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Cell Systems|May 3, 2016
A Systematic Ensemble Approach to Thermodynamic Modeling of Gene Expression from Sequence DataMd Abul Hassan Samee, Bomyi Lim, Núria Samper, et al.Briefings in Bioinformatics|February 22, 2024
CRISPR-DIPOFF: an interpretable deep learning approach for CRISPR Cas-9 off-target predictionMd Toufikuzzaman, Md Abul Hassan Samee, M Sohel RahmanCell Systems|January 21, 2019
A De Novo Shape Motif Discovery Algorithm Reveals Preferences of Transcription Factors for DNA Shape Beyond Sequence MotifsMd Abul Hassan Samee, Benoit G Bruneau, Katherine S PollardBMC Molecular and Cell Biology|September 1, 2021
Systematic identification of non-canonical transcription factor motifsLuis Chumpitaz-Diaz, Md Abul Hassan Samee, Katherine S PollardPNAS Nexus|June 30, 2025
GraphAge: Unleashing the power of graph neural network to decode epigenetic agingSaleh Sakib Ahmed, Nahian Shabab, Abul Hassan Samee, et al.Briefings in Bioinformatics|March 2, 2026
ORANGE: a machine learning approach for modeling tissue-specific aging from transcriptomic dataWasif Jalal, Mubasshira Musarrat, Md Abul Hassan Samee, et al.Cell Reports|October 6, 2017
Quantitative Measurement and Thermodynamic Modeling of Fused Enhancers Support a Two-Tiered Mechanism for Interpreting Regulatory DNAMd Abul Hassan Samee, Tara Lydiard-Martin, Kelly M Biette, et al.Iscience|March 3, 2023
DeepBend: An interpretable model of DNA bendabilitySamin Rahman Khan, Sadman Sakib, M Sohel Rahman, et al.Bioinformatics (Oxford, England)|June 7, 2023
NoVaTeST: identifying genes with location-dependent noise variance in spatial transcriptomics dataMohammed Abid Abrar, M Kaykobad, M Saifur Rahman, et al.Cell Systems|October 9, 2021
Cell-type modeling in spatial transcriptomics data elucidates spatially variable colocalization and communication between cell-types in mouse brainFrancisco Jose Grisanti Canozo, Zhen Zuo, James F Martin, et al.Pageof 25