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List of works by Nick Goldman

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Experimental design criteria in phylogenetics: where to add taxa

scientific article published in August 2007
Simple diagnostic statistical tests of models for DNA substitution

scientific article published in December 1993
Pandit: a database of protein and associated nucleotide domains with inferred trees

scientific article published in August 2003
A model of evolution and structure for multiple sequence alignment

scientific article published on December 2008
Who watches the watchmen? An appraisal of benchmarks for multiple sequence alignment.

scientific article
A penalized-likelihood method to estimate the distribution of selection coefficients from phylogenetic data

scientific article (publication date: May 2014)
The human blood DNA methylome displays a highly distinctive profile compared with other somatic tissues.

scientific article published on January 2015
PhyloSim - Monte Carlo simulation of sequence evolution in the R statistical computing environment

scientific article
Phylogenomics and bioinformatics of SARS-CoV.

scientific article published on March 2004
Species choice for comparative genomics: being greedy works

scientific article
Phylogenetic analysis of the rpoB gene from the plastid-like DNA of Plasmodium falciparum

scientific article published in August 1994
Looking for Darwin in genomic sequences--validity and success of statistical methods

scientific article published on 3 April 2012
Further results on error minimization in the genetic code

scientific article published on 01 December 1993
All Your Base: a fast and accurate probabilistic approach to base calling

scientific article
PASSML: combining evolutionary inference and protein secondary structure prediction

scientific article published on January 1, 1998
Clustering Genes of Common Evolutionary History

scientific article published on 17 February 2016
Using protein structural information in evolutionary inference: transmembrane proteins

scientific article published in December 1999
Addressing Inter-Gene Heterogeneity in Maximum Likelihood Phylogenomic Analysis: Yeasts Revisited

scientific article published on August 5, 2011
Uniting Alignments and Trees

scientific article
Variance to mean ratio, R(t), for poisson processes on phylogenetic trees

scientific article published in September 1994
Determination and validation of principal gene products

scientific article
A new criterion and method for amino acid classification

scientific article published in May 2004
Evidence for mitochondrial DNA recombination in a human population of island Melanesia: correction

article
Simple chained guide trees give poorer multiple sequence alignments than inferred trees in simulation and phylogenetic benchmarks.

scientific article published on 6 January 2015
Effects of sequence alignment procedures on estimates of phylogeny

article
Maximum likelihood inference of small trees in the presence of long branches.

scientific article published on 4 July 2014
EDIBLE: experimental design and information calculations in phylogenetics

scientific article published on 01 March 2000
Resource-aware taxon selection for maximizing phylogenetic diversity

scientific article published in June 2007
Markovian and non-Markovian protein sequence evolution: aggregated Markov process models

scientific article published on 21 June 2011
Rapidly evolving human promoter regions

scientific article published in November 2008
More on the Best Evolutionary Rate for Phylogenetic Analysis

scientific article
Human origins. Genetics and geography

scientific article
Alignment modulates ancestral sequence reconstruction accuracy

scientific article published on 3 April 2018
Human immunodeficiency virus type 2 (HIV-2) env gene analysis: prediction of glycoprotein epitopes important for heterotypic neutralization and evidence for three genotype clusters within the HIV-2a subtype

scientific article
Are big trees indeed easy?

scientific article published in August 1997
What's in a likelihood? Simple models of protein evolution and the contribution of structurally viable reconstructions to the likelihood

scientific article
Error-correcting properties of the SOLiD Exact Call Chemistry

scientific article
Short template switch events explain mutation clusters in the human genome

scientific article
Introduction. Statistical and computational challenges in molecular phylogenetics and evolution

scientific article (publication date: 27 December 2008)
Maximum Likelihood Phylogenetic Inference is Consistent on Multiple Sequence Alignments, with or without Gaps

scientific article
Sequence Bundles: a novel method for visualising, discovering and exploring sequence motifs

scientific article
[Evaluation and extension of Markov process models for the evolution of DNA]

article
Statistics of the log-det estimator

scientific article published on 16 August 2007
An improved protocol for sequencing of repetitive genomic regions and structural variations using mutagenesis and next generation sequencing

scientific article
Modeling Mitochondrial Protein Evolution Using Structural Information

Modeling Structural Constraints on Protein Evolution via Side-Chain Conformational States

scientific article published on 01 September 2019
Improving communication for interdisciplinary teams working on storage of digital information in DNA.

scientific article published on 10 January 2018
Fewest Variables Coding Method for Multistate Characters

article published in 1989
Genomic reconstruction of the SARS-CoV-2 epidemic in England

scientific article
Stability of SARS-CoV-2 phylogenies

scientific article published on 18 November 2020

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