Google Scholar
† denotes equal contribution
Preprint / In Progress
9. <span class="font-semibold text-black underline">Abdullah Al Nahid</span>, Linda Serafin, Nicholas Mancuso. " <i>traceax</i>: a JAX-based framework for stochastic trace estimation ", bioRxiv (2025), DOI: 10.1101/2025.07.14.662216 [ PDF ]
Peer Reviewed Publications
8. Md Rihan Kabir Shuvo, Asifur Rob Bhuya, <span>Abdullah Al Nahid</span>, Ajit Ghosh (2025). " Identification, characterization, and expression profiling of catalase gene family in <i>Sorghum bicolor</i> L. ", Plant Gene. DOI: 10.1016/j.plgene.2024.100482 [ PDF ]
7. Asifur Rob Bhuya, Rihan Kabir Shuvo, <span>Abdullah Al Nahid</span>, Ajit Ghosh (2025). " Genome-wide identification, classification, and expression profiling of the aldehyde dehydrogenase gene family in pepper ", Plant Physiology and Biochemistry. DOI: 10.1016/j.plaphy.2024.109413 [ PDF ]
6. William J Hutchison†, Timothy J Keyes†, <span class="font-semibold text-black underline">The Tidyomics Consortium</span>, Helena L Crowell, Charlotte Soneson, Victor Yuan, <span class="font-semibold text-black underline">Abdullah Al Nahid</span>, Wancen Mu, Ji-Eun Park, Eric S Davis, Ming Tang, Pierre-Paul Axisa, JW Kitt, Chi-Lam Poon, Miha Kosmac, Jacques Serizay, Noriaki Sato, Raphael Gottardo, Martin Morgan, Stuart Lee, Michael Lawrence, Stephanie C Hicks, Garry P Nolan, Kara L Davis, Anthony T Papenfuss†, Michael I Love†, Stefano Mangiola† (2024). " The tidyomics ecosystem: Enhancing omic data analyses ", Nature Methods. DOI: 10.1038/s41592-024-02299-2 [ PDF ]
5. Tofazzal Islam, Nadia Afroz, ChuShin Koh, M Nazmul Hoque, Md Jillur Rahman, Dipali Rani Gupta, Nur Uddin Mahmud, <span>Abdullah Al Nahid</span>, Rashedul Islam, Pankaj K Bhowmik, Andrew G Sharpe (2022). " Whole-genome sequencing of a year-round fruiting jackfruit (<i>Artocarpus heterophyllus Lam.</i>) reveals high levels of single nucleotide variation ", Frontiers in Plant Science. DOI: 10.3389/fpls.2022.1044420 [ PDF ]
4. Rajan Saha Raju, <span>Abdullah Al Nahid</span>, Preonath Chondrow Dev, Rashedul Islam (2022). " VirusTaxo: Taxonomic classification of viruses from the genome sequence using k-mer enrichment ", Genomics. DOI: 10.1016/j.ygeno.2022.110414 [ PDF ]
3. <span>Abdullah Al Nahid</span>, Ajit Ghosh (2021). " Investigating the possible origin and transmission routes of SARS-CoV-2 genomes and variants of concern in Bangladesh ", Infection, Genetics and Evolution. DOI: 10.1016/j.meegid.2021.105057 [ PDF ]
2. M. Abdul Matin†, <span>Abdullah Al Nahid</span>†, Bishajit Sarkar, M. Asad Ullah, Yusha Araf, Nihad Adnan, Rashedul Islam, Mohammad Shahedur Rahman (2021). " Genome sequences of two novel coronavirus (SARS-CoV-2) isolates from Dhaka, Bangladesh ", Microbiology Resource Announcements. DOI: 10.1128/mra.00511-21 [ PDF ]
1. Ahsab Rahman†, Tahani Tabassum†, Yusha Araf†, <span>Abdullah Al Nahid</span>, Md. Asad Ullah, Mohammad Jakir Hosen (2021). " Silent hypoxia in COVID-19: pathomechanism and possible management strategy ", Molecular Biology Reports. DOI: 10.1007/s11033-021-06358-1 [ PDF ]
Others
Dottie Yu, Ram Ayyala, Sarah Hany Sadek, Likhitha Chittampalli, Hafsa Farooq, Junghyun Jung, <span class="font-semibold text-black underline">Abdullah Al Nahid</span>, Grigore Boldirev, Mina Jung, Sungmin Park, Austin D Nguyen, Alex Zelikovsky, Jong Wha Joo, Reid F Thompson, Houda Alachkar, Nicholas Mancuso, Serghei Mangul (2024). " A Rigorous Benchmarking of alignment-based HLA callers for RNA-seq data ", bioRxiv. DOI: 10.1101/2023.05.22.541750
Viorel Munteanu, Victor Gordeev, Justin Maine Su, Khooshbu Kantibhai Patel, Nicolae Drabcinski, <span class="font-semibold text-black underline">Abdullah Al Nahid</span>, Oksana Zlenko, Maryna Kit, Yidian Xu, Pooja Jaiswal, Alex Zelikovsky, Serghei Mangul (2024). " A rigorous benchmarking of methods for SARS-CoV-2 lineage abundance estimation in wastewater ", bioRxiv. DOI: 10.48550/arXiv.2309.16994
Amandeep Kaur, <span>Abdullah Al Nahid</span>, Darshana Joshi, Tasneem Juzer, Sooraj Shivakumar, Jyothi Guruprasad, Anjali Negi, Rajarshi Mondal, Nasrin Parvin, Shanmuga Priya B, Nisha Milind Pujari, Nanthana Ravichandran, Neha Rose Pious, Ananya Saji, Lokesh V, Mangaiyarkarasi S, Abdulsalam Toyin Ademola (2021). " Integrative eQTL Analysis of Gene Expression and Metabolic Pathways associated with Alzheimer's Disease ", HackBio Bioinformatics Internship Preprint. DOI: 10.13140/RG.2.2.24163.02080
Steven Wingett, Lordstrong Akano, <span>Abdullah Al Nahid</span>, Batool Almarzouq, Jon Ambler, Vaishali Arora, Vanisha Arora, Mukul Bhambri, Daniele Capocefalo, Aishwarya Dharan, Temilade Fetuga, Anna Foix, Emilio Garcia, Ayush Garg, Ambreen Hamadani, Russell Hamilton, Shweata Hegde, Pavlo Hrab, Ebhohimen Israel, Jorge Izquierdo, Bela Juhasz, Pruthivrajan Karunakara, Viktoriia Komarysta, Christel Krueger, Felix Krueger, Dheeraj Kumar, Jia Le Lee, Sylvia Lee, Edward Lukyamuzi, Jo Montgomery, Peter Murray-Rust, Ishaan Narang, Taki Nishimura, Thota Prashanth, Malwina Prater, Lakshmi Priya J, Sana Saifi, Abhinav Sharma, Kareena Singh, Cherlyn Tan, Atiya Tasnim, Kartavya Vashishtha, Geetanjali Yadav, Xiaohui Zhao, Simon Andrews (2020). " Cambridge Bioinformatics Hackathon 2020 ", F1000Research. DOI: 10.7490/f1000research.1118352.1