Md. Abul Hassan Samee

发表

Upward Drawings of Trees on the Minimum Number of Layers

Md. Saidur Rahman, Muhammad Jawaherul Alam, Mashfiqui Rabbi, 2008, WALCOM.

Computing beta -Drawings of 2-Outerplane Graphs in Linear Time

Md. Saidur Rahman, Mohammad Tanvir Irfan, Md. Abul Hassan Samee, 2008, WALCOM.

Upward Planar Drawings of Series-Parallel Digraphs with Maximum Degree Three

Md. Saidur Rahman, Md. Abul Hassan Samee, 2007, WALCOM.

Minimum-Layer Upward Drawings of Trees

Md. Saidur Rahman, Muhammad Jawaherul Alam, Mashfiqui Rabbi, 2010, J. Graph Algorithms Appl..

Minimum Segment Drawings of Series-Parallel Graphs with the Maximum Degree Three

Md. Saidur Rahman, Muhammad Jawaherul Alam, Muhammad Abdullah Adnan, 2009, GD.

Thermodynamics-Based Models of Transcriptional Regulation by Enhancers: The Roles of Synergistic Activation, Cooperative Binding and Short-Range Repression

Xin He, Saurabh Sinha, Charles Blatti, 2010, PLoS Comput. Biol..

Quantitative Modeling of a Gene's Expression from Its Intergenic Sequence

Saurabh Sinha, Md. Abul Hassan Samee, S. Sinha, 2014, PLoS Comput. Biol..

A Systematic Ensemble Approach to Thermodynamic Modeling of Gene Expression from Sequence Data.

Saurabh Sinha, Md. Abul Hassan Samee, Stanislav Y Shvartsman, 2015, Cell systems.

Global parameter estimation for thermodynamic models of transcriptional regulation.

Saurabh Sinha, Ahmet Ay, Md. Abul Hassan Samee, 2013, Methods.

Transcription factors recognize DNA shape without nucleotide recognition

Md. Abul Hassan Samee, K. Pollard, B. Bruneau, 2017, bioRxiv.

A De Novo Shape Motif Discovery Algorithm Reveals Preferences of Transcription Factors for DNA Shape Beyond Sequence Motifs.

Md. Abul Hassan Samee, K. Pollard, B. Bruneau, 2019, Cell systems.

Machine-learning dissection of Human Accelerated Regions in primate neurodevelopment

Md. Abul Hassan Samee, Alex H. Williams, Alex A. Pollen, 2018, bioRxiv.

Evidence for Deep Regulatory Similarities in Early Developmental Programs across Highly Diverged Insects

Marc S. Halfon, Saurabh Sinha, Md. Abul Hassan Samee, 2014, Genome biology and evolution.

Integrative Analysis of Spatial and Single-Cell Transcriptomics Reveals Principles of Tissue Organization and Intercellular Communication in Mouse Olfactory Bulb

Md. Abul Hassan Samee, Francisco Jose Grisanti Canozo, Z. Zuo, 2020, bioRxiv.

Dual-Mode Tumor Imaging Using Probes That Are Responsive to Hypoxia-Induced Pathological Conditions

Md. Abul Hassan Samee, R. Pautler, J. Yustein, 2022, Biosensors.

Machine learning dissection of human accelerated regions in primate neurodevelopment

Md. Abul Hassan Samee, Alex A. Pollen, J. Shendure, 2022, Neuron.

Decoding the PITX2-controlled genetic network in atrial fibrillation

Md. Abul Hassan Samee, James F. Martin, J. Steimle, 2022, JCI insight.

Simulations of Enhancer Evolution Provide Mechanistic Insights into Gene Regulation

Md. Abul Hassan Samee, M. Brodsky, S. Sinha, 2013, Molecular biology and evolution.

Epstein-Barr virus nuclear antigen proteins deploy diverse mechanisms to bind the human genome

Mohammad Sohel Rahman, Md. Abul Hassan Samee, C. Moon, 2022, bioRxiv.

DeepBend: An interpretable model of DNA bendability

Md. Abul Hassan Samee, S. Sakib, M. Rahman, 2022, bioRxiv.

Multinomial Convolutions for Joint Modeling of Regulatory Motifs and Sequence Activity Readouts

Md. Abul Hassan Samee, Mohammed Abid Abrar, M. Rahman, 2022, Genes.

Machine-learning dissection of Human Accelerated Regions in primate neurodevelopment

Md. Abul Hassan Samee, Alex A. Pollen, J. Shendure, 2022, bioRxiv.

Identifying Genes with Location Dependent Noise Variance in Spatial Transcriptomics Data

Md. Abul Hassan Samee, Mohammed Abid Abrar, M. Kaykobad, 2022, bioRxiv.

Quantitative Measurement and Thermodynamic Modeling of Fused Enhancers Support a Two-Tiered Mechanism for Interpreting Regulatory DNA.

Md. Abul Hassan Samee, A. DePace, Kelly B. Eckenrode, 2017, Cell reports.

Complex Interdependence Regulates Heterotypic Transcription Factor Distribution and Coordinates Cardiogenesis

Md. Abul Hassan Samee, K. Pollard, B. Bruneau, 2016, Cell.

Cell-type modeling in spatial transcriptomics data elucidates spatially variable colocalization and communication between cell-types in mouse brain.

Md. Abul Hassan Samee, James F. Martin, F. J. Grisanti Canozo, 2021, Cell systems.

Mutation Rate Variations in the Human Genome are Encoded in DNA Shape

Md. Abul Hassan Samee, Zian Liu, 2021, bioRxiv.

Approaching deconvolution with Fermi's mindset.

Md. Abul Hassan Samee, 2022, Cell systems.

Systematic identification of non-canonical transcription factor motifs

Md. Abul Hassan Samee, K. Pollard, Luis Chumpitaz-Diaz, 2021, BMC Molecular and Cell Biology.

Multinomial Convolutions for Joint Modeling of Sequence Motifs and Enhancer Activities

Md. Abul Hassan Samee, Minjun Park, Salvi Singh, 2020, bioRxiv.

Structural underpinnings of mutation rate variations in the human genome

Md. Abul Hassan Samee, Zian Liu, 2023, Nucleic acids research.

Noncanonical binding of transcription factors: time to revisit specificity?

Md. Abul Hassan Samee, 2023, Molecular biology of the cell.

Hippo-deficient cardiac fibroblasts differentiate into osteochondroprogenitors

Md. Abul Hassan Samee, Chang-Ru Tsai, Mingjie Zheng, 2023, bioRxiv.

Endothelial cells adopt a pro-reparative immune responsive signature during cardiac injury

Md. Abul Hassan Samee, Joshua D. Wythe, F. J. Grisanti Canozo, 2023, Life Science Alliance.

NoVaTeST: identifying genes with location-dependent noise variance in spatial transcriptomics data

Md. Abul Hassan Samee, Mohammed Abid Abrar, M. Kaykobad, 2023, Bioinformatics.

Imputation approaches and quality standards for single-cell epigenetic age predictions

Md. Abul Hassan Samee, Zian Liu, 2023, bioRxiv.

YAP induces a neonatal-like pro-renewal niche in the adult heart.

Md. Abul Hassan Samee, Shijie Liu, Elzbieta A. Klysik, 2024, Nature cardiovascular research.

scGIST: gene panel design for spatial transcriptomics with prioritized gene sets

Md. Abul Hassan Samee, Md. Hasibul Hussain Hisham, Francisco Grisanti, 2024, Genome biology.

Gene panel design for spatial transcriptomics with prioritized gene sets

Md. Abul Hassan Samee, A. Rahman, Francisco Grisanti, 2022, bioRxiv.