Lenhard Group - Selected Publications

Maeda N, Kasukawa T, Oyama R, Gough J, Frith M, Engström PG, Lenhard B, Aturaliya RN, Batalov S, Beisel KW, Bult CJ, Fletcher CF, Forrest AR, Furuno M, Hill D, Itoh M, Kanamori-Katayama M, Katayama S, Katoh M, Kawashima T, Quackenbush J, Ravasi T, Ring BZ, Shibata K, Sugiura K, Takenaka Y, Teasdale RD, Wells CA, Zhu Y, Kai C, Kawai J, Hume DA, Carninci P, Hayashizaki Y (2006). Transcript annotation in FANTOM3: mouse gene catalog based on physical cDNAs. PLoS Genet. , 2:e47.

Engström PG, Suzuki H, Ninomiya N, Akalin A, Sessa L, Lavorgna G, Brozzi A, Luzi L, Tan SL, Yang L, Kunarso G, Ng EL, Batalov S, Wahlestedt C, Kai C, Kawai J, Carninci P, Hayashizaki Y, Wells C, Bajic VB, Orlando V, Reid JF, Lenhard B, Lipovich L (2006). Complex Loci in human and mouse genomes. PLoS Genet., 2(4):e62. Epub 2006 Apr 28.

Carninci P, Sandelin A, Lenhard B, Katayama S, Shimokawa K, Ponjavic J, Semple CA, Taylor MS, Engström PG, Frith MC, Forrest AR, Alkema WB, Tan SL, Plessy C, Kodzius R, Ravasi T, Kasukawa T, Fukuda S, Kanamori-Katayama M, Kitazume Y, Kawaji H, Kai C, Nakamura M, Konno H, Nakano K, Mottagui-Tabar S, Arner P, Chesi A, Gustincich S, Persichetti F, Suzuki H, Grimmond SM, Wells CA, Orlando V, Wahlestedt C, Liu ET, Harbers M, Kawai J, Bajic VB, Hume DA, Hayashizaki Y (2006). Genome-wide analysis of mammalian promoter architecture and evolution. Nat Genet., 38(6):626-35. Epub 2006 Apr 28.

Andersen M, Lenhard B, Whatling C, Eriksson P, Odeberg J (2006). Alternative promoter usage of the membrane glycoprotein CD36. BMC Mol Biol., 7(1):8.

Gómez-Skarmeta JL, Lenhard B and Becker TS (2006). New technologies, new findings and new concepts in the study of vertebrate cis-regulatory sequences. Review Dev Dyn. 235:870-885.

Vlieghe D, Sandelin A, De Bleser PJ, Vleminckx K, Wasserman WW, van Roy F, Lenhard B (2006). A new generation of JASPAR, the open-access repository for transcription factor binding site profiles., Nucleic Acids Res., 1;34(Database issue):D95-7.

Stahlberg N, Merino R, Hernandez LH, Fernandez-Perez L, Sandelin A, Engström PG, Tollet-Egnell P, Lenhard B, Flores-Morales A (2005). Exploring hepatic hormone actions using a compilation of gene expression profiles. BMC Physiol., 13;5(1):8.

Mottagui-Tabar S, Faghihi MA, Mizuno Y, Engström PG, Lenhard B, Wasserman WW, Wahlestedt C (2005). Identification of functional SNPs in the 5-prime flanking sequences of human genes. BMC Genomics., 17;6(1):18.

Pang KC, Stephen S, Engstrom PG, Tajul-Arifin K, Chen W, Wahlestedt C, Lenhard B, Hayashizaki Y, Mattick JS (2005). RNAdb--a comprehensive mammalian noncoding RNA database. Nucleic Acids Res., 1;33(Database issue):D125-30.

Sandelin A, Bailey P, Bruce S, Engström P, Klos JM, Wasserman WW, Ericson J, Lenhard B (2004). Arrays of ultraconserved non-coding regions span the loci of key developmental genes in vertebrate genomes. BMC Genomics, 5:99.

Katzov H, Bennet AM, Kehoe P, Wiman B, Gatz M, Blennow K, Lenhard B, Pedersen NL, de Faire U, Prince JA (2004). A cladistic model of ACE sequence variation with implications for myocardial infarction, Alzheimer disease and obesity. Hum Mol Genet., 1;13(21):2647-57. Epub 2004 Sep 14.

Imanishi T, Itoh T, Suzuki Y, ....., Lenhard B, ...., Strausberg RL, Isogai T, Auffray C, Nomura N, Gojobori T, Sugano S [158 authors total] (2004). Integrative annotation of 23,149 human genes validated by full-length cDNA clones. PLoS Biol., 2:856-75. Epub 2004 Apr 20. Erratum in: PLoS Biol. 2004 Jul;2(7):e256.

Johansson A, Katzov H, Zetterberg H, Feuk L, Johansson B, Bogdanovic N, Andreasen N, Lenhard B, Brookes AJ, Pedersen NL, Blennow K, Prince JA (2004). Variants of CYP46A1 may interact with age and APOE to influence CSF Abeta42 levels in Alzheimer's disease. Hum Genet., 114(6):581-7. Epub 2004 Mar 18.

Sandelin A, Wasserman WW, Lenhard B (2004). ConSite: web-based prediction of regulatory elements using cross-species comparison. Nucleic Acids Res., 32:W249-52.

Alkema WA, Lenhard B, Wasserman WW (2004). Regulog analysis: detection of conserved regulatory networks across bacteria. Genome Res., 14:1362-73.

Sandelin A, Alkema W, Engström P, Wasserman WW, Lenhard B (2004). JASPAR: An Open-Access Database for Eukaryotic Transcription Factor Binding Profiles. Nucleic Acids Res.32: D91-4.

Sandelin A, Hoglund A, Lenhard B, Wasserman WW (2003). Integrated analysis of yeast regulatory sequences for biologically linked clusters of genes. Funct Integr Genomics., 3(3):125-34. Epub 2003 Jun 25.

Lenhard B, Wahlestedt C, Wasserman WW (2003). GeneLynx mouse: integrated portal to the mouse genome. Genome Res., 13(6B):1501-4.

Lenhard B, Sandelin A, Mendoza L, Engström P., Jareborg N, Wasserman WW (2003). Identification of conserved regulatory regions by comparative genome analysis. J Biol., 2:13

Okazaki Y, Furuno M, Kasukawa T, Adachi J, Bono H, Kondo S, Nikaido I, Osato, ..., Lenhard B, ..., Lander ES, Rogers J, Birney E, Hayashizaki Y [150 authors total] (2002). Analysis of the Mouse Transcriptome Based Upon Functional Annotation of 60770 full-length cDNAs. Nature, 420:563-73.

Lenhard B, Wasserman WW (2002). TFBS: Computational framework for transcription factor binding site analysis. Bioinformatics, 18:1135-6.

Lenhard B, Hayes WS, Wasserman WW (2001). GeneLynx: a gene-centric portal to the human genome. Genome Res., 11:2151-7.