Al-Mssallem, I., & Henry, R. J. (2023). Highly sex specific gene expression in Jojoba. BMC Plant Biology, 23(1), 440. 
    Cited By
  12. Maguvu, T. E., Travadon, R., Cantu, D., & Trouillas, F. P. (2023). Whole genome sequencing and analysis of multiple isolates of Ceratocystis destructans, the causal agent of Ceratocystis canker of almond in California. Scientific Reports, 13(1), 14873.
  13. Moghaddam, S., Lotfollahzadeh, S., Salehi, T. Z., Hassanpour, A., Manesh, H. T., & Tamai, I. A. (2023). Molecular and sequencing study and identification of novel SeM-type in beta-hemolytic streptococci involving the upper respiratory tract in Iran. BMC Veterinary Research, 19(1), 210.
  14. Mongue, A. J., Martin, S. H., Manweiler, R. E., Scullion, H., Koehn, J. L., De Roode, J. C., & Walters, J. R. (2023). Genome sequence of Ophryocystis elektroscirrha, an apicomplexan parasite of monarch butterflies: cryptic diversity and response to host-sequestered plant chemicals. BMC genomics, 24(1), 278. 
    Cited By
  15. He, T., Li, X., Iacovelli, R., Hackl, T., & Haslinger, K. (2023). Genomic and Metabolomic Analysis of the Endophytic Fungus Fusarium sp. VM-40 Isolated from the Medicinal Plant Vinca minor. Journal of Fungi, 9(7), 704.
  16. Cossette, M. L., Stewart, D. T., Haghani, A., Zoller, J. A., Shafer, A. B., & Horvath, S. (2023). Epigenetics and island‐mainland divergence in an insectivorous small mammal. Molecular Ecology, 32(1), 152-166. 
    Cited By
  17. Caliskan, A., Dangwal, S., & Dandekar, T. (2023). Metadata integrity in bioinformatics: Bridging the gap between data and knowledge. Computational and Structural Biotechnology Journal.
  18. Hamese, S., Mugwanda, K., Takundwa, M., Prinsloo, E., & Thimiri Govinda Raj, D. B. (2023). Recent advances in genome annotation and synthetic biology for the development of microbial chassis. Journal of Genetic Engineering and Biotechnology, 21(1), 1-9.
  19. Li, Y., Wei, Z. Z., Sela, H., Govta, L., Klymiuk, V., Roychowdhury, R., ... & Fahima, T. (2023). Dissection of a rapidly evolving wheat resistance gene cluster by long-read genome sequencing accelerated the cloning of Pm69. Plant Communications. 
    Cited By
  20. Mikheenko, A., Saveliev, V., Hirsch, P., & Gurevich, A. (2023). WebQUAST: online evaluation of genome assemblies. Nucleic Acids Research, gkad406. 
    Cited By
  21. Jobe, T. O., Ulloa, M., & Ellis, M. L. (2023). Two de novo genome assemblies from pathogenic Fusarium oxysporum f. sp. vasinfectum race 4 (FOV4) isolates from California. Microbiology Resource Announcements, e00760-23.

2022

  1. Rico, Y., Lorenzana, G. P., Benítez-Pineda, C. A., & Olukolu, B. A. (2022). Development of Genomic Resources in Mexican Bursera (Section: Bullockia: Burseraceae): Genome Assembly, Annotation, and Marker Discovery for Three Copal Species. Genes, 13(10), 1741.
    Cited By
  2. Ogaji, Y. O., Lee, R. C., Sawbridge, T. I., Cocks, B. G., Daetwyler, H. D., & Kaur, S. (2022). De Novo Long-Read Whole-Genome Assemblies and the Comparative Pan-Genome Analysis of Ascochyta Blight Pathogens Affecting Field Pea. Journal of Fungi, 8(8), 884.
    Cited By
  3. Kafi, Z. Z., Najafi, H., Alishahi, M., Rahmati-Holasoo, H., Mouloki, A., & Ghalyanchilangeroudi, A. (2022). Detection and phylogenetic analysis of carp edema virus in common carp (Cyprinus Carpio) in Iran; 2020–2021. Aquaculture, 558, 738381.
    Cited By
  4. Nath, O., Fletcher, S. J., Hayward, A., Shaw, L. M., Masouleh, A. K., Furtado, A., ... & Mitter, N. (2022). A haplotype resolved chromosomal level avocado genome allows analysis of novel avocado genes. Horticulture Research, 9.
    Cited By
  5. Morrissey, K. A., Sampson, J. M., Rivera, M., Bu, L., Hansen, V. L., Gemmell, N. J., ... & Miller, R. D. (2022). Comparison of reptilian genomes reveals deletions associated with the natural loss of γδ T cells in squamates. The Journal of Immunology, 208(8), 1960-1967.
    Cited By
  6. Reddy, B., Mehta, S., Prakash, G., Sheoran, N., & Kumar, A. (2022). Structured framework and genome analysis of Magnaporthe grisea inciting pearl millet blast disease reveals versatile metabolic pathways, protein families, and virulence factors. Journal of Fungi, 8(6), 614.
    Cited By
  7. Widanagama, S. D., Freeland, J. R., Xu, X., & Shafer, A. B. (2022). Genome assembly, annotation, and comparative analysis of the cattail Typha latifolia. G3, 12(2), jkab401.
    Cited By
  8. Volenikova, A., Nguyen, P., Davey, P., Sehadova, H., Kludkiewicz, B., Koutecky, P., ... & Zurovec, M. (2022). Genome sequence and silkomics of the spindle ermine moth, Yponomeuta cagnagella, representing the early diverging lineage of the ditrysian Lepidoptera. Communications Biology, 5(1), 1281.
    Cited By
  9. Peters, S. L., Borges, A. L., Giannone, R. J., Morowitz, M. J., Banfield, J. F., & Hettich, R. L. (2022). Experimental validation that human microbiome phages use alternative genetic coding. Nature Communications, 13(1), 5710.
    Cited By
  10. De Panis, D., Dopazo, H., Bongcam-Rudloff, E., Conesa, A., & Hasson, E. (2022). Transcriptional responses are oriented towards different components of the rearing environment in two Drosophila sibling species. BMC genomics, 23(1), 515.
    Cited By
  11. Mehla, S., Kumar, U., Kapoor, P., Singh, Y., Sihag, P., Sagwal, V., ... & Dhankher, O. P. (2022). Structural and functional insights into the candidate genes associated with different developmental stages of flag leaf in bread wheat (Triticum aestivum l.). Frontiers in Genetics, 13, 933560.
    Cited By

2021

  1. Dong, Y., Li, C., Kim, K., Cui, L., & Liu, X. (2021). Genome annotation of disease-causing microorganisms. Briefings in Bioinformatics, 22(2), 845-854.
    Cited By
  2. Gallardo-Escárate, C., Valenzuela-Muñoz, V., Nuñez-Acuña, G., Valenzuela-Miranda, D., Gonçalves, A. T., Escobar-Sepulveda, H., ... & Warren, W. (2021). Chromosome-scale genome assembly of the sea louse Caligus rogercresseyi by SMRT sequencing and Hi-C analysis. Scientific data, 8(1), 60.
    Cited By
  3. Weng, Y. M., Francoeur, C. B., Currie, C. R., Kavanaugh, D. H., & Schoville, S. D. (2021). A high‐quality carabid genome assembly provides insights into beetle genome evolution and cold adaptation. Molecular Ecology Resources, 21(6), 2145-2165.
    Cited By
  4. Kim, W., Jeong, M. H., Yun, S. H., & Hur, J. S. (2021). Transcriptome analysis identifies a gene cluster for the biosynthesis of biruloquinone, a rare phenanthraquinone, in a lichen-forming fungus Cladonia macilenta. Journal of Fungi, 7(5), 398.
    Cited By
  5. Patturaj, M., Munusamy, A., Kannan, N., Kandasamy, U., & Ramasamy, Y. (2021). Chromosome-specific polymorphic SSR markers in tropical eucalypt species using low coverage whole genome sequences: systematic characterization and validation. Genomics & Informatics, 19(3).
    Cited By
  6. Barrera-Redondo, J., Sanchez-de La Vega, G., Aguirre-Liguori, J. A., Castellanos-Morales, G., Gutiérrez-Guerrero, Y. T., Aguirre-Dugua, X., ... & Eguiarte, L. E. (2021). The domestication of Cucurbita argyrosperma as revealed by the genome of its wild relative. Horticulture research, 8.
    Cited By
  7. Polonio, Á., Díaz-Martínez, L., Fernández-Ortuño, D., de Vicente, A., Romero, D., López-Ruiz, F. J., & Pérez-García, A. (2021). A hybrid genome assembly resource for Podosphaera xanthii, the main causal agent of powdery mildew disease in cucurbits. Molecular Plant-Microbe Interactions, 34(3), 319-324.
    Cited By
  8. Saud, Z., Hitchings, M. D., & Butt, T. M. (2021). Nanopore sequencing and de novo assembly of a misidentified camelpox vaccine reveals putative epigenetic modifications and alternate protein signal peptides. Scientific Reports, 11(1), 17758.
    Cited By
  9. Reddy, B., Kumar, A., Mehta, S., Sheoran, N., Chinnusamy, V., & Prakash, G. (2021). Hybrid de novo genome-reassembly reveals new insights on pathways and pathogenicity determinants in rice blast pathogen Magnaporthe oryzae RMg_Dl. Scientific Reports, 11(1), 22922.
    Cited By
  10. Saud, Z., Kortsinoglou, A. M., Kouvelis, V. N., & Butt, T. M. (2021). Telomere length de novo assembly of all 7 chromosomes and mitogenome sequencing of the model entomopathogenic fungus, Metarhizium brunneum, by means of a novel assembly pipeline. BMC genomics, 22(1), 1-15.
    Cited By
  11. Callahan, A. M., Zhebentyayeva, T. N., Humann, J. L., Saski, C. A., Galimba, K. D., Georgi, L. L., ... & Dardick, C. D. (2021). Defining the ‘HoneySweet’insertion event utilizing NextGen sequencing and a de novo genome assembly of plum (Prunus domestica). Horticulture research, 8.
    Cited By
  12. Phan, I. Q., Rice, C. A., Craig, J., Noorai, R. E., McDonald, J. R., Subramanian, S., ... & Myler, P. J. (2021). The transcriptome of Balamuthia mandrillaris trophozoites for structure-guided drug design. Scientific Reports, 11(1), 21664.
    Cited By
  13. Navarro-Escalante, L., Hernandez-Hernandez, E. M., Nuñez, J., Acevedo, F. E., Berrio, A., Constantino, L. M., ... & Benavides, P. (2021). A coffee berry borer (Hypothenemus hampei) genome assembly reveals a reduced chemosensory receptor gene repertoire and male-specific genome sequences. Scientific reports, 11(1), 4900.
    Cited By
  14. Fernández, L., Olanda, R., Pérez, M., & Orduña, J. M. (2021). A Web-Based Tool for Automatic Detection and Visualization of DNA Differentially Methylated Regions. Electronics, 10(9), 1083.
    Cited By
  15. Vlasova, A., Hermoso Pulido, T., Camara, F., Ponomarenko, J., & Guigó, R. (2021). FA-Nf: A functional annotation pipeline for proteins from non-model organisms implemented in nextflow. Genes, 12(10), 1645.
    Cited By
  16. Wu, K., Cheng, Z. H., Williams, E., Turner, N. T., Ran, D., Li, H., ... & Long, H. (2021). Unexpected discovery of hypermutator phenotype sounds the alarm for quality control strains. Genome biology and evolution, 13(8), evab148.
    Cited By
  17. Huang, Q., Wu, Z. H., Li, W. F., Guo, R., Xu, J. S., Dang, X. Q., ... & Evans, J. D. (2021). Genome and evolutionary analysis of Nosema ceranae: A microsporidian parasite of honey bees. Frontiers in Microbiology, 12, 645353.
    Cited By

2020

  1. Ejigu, G. F., & Jung, J. (2020). Review on the computational genome annotation of sequences obtained by next-generation sequencing. Biology, 9(9), 295.
    Cited By
  2. Braich, S., Baillie, R. C., Spangenberg, G. C., & Cogan, N. O. (2020). A new and improved genome sequence of Cannabis sativa. Gigabyte, 2020.
    Cited By
  3. Montgomery, J. S., Giacomini, D., Waithaka, B., Lanz, C., Murphy, B. P., Campe, R., ... & Tranel, P. J. (2020). Draft Genomes of Amaranthus tuberculatus, Amaranthus hybridus, and Amaranthus palmeri. Genome biology and evolution, 12(11), 1988-1993.
    Cited By
  4. Gañán, L., White III, R. A., Friesen, M. L., Peever, T. L., & Amiri, A. (2020). A genome resource for the apple powdery mildew pathogen Podosphaera leucotricha. Phytopathology®, 110(11), 1756-1758.
    Cited By
  5. Pérez-Cobas, A. E., Gomez-Valero, L., & Buchrieser, C. (2020). Metagenomic approaches in microbial ecology: an update on whole-genome and marker gene sequencing analyses. Microbial genomics, 6(8).
    Cited By
  6. Jeffress, S., Arun-Chinnappa, K., Stodart, B., Vaghefi, N., Tan, Y. P., & Ash, G. (2020). Genome mining of the citrus pathogen Elsinoë fawcettii; prediction and prioritisation of candidate effectors, cell wall degrading enzymes and secondary metabolite gene clusters. PLoS One, 15(5), e0227396.
    Cited By
  7. Sargent, L., Liu, Y., Leung, W., Mortimer, N. T., Lopatto, D., Goecks, J., & Elgin, S. C. (2020). G-OnRamp: Generating genome browsers to facilitate undergraduate-driven collaborative genome annotation. PLoS computational biology, 16(6), e1007863.
    Cited By
  8. Jung, H., Ventura, T., Chung, J. S., Kim, W. J., Nam, B. H., Kong, H. J., ... & Eyun, S. I. (2020). Twelve quick steps for genome assembly and annotation in the classroom. PLoS computational biology, 16(11), e1008325.
    Cited By

2019

  1. Dasgupta, M. G., Ulaganathan, K., Dev, S. A., & Balakrishnan, S. (2019). Draft genome of Santalum album L. provides genomic resources for accelerated trait improvement. Tree Genetics & Genomes, 15, 1-15.
    Cited By
  2. Million, C. R., Wijeratne, S., Cassone, B. J., Lee, S., Rouf Mian, M. A., McHale, L. K., & Dorrance, A. E. (2019). Hybrid genome assembly of a major quantitative disease resistance locus in soybean toward Fusarium graminearum. The Plant Genome, 12(2), 180102.
    Cited By
  3. Bodinaku, I., Shaffer, J., Connors, A. B., Steenwyk, J. L., Biango-Daniels, M. N., Kastman, E. K., ... & Wolfe, B. E. (2019). Rapid phenotypic and metabolomic domestication of wild Penicillium molds on cheese. MBio, 10(5), 10-1128.
    Cited By
  4. Dunn, N. A., Unni, D. R., Diesh, C., Munoz-Torres, M., Harris, N. L., Yao, E., ... & Lewis, S. E. (2019). Apollo: democratizing genome annotation. PLoS computational biology, 15(2), e1006790.
    Cited By
  5. Weitemier, K., Straub, S. C., Fishbein, M., Bailey, C. D., Cronn, R. C., & Liston, A. (2019). A draft genome and transcriptome of common milkweed (Asclepias syriaca) as resources for evolutionary, ecological, and molecular studies in milkweeds and Apocynaceae. PeerJ, 7, e7649.
    Cited By
  6. Patterson, E. L., Saski, C., Küpper, A., Beffa, R., & Gaines, T. A. (2019). Omics potential in herbicide-resistant weed management. Plants, 8(12), 607.
    Cited By
  7. Udall, J. A., Long, E., Ramaraj, T., Conover, J. L., Yuan, D., Grover, C. E., ... & Wendel, J. F. (2019). The genome sequence of Gossypioides kirkii illustrates a descending dysploidy in plants. Frontiers in plant science, 10, 1541.
    Cited By

2018

  1. Stamps, B. W., Andrade, O. C., Lyon, W. J., Floyd, J. G., Nunn, H. S., Bojanowski, C. L., ... & Stevenson, B. S. (2018). Genome sequence of a Byssochlamys sp. strain isolated from fouled B20 biodiesel. Genome announcements, 6(9), 10-1128.
    Cited By
  2. Long, E., Evans, C., Chaston, J., & Udall, J. A. (2018). Genomic structural variations within five continental populations of Drosophila melanogaster. G3: Genes, Genomes, Genetics, 8(10), 3247-3253.
    Cited By
  3. Gaire, R., & Wilde, H. D. (2018). Natural allelic variation in blueberry TERMINAL FLOWER 1. Plant Genetic Resources, 16(1), 59-67.
    Cited By

2017

  1. Burrows, B. A., & McCubbin, A. G. (2017). Sequencing the genomic regions flanking S-linked PvGLO sequences confirms the presence of two GLO loci, one of which lies adjacent to the style-length determinant gene CYP734A50. Plant reproduction, 30, 53-67.
    Cited By
  2. Kahodariya, J. H., Gajera, H. P., Golakiya, B. A., Kothari, V. V., Kheni, J. V., Sanghani, J. M., ... & Garaniya, N. H. (2017). Study of orthologous gene clusters among Aspergillus species. Bull. Env. Pharmacol. Life Sci, 6, 115-118.

2016

  1. Buels, R., Yao, E., Diesh, C. M., Hayes, R. D., Munoz-Torres, M., Helt, G., ... & Holmes, I. H. (2016). JBrowse: a dynamic web platform for genome visualization and analysis. Genome biology, 17(1), 1-12.
    Cited By

2015

  1. Yu, J., & Main, D. (2015). Role of bioinformatic tools and databases in cotton research. Cotton, 57, 303-337.
    Cited By

2014

  1. Jung, S., & Main, D. (2014). Genomics and bioinformatics resources for translational science in Rosaceae. Plant biotechnology reports, 8, 49-64.
    Cited By

2012

  1. Wegrzyn, J. L., Main, D., Figueroa, B., Choi, M., Yu, J., Neale, D. B., ... & Abbott, A. G. (2012). Uniform standards for genome databases in forest and fruit trees. Tree genetics & genomes, 8, 549-557.
    Cited By

2011

  1. Lee, T., Peace, C., Jung, S., Zheng, P., Main, D., & Cho, I. (2011, October). GenSAS—An online integrated genome sequence annotation pipeline. In 2011 4th International Conference on Biomedical Engineering and Informatics (BMEI) (Vol. 4, pp. 1967-1973). IEEE.
    Cited By
  2. Lee, T., Cho, I., Peace, C., Jung, S., Zheng, P., & Main, D. (2011). Development Approach and Architecture of GenSAS: the Genome Sequence Annotation Server. In Proceedings of the International Conference on Bioinformatics & Computational Biology (BIOCOMP) (p. 1). The Steering Committee of The World Congress in Computer Science, Computer Engineering and Applied Computing (WorldComp).