Imperial College London

ProfessorBorisLenhard

Faculty of MedicineInstitute of Clinical Sciences

Professor of Computational Biology
 
 
 
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Contact

 

+44 (0)20 3313 8353b.lenhard Website

 
 
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Assistant

 

Mr Alastair Douglas Ivor Williams +44 (0)20 3313 4318

 
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Location

 

230ICTEM buildingHammersmith Campus

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Summary

 

Publications

Publication Type
Year
to

156 results found

Soler E, Andrieu-Soler C, de Boer E, Christian Bryne J, Thongjuea S, Stadhouders R, Palstra R-J, Stevens M, Kockx C, van IJcken W, Hou J, Steinhoff C, Rijkers E, Lenhard B, Grosveld Fet al., 2010, Erratum: The genome-wide dynamics of the binding of Ldb1 complexes during erythroid differentiation., Genes & development, Vol: 24, Pages: 623-623, ISSN: 0890-9369

Journal article

Soler E, Andrieu-Soler C, de Boer E, Bryne JC, Thongjuea S, Stadhouders R, Palstra R-J, Stevens M, Kockx C, van IJcken W, Hou J, Steinhoff C, Rijkers E, Lenhard B, Grosveld Fet al., 2010, The genome-wide dynamics of the binding of Ldb1 complexes during erythroid differentiation, GENES & DEVELOPMENT, Vol: 24, Pages: 277-289, ISSN: 0890-9369

Journal article

Navratilova P, Fredman D, Lenhard B, Becker TSet al., 2010, Regulatory divergence of the duplicated chromosomal loci sox11a/b by subpartitioning and sequence evolution of enhancers in zebrafish, MOLECULAR GENETICS AND GENOMICS, Vol: 283, Pages: 171-184, ISSN: 1617-4615

Journal article

Ragvin A, Moro E, Fredman D, Navratilova P, Drivenes O, Engstrom PG, Alonso ME, de la Calle Mustienesg E, Gomez Skarmeta JL, Tavares MJ, Casares F, Manzanares M, van Heyningen V, Molven A, Njolstad PR, Argenton F, Lenhard B, Becker TSet al., 2010, Long-range gene regulation links genomic type 2 diabetes and obesity risk regions to HHEX, SOX4, and IRX3, PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, Vol: 107, Pages: 775-780, ISSN: 0027-8424

Journal article

Dong X, Akalin A, Sharma Y, Lenhard Bet al., 2010, Translog, a web browser for studying the expression divergence of homologous genes, BMC BIOINFORMATICS, Vol: 11, ISSN: 1471-2105

Journal article

Portales-Casamar E, Thongjuea S, Kwon AT, Arenillas D, Zhao X, Valen E, Yusuf D, Lenhard B, Wasserman WW, Sandelin Aet al., 2010, JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles, NUCLEIC ACIDS RESEARCH, Vol: 38, Pages: D105-D110, ISSN: 0305-1048

Journal article

Roider HG, Lenhard B, Kanhere A, Haas SA, Vingron Met al., 2009, CpG-depleted promoters harbor tissue-specific transcription factor binding signals-implications for motif overrepresentation analyses, NUCLEIC ACIDS RESEARCH, Vol: 37, Pages: 6305-6315, ISSN: 0305-1048

Journal article

Bessa J, Tena JJ, de la Calle-Mustienes E, Fernandez-Minan A, Naranjo S, Fernandez A, Montoliu L, Akalin A, Lenhard B, Casares F, Luis Gomez-Skarmeta Jet al., 2009, Zebrafish Enhancer Detection (ZED) Vector: A New Tool to Facilitate Transgenesis and the Functional Analysis of cis-Regulatory Regions in Zebrafish, DEVELOPMENTAL DYNAMICS, Vol: 238, Pages: 2409-2417, ISSN: 1058-8388

Journal article

Fredman D, Engström PG, Lenhard B, 2009, Web-based tools and approaches to study long-range gene regulation in Metazoa., Brief Funct Genomic Proteomic, Vol: 8, Pages: 231-242

Regulatory elements can affect specific genes from megabase distances, often from within or beyond unrelated neighbouring genes. The task of computational charting of regulatory inputs in the genome can be approached from several directions. Typically, computational identification of putative regulatory elements for a gene of interest requires tools that will aid in estimating the extent of the (potentially vast) genomic region around the gene that is likely to contain regulatory elements, as well as tools for the identification and characterization of individual elements. Conversely, starting from a putative regulatory element or a regulatory variation in a non-coding region, one often wants to associate the regulatory element with the correct target gene(s). The design of tools for these purposes relies on the remarkably high level of sequence conservation of thousands of regulatory enhancers, their strong tendency to cluster around their target genes, as well as a constrained range of functional categories of the corresponding target genes, many of which are developmental regulators. Additional evolutionary information, such as conservation of synteny, and a growing body of functional genomic and epigenomic data are being rapidly added to established and emerging tools for studying developmental regulation and cross-species conservation to provide new functional insights into the roles of these regions. In this article, we give an overview of the functionality available in general purpose and new/specialized web tools for the above tasks, and discuss current and future developments in the field.

Journal article

Suzuki H, Forrest ARR, van Nimwegen E, Daub CO, Balwierz PJ, Irvine KM, Lassmann T, Ravasi T, Hasegawa Y, de Hoon MJL, Katayama S, Schroder K, Carninci P, Tomaru Y, Kanamori-Katayama M, Kubosaki A, Akalin A, Ando Y, Arner E, Asada M, Asahara H, Bailey T, Bajic VB, Bauer D, Beckhouse AG, Bertin N, Bjorkegren J, Brombacher F, Bulger E, Chalk AM, Chiba J, Cloonan N, Dawe A, Dostie J, Engstrom PG, Essack M, Faulkner GJ, Fink JL, Fredman D, Fujimori K, Furuno M, Gojobori T, Gough J, Grimmond SM, Gustafsson M, Hashimoto M, Hashimoto T, Hatakeyama M, Heinzel S, Hide W, Hofmann O, Hornquist M, Huminiecki L, Ikeo K, Imamoto N, Inoue S, Inoue Y, Ishihara R, Iwayanagi T, Jacobsen A, Kaur M, Kawaji H, Kerr MC, Kimura R, Kimura S, Kimura Y, Kitano H, Koga H, Kojima T, Kondo S, Konno T, Krogh A, Kruger A, Kumar A, Lenhard B, Lennartsson A, Lindow M, Lizio M, MacPherson C, Maeda N, Maher CA, Maqungo M, Mar J, Matigian NA, Matsuda H, Mattick JS, Meier S, Miyamoto S, Miyamoto-Sato E, Nakabayashi K, Nakachi Y, Nakano M, Nygaard S, Okayama T, Okazaki Y, Okuda-Yabukami H, Orlando V, Otomo J, Pachkov M, Petrovsky N, Plessy C, Quackenbush J, Radovanovic A, Rehli M, Saito R, Sandelin A, Schmeier S, Schonbach C, Schwartz AS, Semple CA, Sera M, Severin J, Shirahige K, Simons C, Laurent GS, Suzuki M, Suzuki T, Sweet MJ, Taft RJ, Takeda S, Takenaka Y, Tan K, Taylor MS, Teasdale RD, Tegner J, Teichmann S, Valen E, Wahlestedt C, Waki K, Waterhouse A, AWells C, Winther O, Wu L, Yamaguchi K, Yanagawa H, Yasuda J, Zavolan M, Hume DA, Arakawa T, Fukuda S, Imamura K, Kai C, Kaiho A, Kawashima T, Kawazu C, Kitazume Y, Kojima M, Miura H, Murakami K, Murata M, Ninomiya N, Nishiyori H, Noma S, Ogawa C, Sano T, Simon C, Tagami M, Takahashi Y, Kawai J, Hayashizaki Yet al., 2009, The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line, NATURE GENETICS, Vol: 41, Pages: 553-562, ISSN: 1061-4036

Journal article

Navratilova P, Fredman D, Hawkins TA, Turner K, Lenhard B, Becker TSet al., 2009, Systematic human/zebrafish comparative identification of cis-regulatory activity around vertebrate developmental transcription factor genes, DEVELOPMENTAL BIOLOGY, Vol: 327, Pages: 526-540, ISSN: 0012-1606

Journal article

Dong X, Fredman D, Lenhard B, 2009, Synorth: exploring the evolution of synteny and long-range regulatory interactions in vertebrate genomes, GENOME BIOLOGY, Vol: 10, ISSN: 1474-760X

Journal article

Akalin A, Fredman D, Arner E, Dong X, Bryne JC, Suzuki H, Daub CO, Hayashizaki Y, Lenhard Bet al., 2009, Transcriptional features of genomic regulatory blocks, GENOME BIOLOGY, Vol: 10, ISSN: 1474-7596

Journal article

Kemmer D, Podowski RM, Yusuf D, Brumm J, Cheung W, Wahlestedt C, Lenhard B, Wasserman WWet al., 2008, Gene Characterization Index: Assessing the Depth of Gene Annotation, PLOS ONE, Vol: 3, ISSN: 1932-6203

Journal article

Engstrom PG, Fredman D, Lenhard B, 2008, Ancora: a web resource for exploring highly conserved noncoding elements and their association with developmental regulatory genes, GENOME BIOLOGY, Vol: 9, ISSN: 1474-760X

Journal article

Bryne JC, Valen E, Tang M-HE, Marstrand T, Winther O, da Piedade I, Krogh A, Lenhard B, Sandelin Aet al., 2008, JASPAR, the open access database of transcription factor-binding profiles: new content and tools in the 2008 update, NUCLEIC ACIDS RESEARCH, Vol: 36, Pages: D102-D106, ISSN: 0305-1048

Journal article

Yamasaki C, Murakami K, Fujii Y, Sato Y, Harada E, Takeda J-I, Taniya T, Sakate R, Kikugawa S, Shimada M, Tanino M, Koyanagi KO, Barrero RA, Gough C, Chun H-W, Habara T, Hanaoka H, Hayakawa Y, Hilton PB, Kaneko Y, Kanno M, Kawahara Y, Kawamura T, Matsuya A, Nagata N, Nishikata K, Noda AO, Nurimoto S, Saichi N, Sakai H, Sanbonmatsu R, Shiba R, Suzuki M, Takabayashi K, Takahashi A, Tamura T, Tanaka M, Tanaka S, Todokoro F, Yamaguchi K, Yamamoto N, Okido T, Mashima J, Hashizume A, Jin L, Lee K-B, Lin Y-C, Nozaki A, Sakai K, Tada M, Miyazaki S, Makino T, Ohyanagi H, Osato N, Tanaka N, Suzuki Y, Ikeo K, Saitou N, Sugawara H, O'Donovan C, Kulikova T, Whitfield E, Halligan B, Shimoyama M, Twigger S, Yura K, Kimura K, Yasuda T, Nishikawa T, Akiyama Y, Motono C, Mukai Y, Nagasaki H, Suwa M, Horton P, Kikuno R, Ohara O, Lancet D, Eveno E, Graudens E, Imbeaud S, Debily MA, Hayashizaki Y, Amid C, Han M, Osanger A, Endo T, Thomas MA, Hirakawa M, Makalowski W, Nakao M, Kim N-S, Yoo H-S, De Souza SJ, Bonaldo MDF, Niimura Y, Kuryshev V, Schupp I, Wiemann S, Bellgard M, Shionyu M, Jia L, Thierry-Mieg D, Thierry-Mieg J, Wagner L, Zhang Q, Go M, Minoshima S, Ohtsubo M, Hanada K, Tonellato P, Isogai T, Zhang J, Lenhard B, Kim S, Chen Z, Hinz U, Estreicher A, Nakai K, Makalowska I, Hide W, Tiffin N, Wilming L, Chakraborty R, Soares MB, Chiusano ML, Suzuki Y, Auffray C, Yamaguchi-Kabata Y, Itoh T, Hishiki T, Fukuchi S, Nishikawa K, Sugano S, Nomura N, Tateno Y, Imanishi T, Gojobori Tet al., 2008, The H-Invitational Database (H-InvDB), a comprehensive annotation resource for human genes and transcripts, NUCLEIC ACIDS RESEARCH, Vol: 36, Pages: D793-D799, ISSN: 0305-1048

Journal article

Andersen MC, Engstrom PRG, Lithwick S, Arenillas D, Eriksson P, Lenhard B, Wasserman WW, Odeberg Jet al., 2008, In silico detection of sequence variations modifying transcriptional regulation, PLOS COMPUTATIONAL BIOLOGY, Vol: 4

Journal article

Engstrom PG, Sui SJH, Drivenes O, Becker TS, Lenhard Bet al., 2007, Genomic regulatory blocks underlie extensive microsynteny conservation in insects, GENOME RESEARCH, Vol: 17, Pages: 1898-1908, ISSN: 1088-9051

Journal article

Becker TS, Lenhard B, 2007, The random versus fragile breakage models of chromosome evolution: a matter of resolution, MOLECULAR GENETICS AND GENOMICS, Vol: 278, Pages: 487-491, ISSN: 1617-4615

Journal article

Sheng Y, Engstrom PG, Lenhard B, 2007, Mammalian MicroRNA Prediction through a Support Vector Machine Model of Sequence and Structure, PLOS ONE, Vol: 2, ISSN: 1932-6203

Journal article

Carninci P, Sandelin A, Lenhard B, Katayama S, Shimokawa K, Ponjavic J, Semple CAM, Taylor MS, Engstrom PG, Frith MC, Forrest ARR, 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 Yet al., 2007, Genome-wide analysis of mammalian promoter architecture and evolution (vol 38, pg 626, 2006), NAT GENET, Vol: 39, Pages: 1174-1174, ISSN: 1061-4036

Journal article

Sandelin A, Carninci P, Lenhard B, Ponjavic J, Hayashizaki Y, Hume DAet al., 2007, Mammalian RNA polymerase II core promoters: insights from genome-wide studies, NATURE REVIEWS GENETICS, Vol: 8, Pages: 424-436, ISSN: 1471-0056

Journal article

Kikuta H, Laplante M, Navratilova P, Komisarczuk AZ, Engstrom PG, Fredman D, Akalin A, Caccamo M, Sealy I, Howe K, Ghislain J, Pezeron G, Mourrain P, Ellingsen S, Oates AC, Thisse C, Thisse B, Foucher I, Adolf B, Geling A, Lenhard B, Becker TSet al., 2007, Genomic regulatory blocks encompass multiple neighboring genes and maintain conserved synteny in vertebrates, GENOME RESEARCH, Vol: 17, Pages: 545-555, ISSN: 1088-9051

Journal article

Pang KC, Stephen S, Dinger ME, Engstrom PG, Lenhard B, Mattick JSet al., 2007, RNAdb 2.0-an expanded database of mammalian non-coding RNAs, NUCLEIC ACIDS RESEARCH, Vol: 35, Pages: D178-D182, ISSN: 0305-1048

Journal article

Vidal OM, Merino R, Rico-Bautista E, Fernandez-Perez L, Chia DJ, Woelfle J, Ono M, Lenhard B, Norstedt G, Rotwein P, Flores-Morales Aet al., 2007, In vivo transcript profiling and phylogenetic analysis identifies suppressor of cytokine signaling 2 as a direct signal transducer and activator of transcription 5b target in liver, MOLECULAR ENDOCRINOLOGY, Vol: 21, Pages: 293-311, ISSN: 0888-8809

Journal article

Kikuta H, Fredman D, Rinkwitz S, Lenhard B, Becker TSet al., 2007, Retroviral enhancer detection insertions in zebrafish combined with comparative genomics reveal genomic regulatory blocks - a fundamental feature of vertebrate genomes, GENOME BIOLOGY, Vol: 8, ISSN: 1474-7596

Journal article

Bailey PJ, Klos JM, Andersson E, Karlen M, Kallstrom M, Ponjavic J, Muhr J, Lenhard B, Sandelin A, Ericson Jet al., 2006, A global genomic transcriptional code associated with CNS-expressed genes, EXPERIMENTAL CELL RESEARCH, Vol: 312, Pages: 3108-3119, ISSN: 0014-4827

Journal article

Carninci P, Sandelin A, Lenhard B, Katayama S, Shimokawa K, Ponjavic J, Semple CAM, Taylor MS, Engstrom PG, Frith MC, Forrest ARR, 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 Yet al., 2006, Genome-wide analysis of mammalian promoter architecture and evolution, NATURE GENETICS, Vol: 38, Pages: 626-635, ISSN: 1061-4036

Journal article

Maeda N, Kasukawa T, Oyama R, Gough J, Frith M, Engstrom PG, Lenhard B, Aturaliya RN, Batalov S, Beisel KW, Bult CJ, Fletcher CF, Forrest ARR, 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 Yet al., 2006, Transcript annotation in FANTOM3: Mouse gene catalog based on physical cDNAs, PLOS GENETICS, Vol: 2, Pages: 498-503, ISSN: 1553-7404

Journal article

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