FUGE bioinformatics platform FUGE
Platform partners:
Recent publications
Online tools:
Ka/Ks calculation

RBR and xsact
Widget Toolbox:
Alignment Conversion
Sequence Conversion
Tree Conversion
Alignment to coding
Site map

Recent publications

[download all in BibTeX]

Korkmaz, B.; Hajjar, E.; Kalupov, T.; Reuter, N.; Bourdet, M.B.; Moreau, T.; Juliano, L. & Gauthier, F. Influence of charge distribution at the active site surface on the substrate specificity of human neutrophil protease 3 and elastase. A kinetic and molecular modeling analysis.  J Biol Chem, 2007, 282, 1989-1997
Lindqvist, C.; Laakkonen, L. & Albert, V.A. Polyglutamine variation in a flowering time protein correlates with island age in a Hawaiian plant radiation.  BMC Evol Biol, 2007, 7, 105
Skjaerven, L.; Jonassen, I. & Reuter, N. TMM@: a web application for the analysis of transmembrane helix mobility.  BMC Bioinformatics, 2007, 8, 232
Soltis, D.E.; Ma, H.; Frohlich, M.W.; Soltis, P.S.; Albert, V.A.; Oppenheimer, D.G.; Altman, N.S.; Depamphilis, C. & Mack, J.L. The floral genome: an evolutionary history of gene duplication and shifting patterns of gene expression.  Trends Plant Sci, 2007, 12, 358-367
Andersen, M.; Lenhard, B.; Whatling, C.; Eriksson, P. & Odeberg, J. Alternative promoter usage of the membrane glycoprotein CD36.  BMC Mol Biol, 2006, 7, 8
Barsnes, H.; Mikalsen, S. & Eidhammer, I. MassSorter: a tool for administrating and analyzing data from mass spectrometry experiments on proteins with known amino acid sequences.  BMC Bioinformatics, 2006, 7, 42
Berven, F.S.; Karlsen, O.A.; Straume, A.H.; Flikka, K.; Murrell, J.C.; Fjellbirkeland, A.; Lillehaug, J.R.; Eidhammer, I. & Jensen, H.B. Analysing the outer membrane subproteome of Methylococcus capsulatus (Bath) using proteomics and novel biocomputing tools.  Arch Microbiol, 2006, 184, 362-377
Carninci, P.; Sandelin, A.; Lenhard, B.; Katayama, S.; Shimokawa, K.; Ponjavic, J.; Semple, C.A.M.; Taylor, M.S.; Engström, P.G.; Frith, M.C.; Forrest, A.R.R.; Alkema, W.B.; Tan, S.L.; Plessy, C.; Kodzius, R.; Ravasi, T.; Kasukawa, T.; Fukuda, S.; Katayama, M.K.; Kitazume, Y.; Kawaji, H.; Kai, C.; Nakamura, M.; Konno, H.; Nakano, K.; Tabar, S.M.; Arner, P.; Chesi, A.; Gustincich, S.; Persichetti, F.; Suzuki, H.; Grimmond, S.M.; Wells, C.A.; Orlando, V.; Wahlestedt, C.; Liu, E.T.; Harbers, M.; Kawai, J.; Bajic, V.B.; Hume, D.A. & Hayashizaki, Y. Genome-wide analysis of mammalian promoter architecture and evolution.  Nat Genet, 2006, 38, 626-635
Cui, L.; Wall, P.K.; Mack, J.H.L.; Lindsay, B.G.; Soltis, D.E.; Doyle, J.J.; Soltis, P.S.; Carlson, J.E.; Arumuganathan, K.; Barakat, A.; Albert, V.A.; Ma, H. & dePamphilis, C.W. Widespread genome duplications throughout the history of flowering plants.  Genome Res, 2006, 16, 738-749
Dysvik, B.; Vasstrand, E.N.; Løvlie, R.; Elgindi, O.A.; Kross, K.W.; Aarstad, H.J.; Johannessen, A.C.; Jonassen, I. & Ibrahim, S.O. Gene expression profiles of head and neck carcinomas from Sudanese and Norwegian patients reveal common biological pathways regardless of race and lifestyle.  Clin Cancer Res, 2006, 12, 1109-1120
Engstrom, P.G.; Suzuki, H.; Ninomiya, N.; Akalin, A.; Sessa, L.; Lavorgna, G.; Brozzi, A.; Luzi, L.; Tan, S.L.; Yang, L.; Kunarso, G.; Ng, E.L.; Batalov, S.; Wahlestedt, C.; Kai, C.; Kawai, J.; Carninci, P.; Hayashizaki, Y.; Wells, C.; Bajic, V.B.; Orlando, V.; Reid, J.F.; Lenhard, B. & Lipovich, L. Complex Loci in human and mouse genomes.  PLoS Genet, 2006, 2, e47
Flikka, K.; Martens, L.; Vandekerckhove, J.; Gevaert, K. & Eidhammer, I. Improving the reliability and throughput of mass spectrometry-based proteomics by spectrum quality filtering.  Proteomics, 2006, 6, 2086-2094
Fredman, D.; Sawyer, S.L.; Strömqvist, L.; Tabar, S.M.; Kidd, K.K.; Wahlestedt, C.; Chanock, S.J. & Brookes, A.J. Nonsynonymous SNPs: validation characteristics, derived allele frequency patterns, and suggestive evidence for natural selection.  Hum Mutat, 2006, 27, 173-186
Frith, M.C.; Ponjavic, J.; Fredman, D.; Kai, C.; Kawai, J.; Carninci, P.; Hayshizaki, Y. & Sandelin, A. Evolutionary turnover of mammalian transcription start sites.  Genome Res, 2006, 16, 713-722
Hajjar, E.; Korkmaz, B.; Gauthier, F.; Brandsdal, B.O.; Sarsat, V.W. & Reuter, N. Inspection of the binding sites of proteinase3 for the design of a highly specific substrate.  J Med Chem, 2006, 49, 1248-1260
Jonassen, I.; Klose, D. & Taylor, W.R. Protein model refinement using structural fragment tessellation.  Comput Biol Chem, 2006, 30, 360-366
Laakkonen, L.; Jobson, R.W. & Albert, V.A. A new model for the evolution of carnivory in the bladderwort plant (utricularia): adaptive changes in cytochrome C oxidase (COX) provide respiratory power.  Plant Biol (Stuttg), 2006, 8, 758-764
Laitinen, R.; Broholm, S.; Albert, V.; Teeri, T. & Elomaa, P. Patterns of MADS-box gene expression mark flower-type development in Gerbera hybrida (Asteraceae).  BMC Plant Biol, 2006, 6, 11
Lindqvist, C.; Scheen, A.; Yoo, M.; Grey, P.; Oppenheimer, D.G.; Mack, J.H.L.; Soltis, D.E.; Soltis, P.S. & Albert, V.A. An expressed sequence tag (EST) library from developing fruits of an Hawaiian endemic mint (Stenogyne rugosa, Lamiaceae): characterization and microsatellite markers.  BMC Plant Biol, 2006, 6, 16
Maeda, N.; Kasukawa, T.; Oyama, R.; Gough, J.; Frith, M.; Engström, P.G.; Lenhard, B.; Aturaliya, R.N.; Batalov, S.; Beisel, K.W.; Bult, C.J.; Fletcher, C.F.; Forrest, A.R.R.; Furuno, M.; Hill, D.; Itoh, M.; Katayama, M.K.; Katayama, S.; Katoh, M.; Kawashima, T.; Quackenbush, J.; Ravasi, T.; Ring, B.Z.; Shibata, K.; Sugiura, K.; Takenaka, Y.; Teasdale, R.D.; Wells, C.A.; Zhu, Y.; Kai, C.; Kawai, J.; Hume, D.A.; Carninci, P. & Hayashizaki, Y. Transcript annotation in FANTOM3: mouse gene catalog based on physical cDNAs.  PLoS Genet, 2006, 2, e62
Malde, K. & Giegerich, R. Calculating PSSM probabilities with lazy dynamic programming J. Funct. Program., Cambridge University Press, 2006, 16, 75-81
Oyan, A.M.; Bø, T.H.; Jonassen, I.; Gjertsen, B.T.; Bruserud, Ø. & Kalland, K. cDNA microarray analysis of non-selected cases of acute myeloid leukemia demonstrates distinct clustering independent of cytogenetic aberrations and consistent with morphological signs of differentiation. Int J Oncol, 2006, 28, 1065-80
Rastogi, S.; Reuter, N. & Liberles, D.A. Evaluation of models for the evolution of protein sequences and functions under structural constraint.  Biophys Chem, 2006, 124, 134-144
Rayner, T.; Serra, P.R.; Spellman, P.; Causton, H.; Farne, A.; Holloway, E.; Irizarry, R.; Liu, J.; Maier, D.; Miller, M.; Petersen, K.; Quackenbush, J.; Sherlock, G.; Stoeckert, C.; White, J.; Whetzel, P.; Wymore, F.; Parkinson, H.; Sarkans, U.; Ball, C. & Brazma, A. A simple spreadsheet-based, MIAME-supportive format for microarray data: MAGE-TAB.  BMC Bioinformatics, 2006, 7, 489
Saetrom, P.; Snøve, O.; Nedland, M.; Grünfeld, T.B.; Lin, Y.; Bass, M.B. & Canon, J.R. Conserved microRNA characteristics in mammals.  Oligonucleotides, 2006, 16, 115-144
Sakariassen, P.O.; Prestegarden, L.; Wang, J.; Skaftnesmo, K.; Mahesparan, R.; Molthoff, C.; Sminia, P.; Sundlisæter, E.; Misra, A.; Tysnes, B.B.; Chekenya, M.; Peters, H.; Lende, G.; Kalland, K.H.; Oyan, A.M.; Petersen, K.; Jonassen, I.; van der Kogel, A.; Feuerstein, B.G.; Terzis, A.J.A.; Bjerkvig, R. & Enger, P.O. Angiogenesis-independent tumor growth mediated by stem-like cancer cells.  Proc Natl Acad Sci U S A, 2006
Skarmeta, J.L.G.; Lenhard, B. & Becker, T.S. New technologies, new findings, and new concepts in the study of vertebrate cis-regulatory sequences.  Dev Dyn, 2006, 235, 870-885
Snove, O. & Rossi, J. Toxicity in mice expressing short hairpin RNAs gives new insight into RNAi.  Genome Biol, 2006, 7, 231
Snove, O. & Rossi, J.J. Chemical Modifications Rescue Off-Target Effects of RNAi JJ. ACS Chem. Biol., 2006, 1, 274–276
Snove, O. & Rossi, J.J. Expressing short hairpin RNAs in vivo.  Nat Methods, 2006, 3, 689-695
Taylor, W.R.; Lin, K.; Klose, D.; Fraternali, F. & Jonassen, I. Dynamic domain threading.  Proteins, 2006
Teeri, T.H.; Elomaa, P.; Kotilainen, M. & Albert, V.A. Mining plant diversity: Gerbera as a model system for plant developmental and biosynthetic research.  Bioessays, 2006, 28, 756-767
Teeri, T.H.; Kotilainen, M.; Uimari, A.; Ruokolainen, S.; Ng, Y.; Malm, U.; Pollanen, E.; Broholm, S.; Laitinen, R.; Elomaa, P. & Albert, V.A. Floral developmental genetics of Gerbera (Asteraceae). In Soltis, D.E.; Mack, J.H.L. & Soltis, P.S. (ed.) Developmental Genetics of the Flower, Advances in Botanical Research 44.  Elsevier, London., 2006
Vlieghe, D.; Sandelin, A.; Bleser, P.J.D.; Vleminckx, K.; Wasserman, W.W.; van Roy, F. & Lenhard, B. A new generation of JASPAR, the open-access repository for transcription factor binding site profiles.  Nucleic Acids Res, 2006, 34, D95-D97
Yoo, M.; Albert, V.; Soltis, P. & Soltis, D. Phylogenetic diversification of glycogen synthase kinase 3/SHAGGY-like kinasegenes in plants.  BMC Plant Biol, 2006, 6, 3
Albert, V.A.; Soltis, D.E.; Carlson, J.E.; Farmerie, W.G.; Wall, P.K.; Ilut, D.C.; Solow, T.M.; Mueller, L.A.; Landherr, L.L.; Hu, Y.; Buzgo, M.; Kim, S.; Yoo, M.; Frohlich, M.W.; Treves, R.P.; Schlarbaum, S.E.; Bliss, B.J.; Zhang, X.; Tanksley, S.D.; Oppenheimer, D.G.; Soltis, P.S.; Ma, H.; DePamphilis, C.W. & Mack, J.H.L. Floral gene resources from basal angiosperms for comparative genomics research.  BMC Plant Biol, 2005, 5, 5
Bratlie, M.S. & Drabløs, F. Bioinformatic mapping of AlkB homology domains in viruses.  BMC Genomics, 2005, 6, 1
Dublet, B.; Ruello, A.; Pederzoli, M.; Hajjar, E.; Courbebaisse, M.; Canteloup, S.; Reuter, N. & Sarsat, V.W. Cleavage of p21/WAF1/CIP1 by proteinase 3 modulates differentiation of a monocytic cell line. Molecular analysis of the cleavage site.  J Biol Chem, 2005, 280, 30242-30253
Halvorsen, O.J.; Oyan, A.M.; Bø, T.H.; Olsen, S.; Rostad, K.; Haukaas, S.A.; Bakke, A.M.; Marzolf, B.; Dimitrov, K.; Stordrange, L.; Lin, B.; Jonassen, I.; Hood, L.; Akslen, L.A. & Kalland, K. Gene expression profiles in prostate cancer: association with patient subgroups and tumour differentiation.  Int J Oncol, 2005, 26, 329-36
Hinsen, K.; Reuter, N.; Navaza, J.; Stokes, D.L. & Lacapère, J. Normal mode-based fitting of atomic structure into electron density maps: application to sarcoplasmic reticulum Ca-ATPase.  Biophys J, 2005, 88, 818-27
Hjelmervik, T.O.R.; Petersen, K.; Jonassen, I.; Jonsson, R. & Bolstad, A.I. Gene expression profiling of minor salivary glands clearly distinguishes primary Sjögren's syndrome patients from healthy control subjects.  Arthritis Rheum, 2005, 52, 1534-1544
Hollup, S.M.; Salensminde, G. & Reuter, N. WEBnm@: a web application for normal mode analyses of proteins.  BMC Bioinformatics, 2005, 6, 52
Katayama, S.; Tomaru, Y.; Kasukawa, T.; Waki, K.; Nakanishi, M.; Nakamura, M.; Nishida, H.; Yap, C.C.; Suzuki, M.; Kawai, J.; Suzuki, H.; Carninci, P.; Hayashizaki, Y.; Wells, C.; Frith, M.; Ravasi, T.; Pang, K.C.; Hallinan, J.; Mattick, J.; Hume, D.A.; Lipovich, L.; Batalov, S.; Engström, P.G.; Mizuno, Y.; Faghihi, M.A.; Sandelin, A.; Chalk, A.M.; Tabar, S.M.; Liang, Z.; Lenhard, B.; Wahlestedt, C.; Group, R.I.K.E.N.G.E.R.; Group), G.S.G.(.N.P.C. & Consortium, F.A.N.T.O.M. Antisense transcription in the mammalian transcriptome. Science, 2005, 309, 1564-1566
Malde, K.; Coward, E. & Jonassen, I. A graph based algorithm for generating EST consensus sequences.  Bioinformatics, 2005, 21, 1371-5
Oyan, A.M.; Bø, T.H.; Jonassen, I.; Ulvestad, E.; Gjertsen, B.T.; Kalland, K. & Bruserud, O. CD34 expression in native human acute myelogenous leukemia blasts: differences in CD34 membrane molecule expression are associated with different gene expression profiles.  Cytometry B Clin Cytom, 2005, 64, 18-27
Pánek, J.; Eidhammer, I. & Aasland, R. A new method for identification of protein (sub)families in a set of proteins based on hydropathy distribution in proteins.  Proteins, 2005, 58, 923-934
Rastogi, S. & Liberles, D. Subfunctionalization of duplicated genes as a transition state to neofunctionalization.  BMC Evol Biol, 2005, 5, 28
Rossnes, R.; Eidhammer, I. & Liberles, D.A. Phylogenetic reconstruction of ancestral character states for gene expression and mRNA splicing data.  BMC Bioinformatics, 2005, 6, 127
Roth, C.; Betts, M.J.; Steffansson, P.; Saelensminde, G. & Liberles, D.A. The Adaptive Evolution Database (TAED): a phylogeny based tool for comparative genomics.  Nucleic Acids Res, 2005, 33, D495-7
Saetrom, O.; Snove, O. & Saetrom, P. Weighted sequence motifs as an improved seeding step in microRNA target prediction algorithms.  RNA, 2005
Schneeberger, K.; Malde, K.; Coward, E. & Jonassen, I. Masking repeats while clustering ESTs.  Nucleic Acids Res, 2005, 33, 2176-80
Albert, V. (ed.) Parsimony, Phylogeny, and Genomics  Oxford Univ. Press, 2005
Alsberg, B.K.; Kirkhus, L.; Tangstad, T. & Anderssen, E. Data Analysis of Microarrays Using SciCraft  2004, 3303, 58
Berven, F.S.; Flikka, K.; Jensen, H.B. & Eidhammer, I. BOMP: a program to predict integral beta-barrel outer membrane proteins encoded within genomes of Gram-negative bacteria.  Nucleic Acids Res, 2004, 32, W394-W399
Bjerkan, T.M.; Bender, C.L.; Ertesvåg, H.; Drabløs, F.; Fakhr, M.K.; Preston, L.A.; Braek, G.S. & Valla, S. The Pseudomonas syringae genome encodes a combined mannuronan C-5-epimerase and O-acetylhydrolase, which strongly enhances the predicted gel-forming properties of alginates.  J Biol Chem, 2004, 279, 28920-9
Braun, F.N. & Liberles, D.A. Repeat-modulated population genetic effects in fungal proteins.  J Mol Evol, 2004, 59, 97-102
Brehm, A.; Tufteland, K.R.; Aasland, R. & Becker, P.B. The many colours of chromodomains.  Bioessays, 2004, 26, 133-40
Bø, T.H.; Dysvik, B. & Jonassen, I. LSimpute: accurate estimation of missing values in microarray data with least squares methods.  Nucleic Acids Res, 2004, 32, e34
Davidsen, T.; Rødland, E.A.; Lagesen, K.; Seeberg, E.; Rognes, T. & Tønjum, T. Biased distribution of DNA uptake sequences towards genome maintenance genes.  Nucleic Acids Res, 2004, 32, 1050-8
Dichtl, B.; Aasland, R. & Keller, W. Functions for S. cerevisiae Swd2p in 3' end formation of specific mRNAs and snoRNAs and global histone 3 lysine 4 methylation.  RNA, 2004, 10, 965-77
Drabløs, F.; Feyzi, E.; Aas, P.A.; Vaagbø, C.B.; Kavli, B.; Bratlie, M.S.; Diaz, J.P.; Otterlei, M.; Slupphaug, G. & Krokan, H.E. Alkylation damage in DNA and RNA--repair mechanisms and medical significance.  DNA Repair (Amst), 2004, 3, 1389-407
Flikka, K.; Yadetie, F.; Laegreid, A. & Jonassen, I. XHM: a system for detection of potential cross hybridizations in DNA microarrays.  BMC Bioinformatics, 2004, 5, 117
Halaas, A.; Svingen, B.; Nedland, M.; Sætrom, P.; Ola Snøve, J. & Birkeland, O.R. A recursive MISD architecture for pattern matching  IEEE Trans. Very Large Scale Integr. Syst., IEEE Educational Activities Department, 2004, 12, 727-734
Hughes, T.; Hyun, Y. & Liberles, D.A. Visualising very large phylogenetic trees in three dimensional hyperbolic space.  BMC Bioinformatics, 2004, 5, 48
Jobson, R.W.; Nielsen, R.; Laakkonen, L.; Wikström, M. & Albert, V.A. Adaptive evolution of cytochrome c oxidase: Infrastructure for a carnivorous plant radiation.  Proc Natl Acad Sci U S A, 2004, 101, 18064-8
Kim, S.; Yoo, M.; Albert, V.A.; Farris, J.S.; Soltis, P.S. & Soltis, D.E. Phylogeny and diversification of B-function MADS-box genes in angiosperms: evolutionary and functional implications of a 260-million-year-old duplication  Am. J. Bot., 2004, 91, 2102-2118
Lyng, H.; Badiee, A.; Svendsrud, D.H.; Hovig, E.; Myklebost, O. & Stokke, T. Profound influence of microarray scanner characteristics on gene expression ratios: analysis and procedure for correction.  BMC Genomics, 2004, 5, 10
Saetrom, P. Predicting the efficacy of short oligonucleotides in antisense and RNAi experiments with boosted genetic programming.  Bioinformatics, 2004, 20, 3055-63
Saetrom, P. & Snøve, O. A comparison of siRNA efficacy predictors.  Biochem Biophys Res Commun, 2004, 321, 247-53
Snøve, O. & Holen, T. Many commonly used siRNAs risk off-target activity.  Biochem Biophys Res Commun, 2004, 319, 256-63
Snøve, O.; Nedland, M.; Fjeldstad, S.H.; Humberset, H.; Birkeland, O.R.; Grünfeld, T. & Saetrom, P. Designing effective siRNAs with off-target control.  Biochem Biophys Res Commun, 2004, 325, 769-73
Soltis, D.E.; Albert, V.A.; Savolainen, V.; Hilu, K.; Qiu, Y.; Chase, M.W.; Farris, J.S.; Stefanovi?, S.; Rice, D.W.; Palmer, J.D. & Soltis, P.S. Genome-scale data, angiosperm relationships, and "ending incongruence": a cautionary tale in phylogenetics.  Trends Plant Sci, 2004, 9, 477-83
Taylor, W.R. & Jonassen, I. A structural pattern-based method for protein fold recognition.  Proteins, 2004, 56, 222-34
Uimari, A.; Kotilainen, M.; Elomaa, P.; Yu, D.; Albert, V.A. & Teeri, T.H. Integration of reproductive meristem fates by a SEPALLATA-like MADS-box gene.  Proc Natl Acad Sci U S A, 2004, 101, 15817-22
Ussery, D.W.; Hallin, P.F.; Lagesen, K. & Coenye, T. Genome update: rRNAs in sequenced microbial genomes.  Microbiology, 2004, 150, 1113-5
Ussery, D.W.; Hallin, P.F.; Lagesen, K. & Wassenaar, T.M. Genome update: tRNAs in sequenced microbial genomes.  Microbiology, 2004, 150, 1603-6
Wieman, H.; Tøndel, K.; Anderssen, E. & Drabløs, F. Homology-based modelling of targets for rational drug design.  Mini Rev Med Chem, 2004, 4, 793-804
Alsberg, B.K.; Kirkhus, L.; Hagen, R.; Knudsen, O.; Tangstad, T. & Anderssen, E. Zherlock: an open source data analysis software.  SAR QSAR Environ Res, 2003, 14, 349-60
Braun, F.N. & Liberles, D.A. Retention of enzyme gene duplicates by subfunctionalization.  Int J Biol Macromol, 2003, 33, 19-22
Elomaa, P.; Uimari, A.; Mehto, M.; Albert, V.A.; Laitinen, R.A.E. & Teeri, T.H. Activation of anthocyanin biosynthesis in Gerbera hybrida (Asteraceae) suggests conserved protein-protein and protein-promoter interactions between the anciently diverged monocots and eudicots.  Plant Physiol, 2003, 133, 1831-42
Falnes, P.Ø. & Rognes, T. DNA repair by bacterial AlkB proteins.  Res Microbiol, 2003, 154, 531-8
Malde, K.; Coward, E. & Jonassen, I. Fast sequence clustering using a suffix array algorithm.  Bioinformatics, 2003, 19, 1221-6
Mazet, F.; Yu, J.K.; Liberles, D.A.; Holland, L.Z. & Shimeld, S.M. Phylogenetic relationships of the Fox (Forkhead) gene family in the Bilateria.  Gene, 2003, 316, 79-89
Moe, A.; Ringvoll, J.; Nordstrand, L.M.; Eide, L.; Bjørås, M.; Seeberg, E.; Rognes, T. & Klungland, A. Incision at hypoxanthine residues in DNA by a mammalian homologue of the Escherichia coli antimutator enzyme endonuclease V.  Nucleic Acids Res, 2003, 31, 3893-900
Nygaard, V.; Løland, A.; Holden, M.; Langaas, M.; Rue, H.; Liu, F.; Myklebost, O.; Fodstad, Ø.; Hovig, E. & Sørensen, B.S. Effects of mRNA amplification on gene expression ratios in cDNA experiments estimated by analysis of variance.  BMC Genomics, 2003, 4, 11
Puntervoll, P.; Linding, R.; Gemünd, C.; Davidson, S.C.; Mattingsdal, M.; Cameron, S.; Martin, D.M.A.; Ausiello, G.; Brannetti, B.; Costantini, A.; Ferrè, F.; Maselli, V.; Via, A.; Cesareni, G.; Diella, F.; Furga, G.S.; Wyrwicz, L.; Ramu, C.; McGuigan, C.; Gudavalli, R.; Letunic, I.; Bork, P.; Rychlewski, L.; Küster, B.; Citterich, M.H.; Hunter, W.N.; Aasland, R. & Gibson, T.J. ELM server: A new resource for investigating short functional sites in modular eukaryotic proteins.  Nucleic Acids Res, 2003, 31, 3625-30
Tøstesen, E.; Liu, F.; Jenssen, T. & Hovig, E. Speed-up of DNA melting algorithm with complete nearest neighbor properties.  Biopolymers, 2003, 70, 364-76
Wang, J.; Bø, T.H.; Jonassen, I.; Myklebost, O. & Hovig, E. Tumor classification and marker gene prediction by feature selection and fuzzy c-means clustering using microarray data.  BMC Bioinformatics, 2003, 4, 60
Wang, J.; Myklebost, O. & Hovig, E. MGraph: graphical models for microarray data analysis.  Bioinformatics, 2003, 19, 2210-1