Thulani Hewavithana, Chu Shin Koh, Avleen Kaur, Raymond Spiteri, Isobel Parkin, and Lingling Jin. Inference of subgenomes resulting from polyploid events using synteny based dynamic linking and maximum neighbourhood. Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine (BIBM), Dec. 5-8, 2023, Istanbul, Turkey. IEEE, DOI: 10.1109/BIBM58861.2023.10385622
Keyhan Najafian, Lingling Jin, H. Randy Kutcher, Mackenzie Hladun, Samuel Horovatin, Maria Alejandra Oviedo-Ludena, Sheila Maria Pereira de Andrade, Lipu Wang and Ian Stavness. Detection of Fusarium Damaged Kernels in Wheat Using Deep Semi-Supervised Learning on a Novel WheatSeedBelt Dataset. Proceedings of the IEEE/CVF International Conference on Computer Vision (ICCV) Workshops, Oct. 2-6, 2023, Paris, France, pp. 660--669. [PDF]
Moein Hasani, Chantel N. Trost, Nolen Timmerman, Lingling Jin, AcrTransAct: Pre-trained Protein Transformer Models for the Detection of Type I Anti-CRISPR Activities. Proceedings of the 14th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (BCB'23), September 3–6, 2023, Houston, TX, USA. ACM, New York, NY, USA, pages 1-6, DOI: 10.1145/3584371.3613007.
Olukayode O Jegede, Hamzat O Fajana, Adedamola Adedokun, Keyhan Najafian, Lingling Jin, Ian Stavness, and Steven D Siciliano. Integument colour change: Tracking delayed growth of Oppia nitens as a sub-lethal indicator of soil toxicity. Environmental Pollution, Vol. 339:122772 (2023), DOI: 10.1016/j.envpol.2023.122772.
Qiaoji Xu, Lingling Jin, Chunfang Zheng, Xiaomeng Zhang, James H. Leebens-Mack, David Sankoff. From comparative gene content and gene order to ancestral contigs, chromosomes and karyotypes. Scientific Reports, Vol. 13(1):6095, pp. 1-16 (2023), DOI: 10.1038/s41598-023-33029-x.
Shivani Sehrawat, Keyhan Najafian and Lingling Jin. Predicting Phenotypes From Novel Genomic Markers Using Deep Learning. Bioinformatics Advances, Vol. 3(1), pp. 1-10 (2023), DOI: 10.1093/bioadv/vbad028.
Keyhan Najafian, Alireza Ghanbari, Mahdi Sabet Kish, Mark Eramian, Gholam Hassan Shirdel, Ian Stavness, Lingling Jin and Farhad Maleki. Semi-Self-Supervised Learning for Semantic Segmentation in Images with Dense Patterns. Plant Phenomics, (2023), DOI: 10.34133/plantphenomics.0025
Raju Chaudhary, Chu Shin Koh, Sampath Perumal, Lingling Jin, Erin E. Higgins, Sateesh Kagale, Mark A. Smith, Andrew G. Sharpe, Isobel A. P. Parkin. Sequencing of Camelina neglecta, a diploid progenitor of the hexaploid oilseed Camelina sativa. Plant Biotechnology Journal, pp. 1-15 (2022), DOI: 10.1111/pbi.13968.
Andre S. Chanderbali, Lingling Jin, Qiaoji Xu, Yue Zhang, Jingbo Zhang, Shuguang Jian, Emily Carroll, David Sankoff, Victor A. Albert, Dianella G. Howarth, Douglas E. Soltis and Pamela S. Soltis. Buxus and Tetracentron genomes help resolve eudicot genome history. Nature Communications, Vol. 13(1), pp. 1-10 (2022), DOI: 10.1038/s41467-022-28312-w. Featured article in Editors’ Highlights on "Plants and agriculture".
Qiaoji Xu, Xiaomeng Zhang, Yue Zhang, Chunfang Zheng, James H. Leebens-Mack, Lingling Jin and David Sankoff. The monoploid chromosome complement of reconstructedancestral genomes in a phylogeny. Journal of Bioinformatics and Computational Biology. Vol. 19, No. 06, 2140008 (2021), DOI: 10.1142/S0219720021400084.
Keyhan Najafian, Alireza Ghanbari, Ian Stavness, Lingling Jin, Gholam Hassan Shirdel, and Farhad Maleki. A Semi-self-supervised Learning Approach for Wheat Head Detection using Extremely Small Number of Labeled Samples. Proceedings of the IEEE/CVF International Conference on Computer Vision (ICCV) Workshops, 2021, pp. 1342-1351. [PDF]
Qiaoji Xu, Lingling Jin, Yue Zhang, Xiaomeng Zhang, Chunfang Zheng, James H. Leebens-Mack, and David Sankoff. Ancestral flowering plant chromosomes andgene orders based on generalized adjacenciesand chromosomal gene co-occurrences. Journal of Computational Biology. Vol. 28, No. 11, pp. 1156-1179 (2021), DOI: 10.1089/cmb.2021.0340.
Qiaoji Xu, Lingling Jin, James H. Leebens-Mack, David Sankoff. Validation of Automated Chromosome Recovery in the Reconstruction of Ancestral Gene Order. Algorithms, 2021, 14(6), 160, pp. 1-13, DOI: 10.3390/a14060160.
Gabrielle Dagasso, Yan Yan, Lipu Wang, Longhai Li, Randy Kutcher, Wentao Zhang and Lingling Jin. Leveraging machine learning to advance genome-wide association studies. International Journal of Data Mining and Bioinformatics. Vol. 25(1-2), pp. 17-36 (2021), DOI: 10.1504/IJDMB.2021.116881.
Qiaoji Xu, Lingling Jin, Chunfang Zheng, James H. Leebens-Mack, David Sankoff. RACCROCHE: ancestral flowering plant chromosomes and gene orders based on generalized adjacenciesand chromosomal gene co-occurrences. Lecture Notes in Bioinformatics. Vol. 12686, pp. 97-115 (2021), DOI: 10.1007/978-3-030-79290-9_9.
Yue Hao, Makenzie Mabry, Patrick P. Edger, Michael Freeling, Chunfang Zheng, Lingling Jin, Robert VanBuren, Marivi Colle, Hong An, R Shawn Abrahams, Jacob D. Washburn, Xinshuai Qi, Kerrie Barry, Christopher Daum, Shengqiang Shu, Jeremy Schmutz, David Sankoff, Michael S. Barker, Eric Lyons, J. Chris Pires and Gavin C. Conant. The contributions from the progenitor genomes of the mesopolyploid Brassiceae are evolutionarily distinct but functionally compatible. Genome Research. Vol. 31(5), pp. 799-810 (2021), DOI: 10.1101/gr.270033.120.
J. Tomal, S. Rahmati, S. Boroushaki, L. Jin, E. Ahmed. The Impact of COVID-19 on Students’ Marks: A Bayesian Hierarchical Modeling Approach. METRON, 79(1), 57-91 (2021), DOI: 10.1007/s40300-021-00200-1.
G. Dagasso, Y. Yan, L. Wang, L. Li, R. Kutcher, W. Zhang and L. Jin. Comprehensive-GWAS: a pipeline for genome-wide association studies utilizing cross-validation to assess the predictivity of genetic variations. 2020 IEEE International Conference on Bioinformatics and Biomedicine (BIBM), Virtual (pp. 1361-1367). IEEE, DOI: 10.1109/BIBM49941.2020.9313355.
S. Perumal, C. Shin Koh, L. Jin, M. Buchwaldt, E. Higgins, C. Zheng, D. Sankoff, S.J. Robinson, S. Kagale, Z.K. Navabi, L. Tang, K.N. Horner, Z. He, I. Bancroft, B. Chalhoub, A.G. Sharpe & I.A.P. Parkin. A high-contiguity Brassica nigra genome localizes active centromeres and defines the ancestral Brassica genome. Nature Plants. Vol. 6, pp. 929-941 (2020), DOI: 0.1038/s41477-020-0735-y.
Richard Martyn, Clarence Todd and Lingling Jin. Development and Application of a Software Tool/Package for Pan-Genomic Analysis. 2019 IEEE 10th Annual Information Technology, Electronics and Mobile Communication Conference (IEMCON), Vancouver, Canada (pp.1038-1042). IEEE, DOI: 10.1109/IEMCON.2019.8936300.
Bronwen Evans and Lingling Jin. Measuring the evolutionary distances between Brassicaceae species.Undergraduate Research in Natural and Clinical Science and Technology Journal. Vol. 3(9), pp. 1-4. URNCST, DOI: 10.26685/urncst.156.
Last updated: Tue 02 January 2024