List of works - Michel C Milinkovitch

2x genomes--depth does matter

scientific article (publication date: 2010)

A hidden Markov model for progressive multiple alignment

article

A living mesoscopic cellular automaton made of skin scales

scientific article published in April 2017

A non-linear optimization procedure to estimate distances and instantaneous substitution rate matrices under the GTR model.

scientific article published on 5 January 2006

Alien eggs in duck nests: brood parasitism or a help from Grandma?

scientific article published on 20 June 2011

Amelanism in the corn snake is associated with the insertion of an LTR-retrotransposon in the OCA2 gene

scientific article

Amphibians as indicators of early tertiary "out-of-India" dispersal of vertebrates.

scientific article

An ant colony optimization algorithm for phylogenetic estimation under the minimum evolution principle

scientific article

Assessing the applicability of the GTR nucleotide substitution model through simulations

scientific article published in January 2006

Automated discovery and phylogenetic analysis of new toxin-antitoxin systems

scientific article

Bifurcation Analysis of Reaction Diffusion Systems on Arbitrary Surfaces

scientific article published on 28 February 2017

Changes in Hox genes' structure and function during the evolution of the squamate body plan

scientific article published in March 2010

Characterization of microsatellite loci in the European pond turtle Emys orbicularis.

scientific article

Conceptual bases for quantifying the role of the environment on gene evolution: the participation of positive selection and neutral evolution

scientific article published on November 2007

Contrasted evolution of the vomeronasal receptor repertoires in mammals and squamate reptiles.

scientific article published on January 2013

Controlling population evolution in the laboratory to evaluate methods of historical inference

scientific article

Crocodile head scales are not developmental units but emerge from physical cracking

scientific article published on 29 November 2012

Crocodylians evolved scattered multi-sensory micro-organs

scientific article published on 02 July 2013

Deciphering river dolphin evolution

scientific article published on 01 October 2001

Development and embryonic staging in non-model organisms: the case of an afrotherian mammal

scientific article

Development of 10 highly-polymorphic microsatellite markers in the vulnerable Galápagos land iguanas (genus Conolophus).

scientific article published in January 2009

Development of a multiplex PCR assay for fine-scale population genetic analysis of the Komodo monitor Varanus komodoensis based on 18 polymorphic microsatellite loci.

scientific article

Dual chemical sequestration: a key mechanism in transitions among ecological specialization

scientific article published in January 2002

Elastic instability during branchial ectoderm development causes folding of the erectile frill

scientific article published on 25 June 2019

Escaping the mouse trap: the selection of new Evo-Devo model species.

scientific article published in July 2007

Evaluating intraspecific "network" construction methods using simulated sequence data: do existing algorithms outperform the global maximum parsimony approach?

scientific article

Evidence for male dispersal along the coasts but no migration in pelagic waters in dusky dolphins (Lagenorhynchus obscurus).

scientific article

Feather arrays are patterned by interacting signalling and cell density waves

article

Feeding specialization and host-derived chemical defense in Chrysomeline leaf beetles did not lead to an evolutionary dead end.

scholarly article

Genetic analysis of a successful repatriation programme: giant Galápagos tortoises

article

Genome mapping of a LYST mutation in corn snakes indicates that vertebrate chromatophore vesicles are lysosome-related organelles

scientific article published on 05 October 2020

Giant Galápagos tortoises; molecular genetic analyses identify a trans-island hybrid in a repatriation program of an endangered taxon

scientific article

Historical constraints on vertebrate genome evolution.

scientific article published on 18 December 2009

Independent adaptation to riverine habitats allowed survival of ancient cetacean lineages

scientific article

Inferring contemporary levels of gene flow and demographic history in a local population of the leaf beetle Gonioctena olivacea from mitochondrial DNA sequence variation

scientific article published in May 2005

Investigation of the population genetic structure and mating system in the ant Pheidole pallidula.

scientific article

Local endemism within the Western Ghats-sri Lanka biodiversity hotspot

scientific article

Locally-curved geometry generates bending cracks in the African elephant skin

scientific article published in Nature Communications

MANTIS: a phylogenetic framework for multi-species genome comparisons

scientific article

MetaPIGA v2.0: maximum likelihood large phylogeny estimation using the metapopulation genetic algorithm and other stochastic heuristics.

scientific article

Microsatellite analysis of genetic divergence among populations of giant Galápagos tortoises

scientific article (publication date: November 2002)

Mitochondrial DNA rates and biogeography in European newts (genus Euproctus).

scientific article published in March 1997

Mitochondrial genome and nuclear sequence data support myzostomida as part of the annelid radiation

scientific article

Molecular phylogenetic analyses indicate a wide and ancient radiation of African hepatitis delta virus, suggesting a deltavirus genus of at least seven major clades

scientific article

Molecular phylogenetic analyses indicate extensive morphological convergence between the "yeti" and primates

scientific article published on 01 April 2004

Molecular phylogenetic analyses indicate multiple independent emergences of parasitism in Myzostomida (Protostomia).

scientific article published on April 2006

Molecular phylogeny of cetaceans prompts revision of morphological transformations

scientific article published on 01 August 1995

Multiple enhancers regulate Hoxd genes and the Hotdog LncRNA during cecum budding

scientific article

Novel phylogeny of whales revisited but not revised.

scientific article published in May 1995

OligoFaktory: a visual tool for interactive oligonucleotide design

scientific article published on 20 October 2005

Patterns of ossification in southern versus northern placental mammals.

scientific article

Photonic crystals cause active colour change in chameleons

scientific article

Phylogenetic analyses indicate an atypical nurse-to-patient transmission of human immunodeficiency virus type 1

scientific article

Phylogenetic analyses of DNA and allozyme data suggest that Gonioctena leaf beetles (Coleoptera; Chrysomelidae) experienced convergent evolution in their history of host-plant family shifts.

scientific article

Phylogenetic mapping of scale nanostructure diversity in snakes

scientific article published on 16 April 2019

Phylogenomics of unusual histone H2A Variants in Bdelloid rotifers

scientific article (publication date: March 2009)

Phylogeny and biogeography of a cosmopolitan frog radiation: Late cretaceous diversification resulted in continent-scale endemism in the family ranidae

scientific article published in August 2006

Phylogeography and support vector machine classification of colour variation in panther chameleons

scientific article published on 24 May 2015

Population genetics of Galápagos land iguana (genus Conolophus) remnant populations

scientific article published in December 2008

Population structure of an endemic vulnerable species, the Jamaican boa (Epicrates subflavus).

scientific article published on 20 December 2007

Precise colocalization of interacting structural and pigmentary elements generates extensive color pattern variation in Phelsuma lizards

scientific article

R(2)OBBIE-3D, a Fast Robotic High-Resolution System for Quantitative Phenotyping of Surface Geometry and Colour-Texture

scientific article (publication date: 2015)

Recovery of a nearly extinct Galápagos tortoise despite minimal genetic variation

scientific article published on 10 October 2012

Reorganisation of Hoxd regulatory landscapes during the evolution of a snake-like body plan

scientific article published on August 2016

Reptilian Transcriptomes v2.0: An Extensive Resource for Sauropsida Genomics and Transcriptomics

scientific article published on June 2015

Reptilian-transcriptome v1.0, a glimpse in the brain transcriptome of five divergent Sauropsida lineages and the phylogenetic position of turtles

scientific article

Retroviral envelope syncytin capture in an ancestrally diverged mammalian clade for placentation in the primitive Afrotherian tenrecs

scientific article

Revised phylogeny of whales suggested by mitochondrial ribosomal DNA sequences

scientific article published in Nature

SINE evolution, missing data, and the origin of whales.

scientific article

Separate-component-stabilization system for protein and DNA production without the use of antibiotics

scientific article

Structure and evolution of the mitochondrial control region of leaf beetles (Coleoptera: Chrysomelidae): a hierarchical analysis of nucleotide sequence variation

scientific article published in January 2003

The SIB Swiss Institute of Bioinformatics' resources: focus on curated databases

scientific article (publication date: 4 January 2016)

The anatomical placode in reptile scale morphogenesis indicates shared ancestry among skin appendages in amniotes.

scientific article

The genome sequence of the corn snake (Pantherophis guttatus), a valuable resource for EvoDevo studies in squamates.

scientific article published in January 2014

The metapopulation genetic algorithm: An efficient solution for the problem of large phylogeny estimation

scientific article

The phylogeography of dusky dolphins (Lagenorhynchus obscurus): a critical examination of network methods and rooting procedures.

scientific article published in July 2003

Translucent in air and iridescent in water: structural analysis of a salamander egg sac

scientific article published on 01 February 2020

Two waves of anisotropic growth generate enlarged follicles in the spiny mouse.

scientific article

List of works by Michel C Milinkovitch

2x genomes--depth does matter

A hidden Markov model for progressive multiple alignment

A living mesoscopic cellular automaton made of skin scales

A non-linear optimization procedure to estimate distances and instantaneous substitution rate matrices under the GTR model.

Alien eggs in duck nests: brood parasitism or a help from Grandma?

Amelanism in the corn snake is associated with the insertion of an LTR-retrotransposon in the OCA2 gene

Amphibians as indicators of early tertiary "out-of-India" dispersal of vertebrates.

An ant colony optimization algorithm for phylogenetic estimation under the minimum evolution principle

Assessing the applicability of the GTR nucleotide substitution model through simulations

Automated discovery and phylogenetic analysis of new toxin-antitoxin systems

Bifurcation Analysis of Reaction Diffusion Systems on Arbitrary Surfaces

Changes in Hox genes' structure and function during the evolution of the squamate body plan

Characterization of microsatellite loci in the European pond turtle Emys orbicularis.

Conceptual bases for quantifying the role of the environment on gene evolution: the participation of positive selection and neutral evolution

Contrasted evolution of the vomeronasal receptor repertoires in mammals and squamate reptiles.

Controlling population evolution in the laboratory to evaluate methods of historical inference

Crocodile head scales are not developmental units but emerge from physical cracking

Crocodylians evolved scattered multi-sensory micro-organs

Deciphering river dolphin evolution

Development and embryonic staging in non-model organisms: the case of an afrotherian mammal

Development of 10 highly-polymorphic microsatellite markers in the vulnerable Galápagos land iguanas (genus Conolophus).

Development of a multiplex PCR assay for fine-scale population genetic analysis of the Komodo monitor Varanus komodoensis based on 18 polymorphic microsatellite loci.

Dual chemical sequestration: a key mechanism in transitions among ecological specialization

Elastic instability during branchial ectoderm development causes folding of the erectile frill

Escaping the mouse trap: the selection of new Evo-Devo model species.

Evaluating intraspecific "network" construction methods using simulated sequence data: do existing algorithms outperform the global maximum parsimony approach?

Evidence for male dispersal along the coasts but no migration in pelagic waters in dusky dolphins (Lagenorhynchus obscurus).

Feather arrays are patterned by interacting signalling and cell density waves

Feeding specialization and host-derived chemical defense in Chrysomeline leaf beetles did not lead to an evolutionary dead end.

Genetic analysis of a successful repatriation programme: giant Galápagos tortoises

Genome mapping of a LYST mutation in corn snakes indicates that vertebrate chromatophore vesicles are lysosome-related organelles

Giant Galápagos tortoises; molecular genetic analyses identify a trans-island hybrid in a repatriation program of an endangered taxon

Historical constraints on vertebrate genome evolution.

Independent adaptation to riverine habitats allowed survival of ancient cetacean lineages

Inferring contemporary levels of gene flow and demographic history in a local population of the leaf beetle Gonioctena olivacea from mitochondrial DNA sequence variation

Investigation of the population genetic structure and mating system in the ant Pheidole pallidula.

Local endemism within the Western Ghats-sri Lanka biodiversity hotspot

Locally-curved geometry generates bending cracks in the African elephant skin

MANTIS: a phylogenetic framework for multi-species genome comparisons

MetaPIGA v2.0: maximum likelihood large phylogeny estimation using the metapopulation genetic algorithm and other stochastic heuristics.

Microsatellite analysis of genetic divergence among populations of giant Galápagos tortoises

Mitochondrial DNA rates and biogeography in European newts (genus Euproctus).

Mitochondrial genome and nuclear sequence data support myzostomida as part of the annelid radiation

Molecular phylogenetic analyses indicate a wide and ancient radiation of African hepatitis delta virus, suggesting a deltavirus genus of at least seven major clades

Molecular phylogenetic analyses indicate extensive morphological convergence between the "yeti" and primates

Molecular phylogenetic analyses indicate multiple independent emergences of parasitism in Myzostomida (Protostomia).

Molecular phylogeny of cetaceans prompts revision of morphological transformations

Multiple enhancers regulate Hoxd genes and the Hotdog LncRNA during cecum budding

Novel phylogeny of whales revisited but not revised.

OligoFaktory: a visual tool for interactive oligonucleotide design

Patterns of ossification in southern versus northern placental mammals.

Photonic crystals cause active colour change in chameleons

Phylogenetic analyses indicate an atypical nurse-to-patient transmission of human immunodeficiency virus type 1

Phylogenetic analyses of DNA and allozyme data suggest that Gonioctena leaf beetles (Coleoptera; Chrysomelidae) experienced convergent evolution in their history of host-plant family shifts.

Phylogenetic mapping of scale nanostructure diversity in snakes

Phylogenomics of unusual histone H2A Variants in Bdelloid rotifers

Phylogeny and biogeography of a cosmopolitan frog radiation: Late cretaceous diversification resulted in continent-scale endemism in the family ranidae

Phylogeography and support vector machine classification of colour variation in panther chameleons

Population genetics of Galápagos land iguana (genus Conolophus) remnant populations

Population structure of an endemic vulnerable species, the Jamaican boa (Epicrates subflavus).

Precise colocalization of interacting structural and pigmentary elements generates extensive color pattern variation in Phelsuma lizards

R(2)OBBIE-3D, a Fast Robotic High-Resolution System for Quantitative Phenotyping of Surface Geometry and Colour-Texture

Recovery of a nearly extinct Galápagos tortoise despite minimal genetic variation

Reorganisation of Hoxd regulatory landscapes during the evolution of a snake-like body plan

Reptilian Transcriptomes v2.0: An Extensive Resource for Sauropsida Genomics and Transcriptomics

Reptilian-transcriptome v1.0, a glimpse in the brain transcriptome of five divergent Sauropsida lineages and the phylogenetic position of turtles

Retroviral envelope syncytin capture in an ancestrally diverged mammalian clade for placentation in the primitive Afrotherian tenrecs

Revised phylogeny of whales suggested by mitochondrial ribosomal DNA sequences

SINE evolution, missing data, and the origin of whales.

Separate-component-stabilization system for protein and DNA production without the use of antibiotics

Structure and evolution of the mitochondrial control region of leaf beetles (Coleoptera: Chrysomelidae): a hierarchical analysis of nucleotide sequence variation

The SIB Swiss Institute of Bioinformatics' resources: focus on curated databases

The anatomical placode in reptile scale morphogenesis indicates shared ancestry among skin appendages in amniotes.

The genome sequence of the corn snake (Pantherophis guttatus), a valuable resource for EvoDevo studies in squamates.

The metapopulation genetic algorithm: An efficient solution for the problem of large phylogeny estimation

The phylogeography of dusky dolphins (Lagenorhynchus obscurus): a critical examination of network methods and rooting procedures.

Translucent in air and iridescent in water: structural analysis of a salamander egg sac

Two waves of anisotropic growth generate enlarged follicles in the spiny mouse.