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Author Details

Metin Balaban
University of California San Diego
2006
30
10
PMIDPaper TitleJournal TitlePublished Year
37500913Greengenes2 unifies microbial data in a single reference tree.Nat Biotechnol2024
37853258Author Correction: Greengenes2 unifies microbial data in a single reference tree.Nat Biotechnol2024
37853257Author Correction: Generation of accurate, expandable phylogenomic trees with uDance.Nat Biotechnol2024
37500914Generation of accurate, expandable phylogenomic trees with uDance.Nat Biotechnol2024
37365313Multi-level analysis of the gut-brain axis shows autism spectrum disorder-associated molecular and microbial profiles.Nat Neurosci2023
35485976DEPP: Deep Learning Enables Extending Species Trees using Single Genes.Syst Biol2023
34643995Fast and accurate distance-based phylogenetic placement using divide and conquer.Mol Ecol Resour2022
35992043Genome-wide alignment-free phylogenetic distance estimation under a no strand-bias model.Bioinform Adv2022
36009839Distance-Based Phylogenetic Placement with Statistical Support.Biology (Basel)2022
34780468Estimating repeat spectra and genome length from low-coverage genome skims with RESPECT.PLoS Comput Biol2021
31545363APPLES: Scalable Distance-Based Phylogenetic Placement with or without Alignments.Syst Biol2020
31943790The impact of contaminants on the accuracy of genome skimming and the effectiveness of exclusion read filters.Mol Ecol Resour2020
32657414Phylogenetic double placement of mixed samples.Bioinformatics2020
32391071The distance and median problems in the single-cut-or-join model with single-gene duplications.Algorithms Mol Biol2020
31437182TreeCluster: Clustering biological sequences using phylogenetic trees.PLoS One2019
29319471MentaLiST - A fast MLST caller for large MLST schemes.Microb Genom2018
30288640Position and Content Paradigms in Genome Rearrangements: The Wild and Crazy World of Permutations in Genomics.Bull Math Biol2018
29277872Family-Free Genome Comparison.Methods Mol Biol2018
28559921The gene family-free median of three.Algorithms Mol Biol2017
28293275Approximating the DCJ distance of balanced genomes in linear time.Algorithms Mol Biol2017
28185578Fast ancestral gene order reconstruction of genomes with unequal gene content.BMC Bioinformatics2016
25859276On the family-free DCJ distance and similarity.Algorithms Mol Biol2015
26451811Reconstruction of ancestral gene orders using intermediate genomes.BMC Bioinformatics2015
26695008On the distribution of cycles and paths in multichromosomal breakpoint graphs and the expected value of rearrangement distance.BMC Bioinformatics2015
23702549Rearrangement-based phylogeny using the Single-Cut-or-Join operation.IEEE/ACM Trans Comput Biol Bioinform2013
24334378Extending the algebraic formalism for genome rearrangements to include linear chromosomes.IEEE/ACM Trans Comput Biol Bioinform2013
22315242Genome sequence and assembly of Bos indicus.J Hered2012
21339538SCJ: a breakpoint-like distance that simplifies several rearrangement problems.IEEE/ACM Trans Comput Biol Bioinform2011
18621550Structure and evolution of the mitochondrial genomes of Haematobia irritans and Stomoxys calcitrans: the Muscidae (Diptera: Calyptratae) perspective.Mol Phylogenet Evol2008
16446277AMiGA: the arthropodan mitochondrial genomes accessible database.Bioinformatics2006
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Collaborators

Siavash Mirarab
University of California San Diego
Co-authored papers 13
Qiyun Zhu
Biodesign Center for Fundamental and Applied Microbiomics, Arizona State University
Co-authored papers 6
Daniel McDonald
University of California San Diego
Co-authored papers 5
Antonio Gonzalez
University of California San Diego School of Medicine
Co-authored papers 3
Aki S Havulinna
Co-authored papers 2
Pekka Jousilahti
Co-authored papers 2
Vineet Bafna
University of California San Diego
Co-authored papers 2
Veikko Salomaa
Co-authored papers 2
Michael Inouye
Co-authored papers 1
Daniel Roush
Center for Fundamental and Applied Microbiomics, Arizona State University
Co-authored papers 1
Niema Moshiri
Bonita Vista High School, University of California San Diego, University of California, San Diego
Co-authored papers 1
Xingfan Jia
university of california san diego
Co-authored papers 1
Ramnik J Xavier
Broad Institute of MIT and Harvard
Co-authored papers 1
Richard Bonneau
Center for Computational Biology (CCB), Flatiron Institute, Simons Foundation
Co-authored papers 1
Uyen Mai
University of California San Diego
Co-authored papers 1
Dennis P Wall
Stanford University
Co-authored papers 1
Omry Koren
Bar-Ilan University
Co-authored papers 1
Release 1.2