Publications

Journal Articles

1. Nisha Puthiyedth, Farshad Zeinalinesaz, Dongdong Hou, Yue Zhang, Wenjun Lin, Yan Yan, Leveraging LASSO-based methodologies for enhanced SNP analysis in plant genomes, Bioinformatics Advances, Volume 5, Issue 1, 2025, vbaf014, https://doi.org/10.1093/bioadv/vbaf014. 

2. Puthiyedth N, Riveros C, Berretta R, Moscato P (2016) Identification of differentially expressed genes through an integrated study of Alzheimer's Disease affected brain regions. PLOS ONE 11(4): e0152342. doi:10.1371/journal.pone.0152342.

3. Puthiyedth N, Riveros C, Berretta R, Moscato P (2015) A New Combinatorial Optimization Approach for Integrated Feature Selection Using Different Datasets: A Prostate Cancer Transcriptomic Study. PLoS ONE 10(6): e0127702. doi: 10.1371/journal.pone.0127702.

Conference Papers

1. N. Puthiyedth, N. Zhang, Z. Wang and Y. Yan, "Performance Comparison of LASSO Variants with Genome-Wide Association Studies (GWAS)," 2021 IEEE International Conference on Bioinformatics and Biomedicine (BIBM), Houston, TX, USA, 2021, pp. 1682-1684, doi:10.1109/BIBM52615.2021.9669510 

2. Anupama C. V, Nisha Puthiyedth and Neenu R, Feature Selection Methods for SNP Analysis, In: 2019 2nd International Conference on Intelligent Computing, Instrumentation and Control Technologies (ICICICT), Kannur,Kerala, India, 2019, pp. 87-93, doi: 10.1109/ICICICT46008.2019.8993273.

Short Papers

1. R. Agarwal, A. Dhruv and N. Puthiyedth, "Machine Learning-Driven SNP Identification: Enhancing Genomic Selection in Beef Cattle," in 2024 IEEE International Conference on Bioinformatics and Biomedicine (BIBM), Lisbon, Portugal, 2024, pp. 7029-7031, doi: 10.1109/BIBM62325.2024.10822752.

Posters

1. Nisha Puthiyedth, Jeff Warner and Yan Yan, Data Format Conversion For Big Data Analysis, In The 26th Annual International Conference on Research in Computational Molecular Biology (RECOMB 2022), May 22-25, 2022.

2. Nisha Puthiyedth, Kevin Stanley, Steven Mamet, Steven Siciliano, Michael Horsch, Anthony Kusalik and Matthew Links (2018), Identifying Microbial communities using Genetic Algorithm. In: 3rd Annual P2IRC Symposium, Saskatoon, Canada, October 17- 18, 2018.

3. Nisha Puthiyedth, Kevin Stanley, Steven Mamet, Steven Siciliano, Michael Horsch, Anthony Kusalik and Matthew Links (2018), Identification of Microbial profiles using Genetic Algorithm based feature selection. In: Research Fest, Saskatoon, October 1, 2018.

4. Nisha Puthiyedth, Kevin Stanley, Steven Mamet, Steven Siciliano, Michael Horsch, Anthony Kusalik and Matthew Links (2018), Identifying Microbial communities using Genetic Algorithm. In: Microbiomes underpinning agriculture, Cork, Ireland, October 1-3, 2018.

5. Nisha Puthiyedth, Kevin Stanley, Steven Mamet, Steven Siciliano, Michael Horsch, Anthony Kusalik and Matthew Links (2018), Feature Selection from Microbial Profiles via a Genetic Algorithm. In: CS50, University of Saskatchewan, Canada, Sept.21-23,2018.

6. Nisha Puthiyedth, Kevin Stanley, Steven Mamet, Steven Siciliano, Michael Horsch, Anthony Kusalik and Matthew Links (2018), Feature Selection from Microbial Profiles via a Genetic Algorithm. In: Microbiology Annual Conference, Birmingham, UK, 2018.

7. Puthiyedth N, Riveros C, Berretta R, Moscato P (2016) Identification of differentially expressed genes through an integrated study of Alzheimer's Disease affected brain regions. PLOS ONE 11(4): e0152342. doi:10.1371/journal.pone.0152342.

8. Puthiyedth N, Riveros C, Berretta R, Moscato P (2015) A New Combinatorial Optimization Approach for Integrated Feature Selection Using Different Datasets: A Prostate Cancer Transcriptomic Study. PLoS ONE 10(6): e0127702. doi: 10.1371/journal.pone.0127702.

9. Puthiyedth, N., Riveros, C., Berretta, R. and Moscato, P. (2015), A novel combinatorial optimization approach for feature selection via integration of information from multiple datasets. In: Proceedings of Hunter Cancer Research Alliance Annual Symposium 2015, 27 November 2015, New Lambton Heights, NSW Australia. Asia-Pacific Journal of Clinical Oncology 11(Suppl. 5):15. (S. Ackland & Y.K. Shi, Eds). Wiley.

10. Nisha Puthiyedth, Carlos Riveros, Regina Berretta and Pablo Moscato. Integrated study of Alzheimer's Disease affected brain regions. In CSBio2015, Bangkok, Thailand, 2015.

11. Puthiyedth, N., Riveros, C., Berretta, R. and Moscato, P. (2015), A combinatorial optimization based approach for feature selection and applications to prostate cancer, in: ASMR Satellite Scientific Meeting, Newcastle, NSW, 2 April 2015.

12. Nisha Puthiyedth, Carlos Riveros, Regina Berretta and Pablo Moscato. A Novel Combinatorial Optimisation Approach for feature selection via integration of information from multiple datasets. In BioInfoSummer2014, Monash University, Australia, 2014.