Publications

2010

Human functional genetic studies are biased against the medically most relevant primate-specific genes.
Hao L, Ge X, Wan H, Hu S, Lercher MJ, Yu J, Chen WH
BMC Evol Biol. 2010. 10:316. PubMed PMID: 20961448

Shotgun proteomics data from multiple organisms reveals remarkable quantitative conservation of the eukaryotic core proteome.
Weiss M, Schrimpf S, Hengartner MO, Lercher MJ, von Mering C.
Proteomics. 2010 Jan 13. [Epub ahead of print] PubMed PMID: 20077411.

2009

Does negative auto-regulation increase gene duplicability?
Warnecke T, Wang GZ, Lercher MJ, Hurst LD.
BMC Evol Biol. 2009 Aug 7;9:193. PubMed PMID:19664220

ColorTree: a batch customization tool for phylogenic trees.
Chen WH, Lercher MJ.
BMC Res Notes. 2009 Jul 31;2:155. PubMed PMID: 19646243

Comparative functional analysis of the Caenorhabditis elegans and Drosophila melanogaster proteomes.
Schrimpf SP, Weiss M, Reiter L, Ahrens CH, Jovanovic M, Malmström J, Brunner E, Mohanty S, Lercher MJ, Hunziker PE, Aebersold R, von Mering C, Hengartner MO.
PLoS Biol. 2009 Mar 3;7(3):e48. PubMed PMID: 19260763

2008

Integration of horizontally transferred genes into regulatory interaction networks takes many million years.
Lercher MJ, Pál C.
Mol Biol Evol. 2008 Mar;25(3):559-67. Epub 2007 Dec 24. PubMed PMID: 18158322.

2007

Integration of horizontally transferred genes into regulatory interaction networks takes many million years.
Lercher MJ, Pál C.
Mol Biol Evol. 2008 Mar;25(3):559-67. Epub 2007 Dec 24. PubMed PMID: 18158322.

Prediction of effective genome size in metagenomic samples.
Raes J, Korbel JO, Lercher MJ, von Mering C, Bork P.
Genome Biol. 2007;8(1):R10. PubMed PMID: 17224063

2006

Phylogenomic analysis reveals bees and wasps (Hymenoptera) at the base of the radiation of Holometabolous insects.
Savard J, Tautz D, Richards S, Weinstock GM, Gibbs RA, Werren JH, Tettelin H, Lercher MJ.
Genome Res. 2006 Nov;16(11):1334-8. Epub 2006 Oct 25. PubMed PMID: 17065606

Co-expressed yeast genes cluster over a long range but are not regularly spaced.
Lercher MJ, Hurst LD.
J Mol Biol. 2006 Jun 9;359(3):825-31. Epub 2006 Apr 6. PubMed PMID: 16631793.

An integrated view of protein evolution.
Pál C, Papp B, Lercher MJ.
Nat Rev Genet. 2006 May;7(5):337-48. Review. PubMed PMID: 16619049.

Understanding the degradation of hominid gene control.
Keightley PD, Lercher MJ, Eyre-Walker A.
PLoS Comput Biol. 2006 Mar;2(3):e19; author reply e26. PubMed PMID: 16604186

Chance and necessity in the evolution of minimal metabolic networks.
Pál C, Papp B, Lercher MJ, Csermely P, Oliver SG, Hurst LD.
Nature. 2006 Mar 30;440(7084):667-70. PubMed PMID: 16572170.

X-chromosome-wide profiling of MSL-1 distribution and dosage compensation in Drosophila.
Legube G, McWeeney SK, Lercher MJ, Akhtar A.
Genes Dev. 2006 Apr 1;20(7):871-83. Epub 2006 Mar 17. PubMed PMID: 16547175;

Similar gene expression profiles do not imply similar tissue functions.
Yanai I, Korbel JO, Boue S, McWeeney SK, Bork P, Lercher MJ.
Trends Genet. 2006 Mar;22(3):132-8. Epub 2006 Feb 9. Review. PubMed PMID: 16480787.

Genome-wide acceleration of protein evolution in flies (Diptera).
Savard J, Tautz D, Lercher MJ.
BMC Evol Biol. 2006 Jan 25;6:7. PubMed PMID: 16436210

2005

Adaptive evolution of bacterial metabolic networks by horizontal gene transfer.
Pál C, Papp B, Lercher MJ.
Nat Genet. 2005 Dec;37(12):1372-5. Epub 2005 Nov 20. PubMed PMID: 16311593.

Unusual linkage patterns of ligands and their cognate receptors indicate a novel reason for non-random gene order in the human genome.
Hurst LD, Lercher MJ.
BMC Evol Biol. 2005 Nov 8;5:62. PubMed PMID: 16277660; PubMed Central PMCID: PMC1309615.

Horizontal gene transfer depends on gene content of the host. Bioinformatics.
Pál C, Papp B, Lercher MJ.
2005 Sep 1;21 Suppl 2:ii222-3. PubMed PMID: 16204108.

Evidence for widespread degradation of gene control regions in hominid genomes.
Keightley PD, Lercher MJ, Eyre-Walker A.
PLoS Biol. 2005 Feb;3(2):e42. Epub 2005 Jan 25. PubMed PMID: 15678168

2004

Gene expression, synteny, and local similarity in human noncoding mutation rates.
Webster MT, Smith NG, Lercher MJ, Ellegren H.
Mol Biol Evol. 2004 Oct;21(10):1820-30. Epub 2004 Jun 2. PubMed PMID: 15175414.

Genomic regionality in rates of evolution isnot explained by clustering of genes of comparable expression profile.
Lercher MJ, Chamary JV, Hurst LD.
Genome Res. 2004 Jun;14(6):1002-13. PubMed PMID: 15173108

The evolutionary dynamics of eukaryotic gene order.
Hurst LD, Pál C, Lercher MJ.
Nat Rev Genet. 2004 Apr;5(4):299-310. Review. PubMed PMID: 15131653.

2003

Imprinted chromosomal regions of the human genome have unusually high recombination rates.
Lercher MJ, Hurst LD.
Genetics. 2003 Nov;165(3):1629-32. PubMed PMID: 14733198

A unification of mosaic structures in the human genome.
Lercher MJ, Urrutia AO, Pavlícek A, Hurst LD.
Hum Mol Genet. 2003 Oct 1;12(19):2411-5. Epub 2003 Jul 29.

Evidence that the human X chromosome is enriched for male-specific but not female-specific genes.
Lercher MJ, Urrutia AO, Hurst LD.
Mol Biol Evol. 2003 Jul;20(7):1113-6. Epub 2003 May 30. PubMed PMID: 12777530.

Coexpression of neighboring genes in Caenorhabditis elegans is mostly due to operons and duplicate genes.
Lercher MJ, Blumenthal T, Hurst LD.
Genome Res. 2003 Feb;13(2):238-43. PubMed PMID: 12566401;

2002

The evolution of isochores:evidence from SNP frequency distributions.
Lercher MJ, Smith NG, Eyre-Walker A
Genetics. 2002 Dec;162(4):1805-10. PubMed PMID: 12524350; PubMed Central PMCID: PMC1462390.

Can mutation or fixation biases explain the allele frequency distribution of human single nucleotide polymorphisms (SNPs)? Gene.
Lercher MJ
Hurst LD.2002 Oct 30;300(1-2):53-8. PubMed PMID: 12468085.

Human SNP variability and mutation rate are higher in regions of high recombination.
Lercher MJ, Hurst LD.
Trends Genet. 2002 Jul;18(7):337-40. Review. PubMed PMID: 12127766.

Regional similarities in polymorphism in the human genome extend over many megabases. Trends Genet.
Smith NG, Lercher MJ. 2002 Jun;18(6):281-3. PubMed PMID: 12044348.

Hurst LD. Clustering of housekeeping genes provides a unified model of gene order in the human genome.
Lercher MJ, Urrutia AO, Hurst LD.
Nat Genet. 2002 Jun;31(2):180-3. Epub 2002 May 6. PubMed PMID: 11992122.