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Statistical binning enables an accurate coalescent-based estimation of the avian tree

Science (American Association for the Advancement of Science), 2014-12, Vol.346 (6215), p.1337-1337

2014

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Accurate phylogenetic tree reconstruction from quartets: a heuristic approach

PloS one, 2014-08, Vol.9 (8), p.e104008-e104008

2014

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Machine learning based imputation techniques for estimating phylogenetic trees from incomplete distance matrices

BMC genomics, 2020-07, Vol.21 (1), p.497-497, Article 497

2020

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STELAR: a statistically consistent coalescent-based species tree estimation method by maximizing triplet consistency

BMC genomics, 2020-02, Vol.21 (1), p.136-136, Article 136

2020

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CHAPAO: Likelihood and hierarchical reference-based representation of biomolecular sequences and applications to compressing multiple sequence alignments

PloS one, 2022-04, Vol.17 (4), p.e0265360-e0265360

2022

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Biological computation and computational biology: survey, challenges, and discussion

The Artificial intelligence review, 2021-08, Vol.54 (6), p.4169-4235

2021

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Evaluation of classification and forecasting methods on time series gene expression data

PloS one, 2020-11, Vol.15 (11), p.e0241686-e0241686

2020

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Quartet-based inference of cell differentiation trees from ChIP-Seq histone modification data

PloS one, 2019-09, Vol.14 (9), p.e0221270-e0221270

2019

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Distance-Based Phylogenetic Placement with Statistical Support

Biology (Basel, Switzerland), 2022-08, Vol.11 (8), p.1212

2022

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Inferring Optimal Species Trees in the Presence of Gene Duplication and Loss: Beyond Rooted Gene Trees

Journal of computational biology, 2023-02, Vol.30 (2), p.161

Bayzid, Md Shamsuzzoha

2023

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EGRET: edge aggregated graph attention networks and transfer learning improve protein–protein interaction site prediction

Briefings in bioinformatics, 2022-03, Vol.23 (2)

2022

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Response to Comment on "Statistical binning enables an accurate coalescent-based estimation of the avian tree"

Science (American Association for the Advancement of Science), 2015-10, Vol.350 (6257), p.171-171

2015

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Genome wide association studies on seven yield‐related traits of 183 rice varieties in Bangladesh

Plant direct, 2024-06, Vol.8 (6), p.e593-n/a

2024

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Weighted Statistical Binning: Enabling Statistically Consistent Genome-Scale Phylogenetic Analyses

PloS one, 2015-06, Vol.10 (6), p.e0129183-e0129183

2015

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Gene tree parsimony for incomplete gene trees: addressing true biological loss

Algorithms for molecular biology, 2018-01, Vol.13 (1), p.1-1, Article 1

2018

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CD-MAWS: An Alignment-Free Phylogeny Estimation Method Using Cosine Distance on Minimal Absent Word Sets

IEEE/ACM transactions on computational biology and bioinformatics, 2023-01, Vol.20 (1), p.196-205

2023

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IEEE_Xplore

Multiobjective Formulation of Multiple Sequence Alignment for Phylogeny Inference

IEEE transactions on cybernetics, 2022-05, Vol.52 (5), p.2775-2786

2022

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IEEE_Xplore

Align-gram: Rethinking the Skip-gram Model for Protein Sequence Analysis

The Protein Journal, 2023-04, Vol.42 (2), p.135-146

2023

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PASTA with many application-aware optimization criteria for alignment based phylogeny inference

Computational biology and chemistry, 2022-06, Vol.98, p.107661-107661, Article 107661

2022

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3D-FFS: Faster 3D object detection with Focused Frustum Search in sensor fusion based networks

2021 IEEE/RSJ International Conference on Intelligent Robots and Systems (IROS), 2021, p.6848-6853

2021

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IEEE_Xplore

Fast and Accurate Branch Support Calculation for Distance-Based Phylogenetic Placements

Comparative Genomics, p.33-51

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Evaluating Summary Methods for Multilocus Species Tree Estimation in the Presence of Incomplete Lineage Sorting

Systematic biology, 2016-05, Vol.65 (3), p.366-380

2016

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Naive binning improves phylogenomic analyses

Bioinformatics, 2013-09, Vol.29 (18), p.2277-2284

2013

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Estimating optimal species trees from incomplete gene trees under deep coalescence

Journal of computational biology, 2012-06, Vol.19 (6), p.591

2012

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Gene Tree Parsimony in the Presence of Gene Duplication, Loss, and Incomplete Lineage Sorting

Comparative Genomics, p.110-128

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Statistical binning enables an accurate coalescent-based estimation of the avian tree

Accurate phylogenetic tree reconstruction from quartets: a heuristic approach

Machine learning based imputation techniques for estimating phylogenetic trees from incomplete distance matrices

STELAR: a statistically consistent coalescent-based species tree estimation method by maximizing triplet consistency

CHAPAO: Likelihood and hierarchical reference-based representation of biomolecular sequences and applications to compressing multiple sequence alignments

Biological computation and computational biology: survey, challenges, and discussion

Evaluation of classification and forecasting methods on time series gene expression data

Quartet-based inference of cell differentiation trees from ChIP-Seq histone modification data

Distance-Based Phylogenetic Placement with Statistical Support

Inferring Optimal Species Trees in the Presence of Gene Duplication and Loss: Beyond Rooted Gene Trees

EGRET: edge aggregated graph attention networks and transfer learning improve protein–protein interaction site prediction

Response to Comment on "Statistical binning enables an accurate coalescent-based estimation of the avian tree"

Genome wide association studies on seven yield‐related traits of 183 rice varieties in Bangladesh

Weighted Statistical Binning: Enabling Statistically Consistent Genome-Scale Phylogenetic Analyses

Gene tree parsimony for incomplete gene trees: addressing true biological loss

CD-MAWS: An Alignment-Free Phylogeny Estimation Method Using Cosine Distance on Minimal Absent Word Sets

Multiobjective Formulation of Multiple Sequence Alignment for Phylogeny Inference

Align-gram: Rethinking the Skip-gram Model for Protein Sequence Analysis

PASTA with many application-aware optimization criteria for alignment based phylogeny inference

3D-FFS: Faster 3D object detection with Focused Frustum Search in sensor fusion based networks

Fast and Accurate Branch Support Calculation for Distance-Based Phylogenetic Placements

Evaluating Summary Methods for Multilocus Species Tree Estimation in the Presence of Incomplete Lineage Sorting

Naive binning improves phylogenomic analyses

Estimating optimal species trees from incomplete gene trees under deep coalescence

Gene Tree Parsimony in the Presence of Gene Duplication, Loss, and Incomplete Lineage Sorting

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