Sudhir Kumar

Orcid: 0000-0002-9918-8212

Affiliations:
  • Arizona State University, Tempe, AZ, USA
  • King Abdulaziz University, Jeddah, Saudi Arabia


According to our database1, Sudhir Kumar authored at least 44 papers between 1994 and 2023.

Collaborative distances:

Timeline

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Bibliography

2023
Deep Low-Shot Learning for Biological Image Classification and Visualization From Limited Training Samples.
IEEE Trans. Neural Networks Learn. Syst., May, 2023

Bootstrap confidence for molecular evolutionary estimates from tumor bulk sequencing data.
Frontiers Bioinform., May, 2023

The origin of eukaryotes and rise in complexity were synchronous with the rise in oxygen.
Frontiers Bioinform., May, 2023

Completing a molecular timetree of apes and monkeys.
Frontiers Bioinform., May, 2023

Molecular timetrees using relaxed clocks and uncertain phylogenies.
Frontiers Bioinform., May, 2023

Discovering research articles containing evolutionary timetrees by machine learning.
Bioinform., January, 2023

2022
Dynamic coupling of residues within proteins as a mechanistic foundation of many enigmatic pathogenic missense variants.
PLoS Comput. Biol., 2022

TopHap: rapid inference of key phylogenetic structures from common haplotypes in large genome collections with limited diversity.
Bioinform., 2022

2021
Fast and accurate bootstrap confidence limits on genome-scale phylogenies using little bootstraps.
Nat. Comput. Sci., 2021

Data-driven speciation tree prior for better species divergence times in calibration-poor molecular phylogenies.
Bioinform., 2021

TreeMap: a structured approach to fine mapping of eQTL variants.
Bioinform., 2021

2020
Deep Model Based Transfer and Multi-Task Learning for Biological Image Analysis.
IEEE Trans. Big Data, 2020

A new method for inferring timetrees from temporally sampled molecular sequences.
PLoS Comput. Biol., 2020

Somatic selection distinguishes oncogenes and tumor suppressor genes.
Bioinform., 2020

2018
Computational enhancement of single-cell sequences for inferring tumor evolution.
Bioinform., 2018

Predicting clone genotypes from tumor bulk sequencing of multiple samples.
Bioinform., 2018

2014
Automated annotation of developmental stages of <i>Drosophila</i> embryos in images containing spatial patterns of expression.
Bioinform., 2014

MEGA-MD: molecular evolutionary genetics analysis software with mutational diagnosis of amino acid variation.
Bioinform., 2014

myFX: a turn-key software for laboratory desktops to analyze spatial patterns of gene expression in <i>Drosophila</i> embryos.
Bioinform., 2014

2013
A mesh generation and machine learning framework for Drosophila gene expression pattern image analysis.
BMC Bioinform., 2013

Image-level and group-level models for Drosophila gene expression pattern annotation.
BMC Bioinform., 2013

2012
Drosophila Gene Expression Pattern Annotation through Multi-Instance Multi-Label Learning.
IEEE ACM Trans. Comput. Biol. Bioinform., 2012

Learning Sparse Representations for Fruit-Fly Gene Expression Pattern Image Annotation and Retrieval.
BMC Bioinform., 2012

MEGA-CC: computing core of molecular evolutionary genetics analysis program for automated and iterative data analysis.
Bioinform., 2012

Exploring spatial patterns of gene expression from Fruit Fly embryogenesis on the iPhone.
Bioinform., 2012

Performance of computational tools in evaluating the functional impact of laboratory-induced amino acid mutations.
Bioinform., 2012

2011
FlyExpress: visual mining of spatiotemporal patterns for genes and publications in <i>Drosophila</i> embryogenesis.
Bioinform., 2011

TimeTree2: species divergence times on the iPhone.
Bioinform., 2011

2009
Biological Image Analysis via Matrix Approximation.
Proceedings of the Encyclopedia of Data Warehousing and Mining, Second Edition (4 Volumes), 2009

A bag-of-words approach for <i>Drosophila </i>gene expression pattern annotation.
BMC Bioinform., 2009

Relationship between gene co-expression and sharing of transcription factor binding sites in <i>Drosophila melanogaster</i>.
Bioinform., 2009

Drosophila gene expression pattern annotation using sparse features and term-term interactions.
Proceedings of the 15th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining, Paris, France, June 28, 2009

DrosophilaGene Expression Pattern Annotation through Multi-Instance Multi-Label Learning.
Proceedings of the IJCAI 2009, 2009

2008
Developmental stage annotation of Drosophila gene expression pattern images via an entire solution path for LDA.
ACM Trans. Knowl. Discov. Data, 2008

Automated annotation of <i>Drosophila</i> gene expression patterns using a controlled vocabulary.
Bioinform., 2008

MEGA: A biologist-centric software for evolutionary analysis of DNA and protein sequences.
Briefings Bioinform., 2008

2007
Lower bounds on multiple sequence alignment using exact 3-way alignment.
BMC Bioinform., 2007

Bioinformatics software for biologists in the genomics era.
Bioinform., 2007

2006
TimeTree: a public knowledge-base of divergence times among organisms.
Bioinform., 2006

2004
Identifying spatially similar gene expression patterns in early stage fruit fly embryo images: binary feature versus invariant moment digital representations.
BMC Bioinform., 2004

MEGA3: Integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment.
Briefings Bioinform., 2004

2001
MEGA2: molecular evolutionary genetics analysis software.
Bioinform., 2001

2000
Single column discrepancy and dynamic max-mini optimizations for quickly finding the most parsimonious evolutionary trees.
Bioinform., 2000

1994
MEGA: Molecular Evolutionary Genetics Analysis software for microcomputers.
Comput. Appl. Biosci., 1994


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