Reversal distance for partially ordered genomes. - Chunfang Zheng; Aleksander Lenert; David Sankoff (ISMB (Supplement of Bioinformatics), 2005)

Reversals of Fortune. - David Sankoff; Chunfang Zheng; Aleksander Lenert (Comparative Genomics, 2005)

Rearrangement of Noisy Genomes. - Chunfang Zheng; David Sankoff (International Conference on Computational Science (2), 2006)

Paths and Cycles in Breakpoint Graphs of Random Multichromosomal Genomes. - Andrew Wei Xu; Chunfang Zheng; David Sankoff (Comparative Genomics, 2006)

Genome rearrangements with partially ordered chromosomes. - Chunfang Zheng; David Sankoff (J. Comb. Optim., 2006)

Polyploids, genome halving and phylogeny. - David Sankoff; Chunfang Zheng; Qian Zhu 002 (ISMB/ECCB (Supplement of Bioinformatics), 2007)

Parts of the Problem of Polyploids in Rearrangement Phylogeny. - Chunfang Zheng; Qian Zhu 002; David Sankoff (RECOMB-CG, 2007)

Algorithms for the Extraction of Synteny Blocks from Comparative Maps. - Vicky Choi; Chunfang Zheng; Qian Zhu 002; David Sankoff (WABI, 2007)

Paths and Cycles in Breakpoint Graph of Random Multichromosomal Genomes. - Wei Xu; Chunfang Zheng; David Sankoff (J. Comput. Biol., 2007)

Removing Noise and Ambiguities from Comparative Maps in Rearrangement Analysis. - Chunfang Zheng; Qian Zhu 002; David Sankoff (IEEE ACM Trans. Comput. Biol. Bioinform., 2007)

Guided genome halving: hardness, heuristics and the history of the Hemiascomycetes. - Chunfang Zheng; Qian Zhu 002; Zaky Adam; David Sankoff (ISMB, 2008)

Internal Validation of Ancestral Gene Order Reconstruction in Angiosperm Phylogeny. - David Sankoff; Chunfang Zheng; P. Kerr Wall; Claude W. dePamphilis; James H. Leebens-Mack; Victor A. Albert (RECOMB-CG, 2008)

Multichromosomal Genome Median and Halving Problems. - Eric Tannier; Chunfang Zheng; David Sankoff (WABI, 2008)

Descendants of Whole Genome Duplication within Gene Order Phylogeny. - Chunfang Zheng; Qian Zhu 002; David Sankoff (J. Comput. Biol., 2008)

Multichromosomal median and halving problems under different genomic distances. - Eric Tannier; Chunfang Zheng; David Sankoff (BMC Bioinform., 2009)

Gene Loss under Neighborhood Selection Following Whole genome Duplication and the Reconstruction of the Ancestral Populus genome. - Chunfang Zheng; P. Kerr Wall; James H. Leebens-Mack; Claude de Pamphilis; Victor A. Albert; David Sankoff (J. Bioinform. Comput. Biol., 2009)

Towards Improved Reconstruction of Ancestral Gene Order in Angiosperm Phylogeny. - David Sankoff; Chunfang Zheng; P. Kerr Wall; Claude de Pamphilis; James H. Leebens-Mack; Victor A. Albert (J. Comput. Biol., 2009)

Issues in the Reconstruction of Gene Order Evolution. - David Sankoff; Chunfang Zheng; Adriana Muñoz; Zhenyu Yang; Zaky Adam; Robert Warren; Vicky Choi; Qian Zhu 002 (J. Comput. Sci. Technol., 2009)

Analysis of Applicability of Strategic Trade Policy to China's Electronics and Information Industry: A Perspective from Market Power. - Chunfang Zheng (ICEE, 2010)

Scaffold Filling under the Breakpoint Distance. - Haitao Jiang; Chunfang Zheng; David Sankoff; Binhai Zhu (RECOMB-CG, 2010)

Pathgroups, a dynamic data structure for genome reconstruction problems. - Chunfang Zheng (Bioinform., 2010)

Scaffold filling, contig fusion and comparative gene order inference. - Adriana Muñoz; Chunfang Zheng; Qian Zhu 002; Victor A. Albert; Steve Rounsley; David Sankoff (BMC Bioinform., 2010)

OMG! Orthologs in Multiple Genomes - Competing Graph-Theoretical Formulations. - Chunfang Zheng; Krister M. Swenson; Eric Lyons 002; David Sankoff (WABI, 2011)

Fractionation statistics. - Baoyong Wang; Chunfang Zheng; David Sankoff (BMC Bioinform., 2011)

On the PATHGROUPS approach to rapid small phylogeny. - Chunfang Zheng; David Sankoff (BMC Bioinform., 2011)

Ancient angiosperm hexaploidy meets ancestral eudicot gene order. - Chunfang Zheng; Victor A. Albert; Eric Lyons 002; David Sankoff (ICCABS, 2012)

Fractionation, rearrangement and subgenome dominance. - David Sankoff; Chunfang Zheng (Bioinform., 2012)

A consolidation algorithm for genomes fractionated after higher order polyploidization. - Katharina Jahn 001; Chunfang Zheng; Jakub Kovác; David Sankoff (BMC Bioinform., 2012)

Gene order in rosid phylogeny, inferred from pairwise syntenies among extant genomes. - Chunfang Zheng; David Sankoff (BMC Bioinform., 2012)

A model for biased fractionation after whole genome duplication. - David Sankoff; Chunfang Zheng; Baoyong Wang (BMC Genom., 2012)

Scaffold Filling under the Breakpoint and Related Distances. - Haitao Jiang; Chunfang Zheng; David Sankoff; Binhai Zhu (IEEE ACM Trans. Comput. Biol. Bioinform., 2012)

Fractionation, Rearrangement, Consolidation, Reconstruction. - David Sankoff; Chunfang Zheng (Models and Algorithms for Genome Evolution, 2013)

The dynamics of functional classes of plant genes in rediploidized ancient polyploids. - Eric C. H. Chen; Carlos Fernando Buen Abad Najar; Chunfang Zheng; Alex Brandts; Eric Lyons 002; Haibao Tang; Lorenzo Carretero-Paulet; Victor A. Albert; David Sankoff (BMC Bioinform., 2013)

Practical aliquoting of flowering plant genomes. - Chunfang Zheng; David Sankoff (BMC Bioinform., 2013)

Practical halving; the Nelumbo nucifera evidence on early eudicot evolution. - Chunfang Zheng; David Sankoff (Comput. Biol. Chem., 2014)

Graph-Theoretic Modelling of the Domain Chaining Problem. - Poly H. da Silva; Simone Dantas; Chunfang Zheng; David Sankoff (WABI, 2015)

Structural vs. functional mechanisms of duplicate gene loss following whole genome doubling. - David Sankoff; Chunfang Zheng; Baoyong Wang; Carlos Fernando Buen Abad Najar (BMC Bioinform., 2015)

The Trees in the Peaks. - David Sankoff; Chunfang Zheng; Eric Lyons 002; Haibao Tang (AlCoB, 2016)

Locating rearrangement events in a phylogeny based on highly fragmented assemblies. - Chunfang Zheng; David Sankoff (BMC Genom., 2016)

Speciation and Rate Variation in a Birth-and-Death Account of WGD and Fractionation; the Case of Solanaceae. - Yue Zhang; Chunfang Zheng; David Sankoff (RECOMB-CG, 2018)

Resolution effects in reconstructing ancestral genomes. - Chunfang Zheng; Yuji Jeong; Madisyn Gabrielle Turcotte; David Sankoff (BMC Genom., 2018)

Evolutionary Model for the Statistical Divergence of Paralogous and Orthologous Gene Pairs Generated by Whole Genome Duplication and Speciation. - Yue Zhang; Chunfang Zheng; David Sankoff (IEEE ACM Trans. Comput. Biol. Bioinform., 2018)

A branching process for homology distribution-based inference of polyploidy, speciation and loss. - Yue Zhang; Chunfang Zheng; David Sankoff (Algorithms Mol. Biol., 2019)

Distinguishing successive ancient polyploidy levels based on genome-internal syntenic alignment. - Yue Zhang; Chunfang Zheng; David Sankoff (BMC Bioinform., 2019)

Models for Similarity Distributions of Syntenic Homologs and Applications to Phylogenomics. - David Sankoff; Chunfang Zheng; Yue Zhang; Joao Meidanis; Eric Lyons 002; Haibao Tang (IEEE ACM Trans. Comput. Biol. Bioinform., 2019)

Gaps and Runs in Syntenic Alignments. - Zhe Yu; Chunfang Zheng; David Sankoff (AlCoB, 2020)

RACCROCHE: Ancestral Flowering Plant Chromosomes and Gene Orders Based on Generalized Adjacencies and Chromosomal Gene Co-occurrences. - Qiaoji Xu; Lingling Jin; Chunfang Zheng; James H. Leebens-Mack; David Sankoff (ICCABS, 2020)

The monoploid chromosome complement of reconstructed ancestral genomes in a phylogeny. - Qiaoji Xu; Xiaomeng Zhang; Yue Zhang; Chunfang Zheng; James H. Leebens-Mack; Lingling Jin; David Sankoff (J. Bioinform. Comput. Biol., 2021)

Ancestral Flowering Plant Chromosomes and Gene Orders Based on Generalized Adjacencies and Chromosomal Gene Co-Occurrences. - Qiaoji Xu; Lingling Jin; Yue Zhang; Xiaomeng Zhang; Chunfang Zheng; James H. Leebens-Mack; David Sankoff (J. Comput. Biol., 2021)

Branching Out to Speciation in a Model of Fractionation: The Malvaceae. - Yue Zhang; Chunfang Zheng; Sindeed Islam; Yong-Min Kim; David Sankoff (IEEE ACM Trans. Comput. Biol. Bioinform., 2021)