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B2G in Papers

Citing Blast2GO

  • Stefan Götz, Juan Miguel García-Gómez, Javier Terol, Tim D. Williams, María José Nueda, Montserrat Robles, Manuel Talón, Joaquín Dopazo and Ana Conesa
    High-throughput functional annotation and data mining with the Blast2GO suite.
    Nucleic Acids Res. 2008 June; 36(10): 3420–3435.
    Supplementary Material
  • Ana Conesa and Stefan Götz
    Blast2GO: A Comprehensive Suite for Functional Analysis in Plant Genomics.
    Int J Plant Genomics. 2008; 2008: 619832.
  • Ana Conesa, Stefan Götz, Juan Miguel García-Gómez, Javier Terol, Manuel Talón and Montserrat Robles .
    Blast2GO: A universal tool for annotation, visualization and analysis in functional genomics research.
    Bioinformatics 2005 21: 3674-3676 LINK
    Supplementary Material

Blast2GO citations (Google Scholar, Sep.2010)

Name Google Scholar Paper Link
InterProScan 1073 Zdobnov et al., 2001, Quevillon et al., 2005, Mulder et al., 2007 http://www.ebi.ac.uk/InterProScan/
Blast2GO 346, 60 Conesa et al., 2005, Götz et al.,2008 http://www.blast2go.org
GoFigure GoDel(discontinued) 127/182 Khan et al., 2003 http://udgenome.ags.udel.edu/gofigure
GOtcha 110 Martin et al., 2004 http://www.compbio.dundee.ac.uk/gotcha/gotcha.php
AutoFact 67 Koski et al., 2005 http://www.bch.umontreal.ca/Software/AutoFACT.htm
OntoBlast 66 Zehetner, 2003 http://functionalgenomics.de/ontogate
GOanna/ AgBase 59/92 Mccarthy et al., 2006, 2007 http://agbase.msstate.edu/GOAnna.html
GOblet 62 Hennig et al., 2003 and Groth et al., 2004 http://goblet.molgen.mpg.de
GoPET 49 Vinayagam et al., 2006 http://genome.dkfz-heidelberg.de/menu/biounit/open-husar
PFP 5, 49 Hawkins et al., 2005, Hawkins et al., 2006 http://dragon.bio.purdue.edu/pfp
GOAnno 32 Chalmel et al., 2005 http://bips.u-strasbg.fr/GOAnno
JAFA 29 Friedberg et al., 2006 http://jafa.burnham.org
HT-GO-FAT (discontinued) 4 PAG Conference, 2005 http://genome4.ars.usda.gov/farm/dload.php

Blast2GO in Papers


donde nos citan

2010

  1. S. Aarthi, Gopal Dhinakar Raj, M. Raman et al. Expressed sequence tags from Eimeria brunetti—preliminary analysis and functional annotation, Parasitology Research, DOI: 10.1007/s00436-010-2182-6Online First™
  2. Sam R. Zwenger, Robert E. Reinsvold, Chhandak Basu. Analysis and functional annotation of expressed sequence tags from the diesel tree (Copaifera officinalis), Plant Biotechnology 27, 385–391 (2010)
  3. Z Schwarz-Sommer, T Gubitz, J Weiss et al. A molecular recombination map of Antirrhinum majus, BMC Plant Biology 2010, 10:275
  4. Martin J. Blythe, Damian Kao, Sunir Malla et al. A Dual Platform Approach to Transcript Discovery for the Planarian Schmidtea Mediterranea to Establish RNAseq for Stem Cell and Regeneration Biology. PLos One, December 2010.
  5. Jeong-Hyeon Choi , Teiya Kijimoto , Emilie Snell-Ro. Gene discovery in the horned beetle Onthophagus taurus. BMC Genomics 2010, 11:703, 2010.
  6. Nehir Ozdemir Ozgenturk,1 Fatma Oruç,1 Ugur Sezerman. Generation and Analysis of Expressed Sequence Tags from Olea europaea L. Comparative and Functional Genomics Volume 2010 (2010), Article ID 757512, 9 pages, doi:10.1155/2010/757512, 2010.
  7. Bruno Vincent , Martha Kaeslin , Thomas Rot. The venom composition of the parasitic wasp Chelonus inanitus resolved by combined expressed sequence tags analysis and proteomic approach. BMC Genomics 2010, 11:693, 2010.
  8. Segovia V. Identification of wheat leaf rust (Puccinia triticina. ERIKS.) genes expressed during the early stages of infection. PhD dissertation. Department of Plant Pathology. Kansas State Univerisity 2010.
  9. Crawford JE, Guelbeogo WM, Sanou A et al. De Novo Transcriptome Sequencing in Anopheles funestus Using Illumina RNA-Seq Technology. PLoS One. 2010;5(12):e14202
  10. Rodríguez-Palenzuela P, Matas IM, Murillo et al. Annotation and overview of the Pseudomonas savastanoi pv. savastanoi NCPPB 3335 draft genome reveals the virulence gene complement of a tumour-inducing pathogen of woody hosts.Environ Microbiol. 2010 Jun;12(6):1604-20
  11. Bai X, Zhang W, Orantes et al. Combining next-generation sequencing strategies for rapid molecular resource development from an invasive aphid species, Aphis glycines. PLoS One. 2010 Jun 29;5(6):e11370.
  12. Schokraie E, Hotz-Wagenblatt A, Warnken U et al. Proteomic analysis of tardigrades: towards a better understanding of molecular mechanisms by anhydrobiotic organisms. PLoS One. 2010 Mar 3;5(3):e9502
  13. Ueno S, Le Provost G, Leger V et al. Bioinformatic analysis of ESTs collected by Sanger and pyrosequencing methods for a keystone forest tree species: oak. BMC Genomics. 2010 Nov 23;11(1):650.
  14. Kevin M. Folta, Maureen A. Clancy, Srikar Chamala et al. A Transcript Accounting from Diverse Tissues of a Cultivated Strawberry, The Plant Genome, Vol. 3 No. 2, p. 90-105 (2010)
  15. Bombarely, A. and others. BMC Genomics. Generation and analysis of ESTs from strawberry(Fragaria xananassa) fruits and evaluation of their utility in genetic and molecular studies. Vol 11 (1), 503. 2010
  16. Heimel, K. and Scherer, M. and Vranes, M. and Wahl, R. and Pothiratana, C. and others, PLoS Pathogens, The Transcription Factor Rbf1 Is the Master Regulator for b-Mating Type Controlled, doi:10.1371/journal.ppat.1001035 (2010).
  17. Pia Untalan Olafson, Kimberly H. Lohmeyer, Scot E. Dowd, Archives of Insect Biochemistry and Physiology, Analysis of expressed sequence tags from a significant livestock pest, the stable fly (Stomoxys calcitrans), identifies transcripts with a putative role in chemosensation and sex determination, DOI: 10.1002/arch.20372 (2010).
  18. Jun-Li Ye, An-Dan Zhu, Neng-Guo Tao, Qiang Xu, Juan Xu, Xiu-Xin Den, Journal of Integrative Plant Biology, Comprehensive Analysis of Expressed Sequence Tags from the Pulp of the Red Mutant ‘Cara Cara’ Navel Orange (Citrus sinensis Osbeck), DOI: 10.1111/j.1744-7909.2010.00952.x (2010).
  19. R. Scott Cornman, PLoS ONE, The Distribution of GYR- and YLP-Like Motifs in Drosophila Suggests a General Role in Cuticle Assembly and Other Protein-Protein Interactions, doi:10.1371/journal.pone.0012536 (2010).
  20. Popesku, JT and Martyniuk, CJ and Denslow, ND and Trudeau, VL and Laudet, V., PLoS ONE, Rapid Dopaminergic Modulation of the Fish Hypothalamic Transcriptome and Proteome, e12338 (2010).
  21. Studer, B. and Kolliker, R. and Muylle, H. and Asp, T. and Frei, U.C. and Roldan-Ruiz, I. and Barre, P. and Tomaszewski, C. and Meally, H. and Barth, S. and others, BMC Plant Biology, EST-derived SSR markers used as anchor loci for the construction of a consensus linkage map in ryegrass(Lolium spp.) (2010)
  22. Jørgensen T.R., Nitsche B.M., Lamers G.E., Arentshorst M., van den Hondel C.A., Ram A.F., Appl Environ Microbio, Transcriptomic insights into the physiology of Aspergillus niger approaching a specific growth rate of zero (2010)
  23. Heimel K, Scherer M, Vranes M, Wahl R, Pothiratana C, Schuler D, Vincon V, Finkernagel F, Flor-Parra I, Kämper J., PLoS Pathog, The Transcription Factor Rbf1 Is the Master Regulator for b-Mating Type Controlled Pathogenic Development in Ustilago maydis, 6, pii: e1001035 (2010)
  24. Lu, Y.X. and Xu, W.H., Journal of Proteome Research, Proteomic and phosphoproteomic analysis at diapause initiation in the cotton bollworm, Helicoverpa armigera (2010)
  25. A Zahiri, K Heimel, R Wahl, M Rath, J Kämper, Am Phytopath Society, e-Xtra (2010)
  26. Di Matteo, A. and Sacco, A. and Anacleria, M. and Pezzotti, M. and Delledonne, M. and Ferrarini, A. and Frusciante, L. and Barone, A., BMC Plant Biology, The ascorbic acid content in tomato fruits is associated with the expression of genes involved in pectin degradation (2010)
  27. Costa, G.G.L. and Cardoso, K.C. and Del Bem, L.E.V. and Lima, A.C. and Cunha, M.A.S. and de Campos-Leite, L. and Vicentini, R. and Papes, F. and Moreira, R.C. and Yunes, J.A. and others, BMC Genomics, Transcriptome analysis of the oil-rich seed of the bioenergy crop Jatropha curcas L. (2010)
  28. Hinchliffe, D.J. and Meredith, W.R. and Yeater, K.M. and Kim, H.J. and Woodward, A.W. and Chen, Z.J. and Triplett, B.A., TAG Theoretical and Applied Genetics, Near-isogenic cotton germplasm lines that differ in fiber-bundle strength have temporal differences in fiber gene expression patterns as revealed by comparative high-throughput profiling (2010).
  29. Zeller, R.W., Integrative and Comparative Biology, Computational Analysis of Ciona intestinalis Operons (2010).
  30. Ham, B.M. and Jayachandran, H. and Yang, F. and Jaitly, N. and Polpitiya, A.D. and Monroe, M.E. and Wang, L. and Zhao, R. and Purvine, S.O. and Livesay, E.A. and others, J. Proteome Res, Novel Ser/Thr Protein Phosphatase 5 (PP5) Regulated Targets during DNA Damage Identified by Proteomics Analysis (2010).
  31. Alcolea, P.J. and Alonso, A. and Gomez, M.J. and Sanchez-Gorostiaga, A. and Moreno-Paz, M. and Gonzalez-Pastor, E. and Tora{\~n}o, A. and Parro, V. and Larraga, V., BMC genomics, Temperature increase prevails over acidification in gene expression modulation of amastigote differentiation in Leishmania infantum (2010).
  32. Sathiyamoorthy, S. and In, J.G. and Gayathri, S. and Kim, Y.J. and Yang, D.C., Russian Journal of Genetics, Gene ontology study of methyl jasmonate-treated and non-treated hairy roots of Panax ginseng to identify genes involved in secondary metabolic pathway (2010).
  33. Sinha, R. and Zimmer, A.D. and Bolte, K. and Lang, D. and Reski, R. and Platzer, M. and Rensing, S.A. and Backofen, R., BMC Plant Biology, Identification and characterization of NAGNAG alternative splicing in the moss Physcomitrella patens (2010).
  34. Chan, P.L. and Ma, L.S. and Low, E.T.L. and Shariff, E.M. and Ooi, L.C.L. and Cheah, S.C. and Singh, R., Electronic Journal of Biotechnology, Normalized embryoid cDNA library of oil palm (Elaeis guineensis) (2010).
  35. Borchert, N. and Dieterich, C. and Krug, K. and Sch{\\”u}tz, W. and Jung, S. and Nordheim, A. and Sommer, R.J. and Macek, B., Genome Research, Proteogenomics of Pristionchus pacificus reveals distinct proteome structure of nematode models (2010).
  36. Cantacessi, C. and Jex, A.R. and Hall, R.S. and Young, N.D. and Campbell, B.E. and Joachim, A. and Nolan, M.J. and Abubucker, S. and Sternberg, P.W. and Ranganathan, S. and others, Nucleic Acids Research, A practical, bioinformatic workflow system for large data sets generated by next-generation sequencing (2010).
  37. Lokanathan, Y. and Mohd-Adnan, A. and Wan, K.L. and Nathan, S., BMC genomics, Transcriptome analysis of the Cryptocaryon irritans tomont stage identifies potential genes for the detection and control of cryptocaryonosis (2010).
  38. Wang, B. and Guo, G. and Wang, C. and Lin, Y. and Wang, X. and Zhao, M. and Guo, Y. and He, M. and Zhang, Y. and Pan, L., Nucleic Acids Research, Survey of the transcriptome of Aspergillus oryzae via massively parallel mRNA sequencing (2010).
  39. Olafson, P.U. and Lohmeyer, K.H. and Dowd, S.E., Archives of Insect Biochemistry and Physiology, Analysis of expressed sequence tags from a significant livestock pest, the stable fly (Stomoxys calcitrans), identifies transcripts with a putative role in chemosensation and sex determination (2010).
  40. Parchman, T.L. and Geist, K.S. and Grahnen, J.A. and Benkman, C.W. and Buerkle, C.A., BMC genomics, Transcriptome sequencing in an ecologically important tree species: assembly, annotation, and marker discovery (2010).
  41. Medina, I. and Carbonell, J. and Pulido, L. and Madeira, S.C. and Goetz, S. and Conesa, A. and Tarraga, J. and Pascual-Montano, A. and Nogales-Cadenas, R. and Santoyo, J. and others, Nucleic acids research, Babelomics: an integrative platform for the analysis of transcriptomics, proteomics and genomic data with advanced functional profiling (2010).
  42. Hao, Y.J. and Montiel, R. and Abubucker, S. and Mitreva, M. and Sim{\~o}es, N., Molecular and biochemical parasitology, Transcripts analysis of the entomopathogenic nematode Steinernema carpocapsae induced in vitro with insect haemolymph (2010).
  43. Wubben, M.J. and Callahan, F.E. and Scheffler, B.S., Molecular and Biochemical Parasitology, Transcript analysis of parasitic females of the sedentary semi-endoparasitic nematode Rotylenchulus reniformis (2010).
  44. Maki, N. and Martinson, J. and Nishimura, O. and Tarui, H. and Meller, J. and Tsonis, P.A. and Agata, K., , Expression profiles during dedifferentiation in newt lens regeneration revealed by expressed sequence tags (2010).
  45. Wang, Y. and Carolan, J.C. and Hao, F.H. and Nicholson, J.K. and Wilkinson, T.L. and Douglas, A.E., J. Proteome Res, Integrated Metabonomic - Proteomic Analysis of an Insect - Bacterial Symbiotic System (2010).
  46. Marjara, I.S. and Thu, B.J. and Evensen, {\v{R}}., Fish \& Shellfish Immunology, Differentially expressed genes following persistent infection with infectious pancreatic necrosis virus in vitro and in vivo (2010).
  47. Prado-Lopez, S. and Conesa, A. and Armi{\~n}an, A. and Martinez-Losa, M. and Escobedo-Lucea, C. and Gandia, C. and Tarazona, S. and Melguizo, D. and Blesa, D. and Montaner, D. and others, Stem cells, Hypoxia Promotes Efficient Differentiation of Human Embryonic Stem Cells to Functional Endothelium (2010).
  48. Lees, K. and Woods, DJ and Bowman, AS, Insect Molecular Biology, Transcriptome analysis of the synganglion from the brown dog tick, Rhipicephalus sanguineus (2010).
  49. Coetzer, N. and Gazendam, I. and Oelofse, D. and Berger, D.K., Plant Methods, SSHscreen and SSHdb, generic software for microarray based gene discovery: application to the stress response in cowpea (2010).
  50. Calduch-Giner, J.A. and Davey, G. and Saera-Vila, A. and Houeix, B. and Talbot, A. and Prunet, P. and Cairns, M.T. and Perez-Sanchez, J., BMC Genomics, Use of microarray technology to assess the time course of liver stress response (2010).
  51. Sanzol, J., BMC Plant Biology, Dating and functional characterization of duplicated genes in the apple(Malus domestica Borkh.) by analyzing EST data (2010).
  52. Rodriguez-Palenzuela, P. and Matas, I.M. and Murillo, J. and Lopez-Solanilla, E. and Bardaji, L. and Perez-Martinez, I. and Rodriguez-Moskera, M.E. and Penyalver, R. and Lopez, M.M. and Quesada, J.M. and others, Environmental Microbiology, Annotation and overview of the Pseudomonas savastanoi pv. savastanoi NCPPB 3335 draft genome reveals the virulence gene complement of a tumour-inducing pathogen of woody hosts (2010).
  53. Mittard-Runte, V. and Bekel, T. and Blom, J. and Dondrup, M. and Henckel, K. and Jaenicke, S. and Krause, L. and Linke, B. and Neuweger, H. and Schneiker-Bekel, S. and others, Introduction to Marine Genomics, Practical Guide: Genomic Techniques and How to Apply Them to Marine Questions (2010).
  54. Cantacessi, C. and Campbell, B.E. and Young, N.D. and Jex, A.R. and Hall, R.S. and Presidente, P.J.A. and Zawadzki, J.L. and Zhong, W. and Aleman-Meza, B. and Loukas, A. and others, BMC genomics, Differences in transcription between free-living and CO 2-activated third-stage larvae of Haemonchus contortus (2010).
  55. Tr{\\”o}{\ss}e, C., , Mechanisms of cataract development in adult Atlantic salmon growers relative to dietary histidine and plant feed ingredients (2010).
  56. Du, Z. and Zhou, X. and Ling, Y. and Zhang, Z. and Su, Z., Nucleic Acids Research, agriGO: a GO analysis toolkit for the agricultural community (2010).
  57. Nota, B. and Verweij, R.A. and Molenaar, D. and Ylstra, B. and Van Straalen, N.M. and Roelofs, D., Toxicological Sciences, Gene expression analysis reveals a gene set discriminatory to different metals in soil (2010).
  58. Sha, Z. and Wang, S. and Zhuang, Z. and Wang, Q. and Li, P. and Ding, H. and Wang, N. and Liu, Z. and Chen, S., Journal of Fish Biology, Generation and analysis of 10 000 ESTs from the half-smooth tongue sole Cynoglossus semilaevis and identification of microsatellite and SNP markers (2010).
  59. KONTUNEN-SOPPELA, S. and RIIKONEN, J. and RUHANEN, H. and BROSCH{\'E}, M. and SOMERVUO, P. and PELTONEN, P. and KANGASJ{\\”A}RVI, J. and AUVINEN, P. and PAULIN, L. and KEIN{\\”A}NEN, M. and others, Plant, Cell \& Environment, Differential gene expression in senescing leaves of two silver birch genotypes in response to elevated CO2 and tropospheric ozone (2010).
  60. Rattei, T. and Tischler, P. and Gotz, S. and Jehl, M.A. and Hoser, J. and Arnold, R. and Conesa, A. and Mewes, H.W., Nucleic Acids Research, SIMAP–a comprehensive database of pre-calculated protein sequence similarities, domains, annotations and clusters (2010).
  61. Cantacessi, C. and Mitreva, M. and Jex, A.R. and Young, N.D. and Campbell, B.E. and Hall, R.S. and Doyle, M.A. and Ralph, S.A. and Rabelo, E.M. and Ranganathan, S. and others, , Massively Parallel Sequencing and Analysis of the Necator americanus Transcriptome (2010).
  62. Pauchet, Y. and Wilkinson, P. and Vogel, H. and Nelson, DR and Reynolds, SE and Heckel, DG and others, Insect Molecular Biology, Pyrosequencing the Manduca sexta larval midgut transcriptome: messages for digestion, detoxification and defence (2010).
  63. Burns, G. and Thorne, MAS and Hillyard, G. and Clark, MS and Convey, P. and Worland, MR, Insect Molecular Biology, Gene expression associated with changes in cold tolerance levels of the Antarctic springtail, Cryptopygus antarcticus (2010).
  64. Kim, D.W. and Kim, A. and Kim, R.N. and Nam, S.H. and Kang, A. and Chung, W.T. and Choi, S.H. and Park, H.S., Molecules and Cells, Comparative analysis of expressed sequence tags from the white-rot fungi (Phanerochaete chrysosporium) (2010).
  65. Minge, M.A. and Shalchian-Tabrizi, K. and T{\o}rresen, O.K. and Takishita, K. and Probert, I. and Inagaki, Y. and Klaveness, D. and Jakobsen, K.S., BMC Evolutionary Biology, A phylogenetic mosaic plastid proteome and unusual plastid-targeting signals in the green-colored dinoflagellate Lepidodinium chlorophorum (2010).
  66. Matsumoto, J. and Dewar, K. and Wasserscheid, J. and Wiley, G.B. and Macmil, S.L. and Roe, B.A. and Zeller, R.W. and Satou, Y. and Hastings, K.E.M., Genome research, High-throughput sequence analysis of Ciona intestinalis SL trans-spliced mRNAs: Alternative expression modes and gene function correlates (2010).
  67. Nishiuchi, S. and Fujihara, K. and Liu, S. and Takano, T., Plant Physiology and Biochemistry, Analysis of expressed sequence tags from a NaHCO3-treated alkali-tolerant plant, Chloris virgata (2010).
  68. Oren, M. and Amar, KO and Douek, J. and Rosenzwieg, T. and Paz, G. and Rinkevich, B., Developmental \& Comparative Immunology, Assembled catalog of immune-related genes from allogeneic challenged corals that unveils the participation of vWF-like transcript (2010).
  69. Edwards, K.D. and Bombarely, A. and Story, G.W. and Allen, F. and Mueller, L.A. and Coates, S.A. and Jones, L., BMC genomics, TobEA: an atlas of tobacco gene expression from seed to senescence (2010).
  70. Seear, P.J. and Carmichael, S.N. and Talbot, R. and Taggart, J.B. and Bron, J.E. and Sweeney, G.E., Marine Biotechnology, Differential Gene Expression During Smoltification of Atlantic Salmon (Salmo salar L.): a First Large-Scale Microarray Study (2010).
  71. Travers, S.E. and Tang, Z. and Caragea, D. and Garrett, K.A. and Hulbert, S.H. and Leach, J.E. and Bai, J. and Saleh, A. and Knapp, A.K. and Fay, P.A. and others, Journal of Ecology, Variation in gene expression of Andropogon gerardii in response to altered environmental conditions associated with climate change (2010).
  72. Bai, X. and Zhang, W. and Orantes, L. and Jun, T.H. and Mittapalli, O. and Mian, M.A.R. and Michel, A.P., , Combining Next-Generation Sequencing Strategies for Rapid Molecular Resource Development from an Invasive Aphid Species, Aphis glycines (2010).
  73. Nueda, M.J. and Carbonell, J. and Medina, I. and Dopazo, J. and Conesa, A., Nucleic Acids Research, Serial Expression Analysis: a web tool for the analysis of serial gene expression data (2010).
  74. Lee, B.Y. and Howe, A.E. and Conte, M.A. and D'Cotta, H. and Pepey, E. and Baroiller, J.F. and di Palma, F. and Carleton, K.L. and Kocher, T.D., BMC genomics, An EST resource for tilapia based on 17 normalized libraries and assembly of 116, 899 sequence tags (2010).
  75. Fleury, E. and Moal, J. and Boulo, V. and Daniel, J.Y. and Mazurais, D. and Henaut, A. and Corporeau, C. and Boudry, P. and Favrel, P. and Huvet, A., Marine Biotechnology, Microarray-Based Identification of Gonad Transcripts Differentially Expressed Between Lines of Pacific Oyster Selected to Be Resistant or Susceptible to Summer Mortality (2010).
  76. Hoenemann, C. and Richardt, S. and Krueger, K. and Zimmer, A.D. and Hohe, A. and Rensing, S.A., BMC Plant Biology, Large impact of the apoplast on somatic embryogenesis in Cyclamen persicum offers possibilities for improved developmental control in vitro (2010).
  77. Alonso-Saez, L. and Galand, P.E. and Casamayor, E.O. and Pedros-Alio, C. and Bertilsson, S., The ISME Journal, High bicarbonate assimilation in the dark by Arctic bacteria (2010).
  78. Kocsy, G. and Athmer, B. and Perovic, D. and Himmelbach, A. and Sz{\H{u}}cs, A. and Vashegyi, I. and Schweizer, P. and Galiba, G. and Stein, N., Molecular Genetics and Genomics, Regulation of gene expression by chromosome 5A during cold hardening in wheat (2010).
  79. Chatzopoulou, F.M. and Makris, A.M. and Argiriou, A. and Degenhardt, J. and Kanellis, A.K., Plant cell reports, EST analysis and annotation of transcripts derived from a trichome-specific cDNA library from Salvia fruticosa (2010).
  80. Wisecaver, J. and Hackett, J., BMC Genomics, Transcriptome analysis reveals nuclear-encoded proteins for the maintenance of temporary plastids in the dinoflagellate Dinophysis acuminata (2010).
  81. Priyanka, B. and Sekhar, K. and Sunita, T. and Reddy, VD and Rao, K.V., Molecular Genetics and Genomics, Characterization of expressed sequence tags (ESTs) of pigeonpea (Cajanus cajan L.) and functional validation of selected genes for abiotic stress tolerance in Arabidopsis thaliana (2010).
  82. Aguileta, G. and Lengelle, J. and Marthey, S. and Chiapello, H. and Rodolphe, F. and Gendrault, A. and Yockteng, R. and Vercken, E. and Devier, B. and Fontaine, MC and others, Molecular Ecology, Finding candidate genes under positive selection in Non-model species: examples of genes involved in host specialization in pathogens (2010).
  83. Glazer, L. and Shechter, A. and Tom, M. and Yudkovski, Y. and Weil, S. and Aflalo, E.D. and Pamuru, R.R. and Khalaila, I. and Bentov, S. and Berman, A. and others, Journal of Biological Chemistry, A protein involved in the assembly of an extracellular calcium storage matrix (2010).
  84. Calduch-Giner, J.A. and Davey, G. and Saera-Vila, A. and Houeix, B. and Talbot, A. and Prunet, P. and Cairns, M.T. and Perez-Sanchez, J., BMC genomics, Use of microarray technology to assess the time course of liver stress response after confinement exposure in gilthead sea bream(Sparus aurata L.) (2010).
  85. Schokraie, E. and Hotz-Wagenblatt, A. and Warnken, U. and Mali, B. and Frohme, M. and F{\\”o}rster, F. and Dandekar, T. and Hengherr, S. and Schill, R.O. and Schn{\\”o}lzer, M., , Proteomic analysis of tardigrades: towards a better understanding of molecular mechanisms by anhydrobiotic organisms (2010).
  86. Xu, W. and Faisal, M., Molecular Genetics and Genomics, Gene expression profiling during the byssogenesis of zebra mussel (Dreissena polymorpha) (2010).
  87. Ma, L.J. and van der Does, H.C. and Borkovich, K.A. and Coleman, J.J. and Daboussi, M.J. and Di Pietro, A. and Dufresne, M. and Freitag, M. and Grabherr, M. and Henrissat, B. and others, Nature, Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium (2010).
  88. Nowrousian, M. and Stajich, J.E. and Chu, M. and Engh, I. and Espagne, E. and Halliday, K. and Kamerewerd, J. and Kempken, F. and Knab, B. and Kuo, H.C. and others, , De novo Assembly of a 40 Mb eukaryotic genome from short sequence reads: Sordaria macrospora, a model organism for fungal morphogenesis (2010).
  89. Ollivier, M. and Legeai, F. and Rispe, C., Insect Molecular Biology, Comparative analysis of the Acyrthosiphon pisum genome and expressed sequence tag-based gene sets from other aphid species (2010).
  90. Senthil, K. and Wasnik, N.G. and Kim, Y.J. and Yang, D.C., Molecular biology reports, Generation and analysis of expressed sequence tags from leaf and root of Withania somnifera (Ashwgandha) (2010).
  91. Elmer, KR and Fan, S. and Gunter, HM and Jones, JC and Boekhoff, S. and Kuraku, S. and Meyer, A., Molecular Ecology, Rapid evolution and selection inferred from the transcriptomes of sympatric crater lake cichlid fishes (2010).
  92. Chen, F. and Lee, Y. and Jiang, Y. and Wang, S. and Peatman, E. and Abernathy, J. and Liu, H. and Liu, S. and Kucuktas, H. and Ke, C. and others, PloS One, Identification and Characterization of Full-Length cDNAs in Channel Catfish (Ictalurus punctatus) and Blue Catfish (2010).
  93. Sagi, A. and Tom, M., Comparative Biochemistry and Physiology, Multi-transcript expression patterns in the gastrolith disk and the hypodermis of the crayfish Cherax quadricarinatus at premolt (2010).
  94. Nowrousian, M. and Stajich, JE and Chu, M. and Engh, I. and Espagne, E. and others, PloS Genetics, De novo Assembly of a 40 Mb Eukaryotic Genome from Short Sequence Reads: Sordaria (2010).
  95. GALINDO, J. and GRAHAME, JW and BUTLIN, RK, Journal of Evolutionary Biology, An EST-based genome scan using 454 sequencing in the marine snail Littorina saxatilis (2010)
  96. Soares, V.L.F. and Rodrigues, S.M. and de Oliveira, T.M. and de Queiroz, T.O. and Lima, L.S. and Hora-Junior, B.T. and Gramacho, K.P. and Micheli, F. and Cascardo, J.C.M. and Otoni, W.C. and others, Molecular Biology Reports, Unraveling new genes associated with seed development and metabolism in Bixa orellana L. by expressed sequence tag (EST) analysis (2010).
  97. Chen, F. and Lee, Y. and Jiang, Y. and Wang, S. and Peatman, E. and Abernathy, J. and Liu, H. and Liu, S. and Kucuktas, H. and Ke, C. and others, PloS one, Identification and Characterization of Full-Length cDNAs in Channel Catfish (Ictalurus punctatus) and Blue Catfish (Ictalurus furcatus) (2010).
  98. Dong, H.P. and Wang, D.Z. and Dai, M. and Hong, H.S., Limnol. Oceanogr, Characterization of particulate organic matters in the water column of the South China Sea using a shotgun proteomic approach (2010).
  99. Prado-Lopez, S. and Conesa, A. and ARMIN, ANA and Martinez-Losa, M. and Escobedo-Lucea, C. and Gandia, C. and Tarazona, S. and Melguizo, D. and Blesa, D. and Montaner, D. and others, Stem Cell , EMBRYONIC STEM CELLS/INDUCED PLURIPOTENT STEM CELLS (2010)
  100. Leida, C. and Terol, J. and Marti, G. and Agusti, M. and Llacer, G. and Badenes, M.L. and Rios, G., Tree physiology, Identification of genes associated with bud dormancy release in Prunus persica by suppression subtractive hybridization (2010).
  101. Ye, J.L. and Zhu, A.D. and Tao, N.G. and Xu, Q. and Xu, J. and Deng, X.X., Journal of Integrative Plant Biology, Comprehensive Analysis of Expressed Sequence Tags from the Pulp of the Red Mutant'Cara Cara'Navel Orange (Citrus sinensis Osbeck) (2010).
  102. Monroe, E.A. and Johnson, J.G. and Wang, Z. and Pierce, R.K. and Van Dolah, F.M., Journal of Phycology, CHARACTERIZATION AND EXPRESSION OF NUCLEAR-ENCODED POLYKETIDE SYNTHASES IN THE BREVETOXIN-PRODUCING DINOFLAGELLATE KARENIA BREVIS1 (2010).
  103. Liu, W. and He, C. and Li, W. and Zhou, Z. and Gao, X. and Fu, L., Aquaculture Research, Discovery of host defence genes in the Japanese scallop Mizuhopecten yessoensis Jay by expressed sequence tag analysis of kidney tissue (2010).
  104. Prince, E.G. and Kirkland, D. and Demuth, J.P., Genome Biology and Evolution, Hyperexpression of the X-chromosome in both sexes results in extensive female-bias of X-linked genes in the flour beetle (2010).
  105. GOMPERT, Z. and FORISTER, M.L. and FORDYCE, J.A. and NICE, C.C. and WILLIAMSON, R.J. and BUERKLE, C.A., Molecular Ecology, Bayesian analysis of molecular variance in pyrosequences quantifies population genetic structure across the genome of Lycaeides butterflies (2010)


2009

  1. ZANETTE, J., , IDENTIFICA{\c{C}}{\~A}O E CARACTERIZA{\c{C}}{\~A}O DE MARCADORES MOLECULARES PARA ESTUDOS ECOTOXICOL{\'O}GICOS EM MOLUSCOS BIVALVES E PEIXES (2009).
  2. Wang, Y. and Leung, F.C.C., FEBS journal, A study on genomic distribution and sequence features of human long inverted repeats reveals species-specific intronic inverted repeats (2009).
  3. Patil, D.P. and Atanur, S. and Dhotre, D.P. and Anantharam, D. and Mahajan, V.S. and Walujkar, S.A. and Chandode, R.K. and Kulkarni, G.J. and Ghate, P.S. and Srivastav, A. and others, BMC genomics, Generation, annotation, and analysis of ESTs from midgut tissue of adult female Anopheles stephensi mosquitoes (2009).
  4. Kontunen-Soppela, S. and Parviainen, J. and Ruhanen, H. and Brosche, M. and Kein{\\”a}nen, M. and Thakur, R.C. and Kolehmainen, M. and Kangasj{\\”a}rvi, J. and Oksanen, E. and Karnosky, D.F. and others, Environmental Pollution, Gene expression responses of paper birch (Betula papyrifera) to elevated CO2 and O3 during leaf maturation and senescence (2009).
  5. Kaczanowski, S. and Siedlecki, P. and Zielenkiewicz, P., BMC bioinformatics, The High Throughput Sequence Annotation Service(HT-SAS) - - the shortcut from sequence to true Medline words (2009).
  6. Kumar, V. and Hassan, M.I. and Tomar, A.K. and Kashav, T. and Nautiyal, J. and Singh, S. and Singh, T.P. and Yadav, S., Journal of biosciences, Proteomic analysis of heparin-binding proteins from human seminal plasma: a step towards identification of molecular markers of male fertility (2009).
  7. Cantacessi, C. and Zou, FC and Hall, RS and Zhong, W. and Jex, AR and Campbell, BE and Ranganathan, S. and Sternberg, PW and Zhu, XQ and Gasser, RB, Molecular and Cellular Probes, Bioinformatic analysis of abundant, gender-enriched transcripts of adult Ascaris suum (Nematoda) using a semi-automated workflow platform (2009).
  8. Galla, G. and Barcaccia, G. and Ramina, A. and Collani, S. and Alagna, F. and Baldoni, L. and Cultrera, N.G.M. and Martinelli, F. and Sebastiani, L. and Tonutti, P., BMC Plant Biology, Computational annotation of genes differentially expressed along olive fruit development (2009).
  9. Borrone, J.W. and Brown, J.S. and Tondo, C.L. and Mauro-Herrera, M. and Kuhn, D.N. and Violi, H.A. and Sautter, R.T. and Schnell, R.J., Tree Genetics \& Genomes, An EST-SSR-based linkage map for Persea americana Mill.(avocado) (2009).
  10. Pascual, L. and Blanca, J. and Ca{\~n}izares, J. and Nuez, F., BMC Plant Biology, Transcriptomic analysis of tomato carpel development reveals alterations in ethylene and gibberellin synthesis during pat3/pat4 parthenocarpic fruit set (2009).
  11. Liao, Q. and Shen, C. and Vouros, P., Journal of Mass Spectrometry, GenoMass-a computer software for automated identification of oligonucleotide DNA adducts from LC-MS analysis of DNA digests (2009).
  12. Specht, S. and Hoerauf, A., Expert Review of Anti-infective Therapy, Filarial parasites in the postgenomic era (2009).
  13. Karim, N. and Jones, J.T. and Okada, H. and Kikuchi, T., BMC genomics, Analysis of expressed sequence tags and identification of genes encoding cell-wall-degrading enzymes from the fungivorous nematode Aphelenchus avenae (2009).
  14. Fonseca, N. and Costa, V. and Camacho, R. and Vieira, C. and Vieira, J., Distributed Computing, Artificial Intelligence, Bioinformatics, Soft Computing, and Ambient Assisted Living, Partitional Clustering of Protein Sequences–An Inductive Logic Programming Approach (2009).
  15. Adhikari, B.N. and Lin, C.Y. and Bai, X. and Ciche, T.A. and Grewal, P.S. and Dillman, A.R. and Chaston, J.M. and Shapiro-Ilan, D.I. and Bilgrami, A.L. and Gaugler, R. and others, BMC genomics, Transcriptional profiling of trait deterioration in the insect pathogenic nematode Heterorhabditis bacteriophora (2009).
  16. Morris, J.P., , AN ANALYSIS PIPELINE FOR THE PROCESSING, ANNOTATION, AND DISSEMINATION OF EXPRESSED SEQUENCE TAGS (2009).
  17. Catoni, M. and Miozzi, L. and Fiorilli, V. and Lanfranco, L. and Accotto, G.P., Molecular Plant-Microbe Interactions, Comparative Analysis of Expression Profiles in Shoots and Roots of Tomato Systemically Infected by Tomato spotted wilt virus Reveals Organ-Specific Transcriptional Responses (2009).
  18. CULTIVO, DE, , GENES DIFERENCIALMENTE EXPRESSOS EM CAMAR{\~O}ES (2009).
  19. Liang, D. and Wong, C.E. and Singh, M.B. and Beveridge, C.A. and Phipson, B. and Smyth, G.K. and Bhalla, P.L., Journal of experimental botany, Molecular dissection of the pea shoot apical meristem (2009).
  20. Capomaccio, S. and Barone, P. and Reale, L. and Veronesi, F. and Rosellini, D., Sexual plant reproduction, Isolation of genes from female sterile flowers in Medicago sativa (2009).
  21. NascimentoA, CS and MachadoBC, MA and Guimar{\~a}esA, SEF and Guimar{\~a}esB, MFM and PeixotoA, JO and FurlongB, J. and PrataB, MCA and VernequeB, RS and TeodoroB, RL and LopesA, PS, CARLOS SOUZA DO NASCIMENTO, Construction and characterization of cDNA libraries generated from skin tissue of F2 cattle infested with the tick Riphicephalus (Boophilus) microplus (2009).
  22. Olsvik, P. and Holen, E., BMC Research Notes, Characterization of an Atlantic cod (Gadus morhua) embryonic stem cell cDNA library (2009).
  23. Payton, P. and Kottapalli, K. and Rowland, D. and Faircloth, W. and Guo, B. and Burow, M. and Puppala, N. and Gallo, M., BMC genomics, Gene expression profiling in peanut using high density oligonucleotide microarrays (2009).
  24. Zhang, D. and Xiong, H. and Mennigen, J.A. and Popesku, J.T. and Marlatt, V.L. and Martyniuk, C.J. and Crump, K. and Cossins, A.R. and Xia, X. and Trudeau, V.L., PloS one, Defining Global Neuroendocrine Gene Expression Patterns Associated with Reproductive Seasonality in Fish (2009).
  25. Andreassen, R. and Lunner, S. and H{\o}yheim, B., BMC genomics, Characterization of full-length sequenced cDNA inserts(FLIcs) from Atlantic salmon(Salmo salar) (2009).
  26. Bassene, JB and Froelicher, Y. and Dubois, C. and Ferrer, RM and Navarro, L. and Ollitrault, P. and Ancillo, G., Heredity, Non-additive gene regulation in a citrus allotetraploid somatic hybrid between C. reticulata Blanco and C. limon (L.) Burm (2009).
  27. Yang, D. and Tang, ZH and Zhang, LP and Zhao, CP and Zheng, YL, Plant Molecular Biology Reporter, Construction, Characterization, and Expressed Sequence Tag (EST) Analysis of Normalized cDNA Library of Thermo-Photoperiod-Sensitive Genic Male Sterile (TPGMS) Wheat from Spike Developmental Stages (2009).
  28. Aggarwal, R. and Benatti, T.R. and Gill, N. and Zhao, C. and Chen, M.S. and Fellers, J.P. and Schemerhorn, B.J. and Stuart, J.J., BMC genomics, A BAC-based physical map of the Hessian fly genome anchored to polytene chromosomes (2009).
  29. Chacko, E. and Ranganathan, S., BMC genomics, Genome-wide analysis of alternative splicing in cow: implications in bovine as a model for human diseases (2009).
  30. Wang, Y. and Leung, F.C.C., Journal of molecular evolution, In silico prediction of two classes of honeybee genes with CpG deficiency or CpG enrichment and sorting according to gene ontology classes (2009).
  31. Udall, J.A., Genetics and Genomics of Cotton, The Gossypium Transcriptome (2009).
  32. JONES, J.T. and KUMAR, A. and PYLYPENKO, L.A. and THIRUGNANASAMBANDAM, A. and CASTELLI, L. and CHAPMAN, S. and COCK, P.J.A. and GRENIER, E. and LILLEY, C.J. and PHILLIPS, M.S. and others, Molecular plant pathology, Identification and functional characterization of effectors in expressed sequence tags from various life cycle stages of the potato cyst nematode Globodera pallida (2009).
  33. Tr{\\”o}{\ss}e, C. and Waagb{\o}, R. and Breck, O. and Stavrum, A.K. and Petersen, K. and Olsvik, P.A., , Genome-wide transcription analysis of histidine-related cataract in Atlantic salmon (Salmo salar L) (2009).
  34. Hopkins, P.M., Ecdysone: Structures and Functions, Crustacean Ecdysteroids and Their Receptors (2009).
  35. Sapriel, G. and Quinet, M. and Heijde, M. and Jourdren, L. and Tanty, V. and Luo, G. and Le Crom, S. and Lopez, P.J., , Genome-wide transcriptome analyses of silicon metabolism in Phaeodactylum tricornutum reveal the multilevel regulation of silicic acid transporters (2009).
  36. Zhao, W.J. and Zhang, H. and Bo, X. and Li, Y. and Fu, X., Molecular and biochemical parasitology, Generation and analysis of expressed sequence tags from a cDNA library of Moniezia expansa (2009).
  37. Barret, M. and Frey-Klett, P. and Guillerm-Erckelboudt, A.Y. and Boutin, M. and Guernec, G. and Sarniguet, A., Molecular Plant-Microbe Interactions, Effect of wheat roots infected with the pathogenic fungus Gaeumannomyces graminis var. tritici on gene expression of the biocontrol bacterium Pseudomonas fluorescens Pf29Arp (2009).
  38. Brumos, J. and Colmenero-Flores, J.M. and Conesa, A. and Izquierdo, P. and Sanchez, G. and Iglesias, D.J. and Lopez-Climent, M.F. and Gomez-Cadenas, A. and Talon, M., Functional \& integrative genomics, Membrane transporters and carbon metabolism implicated in chloride homeostasis differentiate salt stress responses in tolerant and sensitive Citrus rootstocks (2009).
  39. Dauchot, N. and Mingeot, D. and Purnelle, B. and Muys, C. and Watillon, B. and Boutry, M. and Van Cutsem, P., BMC Plant Biology, Construction of 12 EST libraries and characterization of a 12, 226 EST dataset for chicory(Cichorium intybus) root, leaves and nodules in the context of carbohydrate metabolism investigation (2009).
  40. Tingaud-Sequeira, A. and Chauvigne, F. and Lozano, J. and Agulleiro, M.J. and Asensio, E. and Cerd{\`a}, J., BMC genomics, New insights into molecular pathways associated with flatfish ovarian development and atresia revealed by transcriptional analysis (2009).
  41. Vizoso, P. and Meisel, L.A. and Tittarelli, A. and Latorre, M. and Saba, J. and Caroca, R. and Maldonado, J. and Cambiazo, V. and Campos-Vargas, R. and Gonzalez, M. and others, BMC genomics, Comparative EST transcript profiling of peach fruits under different post-harvest conditions reveals candidate genes associated with peach fruit quality (2009).
  42. Van Heerden, J.H. and Conesa, A. and Stein, D.J. and Montaner, D. and Russell, V. and Illing, N., BMC Research Notes, Parallel changes in gene expression in peripheral blood mononuclear cells and the brain after maternal separation in the mouse (2009).
  43. Frentiu, F.D. and Adamski, M. and McGraw, E.A. and Blows, M.W. and Chenoweth, S.F., BMC genomics, An expressed sequence tag(EST) library for Drosophila serrata, a model system for sexual selection and climatic adaptation studies (2009).
  44. Osuna-Jimenez, I. and Williams, T.D. and Prieto-{\'A}lamo, M.J. and Abril, N. and Chipman, J.K. and Pueyo, C., Fish \& Shellfish Immunology, Immune-and stress-related transcriptomic responses of Solea senegalensis stimulated with lipopolysaccharide and copper sulphate using heterologous cDNA microarrays (2009).
  45. Bhatia, V.N. and Perlman, D.H. and Costello, C.E. and McComb, M.E., Anal. Chem, Software Tool for Researching Annotations of Proteins: Open-Source Protein Annotation Software with Data Visualization (2009).
  46. Nueda, M. and Sebastian, P. and Tarazona, S. and Garcia-Garcia, F. and Dopazo, J. and Ferrer, A. and Conesa, A., BMC bioinformatics, Functional assessment of time course microarray data (2009).
  47. Alcolea, P.J. and Alonso, A. and Sanchez-Gorostiaga, A. and Moreno-Paz, M. and Gomez, M.J. and Ramos, I. and Parro, V. and Larraga, V., Genomics, Genome-wide analysis reveals increased levels of transcripts related with infectivity in peanut lectin non-agglutinated promastigotes of Leishmania infantum (2009).
  48. Takahashi, T. and McDougall, C. and Troscianko, J. and Chen, W.C. and Jayaraman-Nagarajan, A. and Shimeld, S.M. and Ferrier, D.E.K., BMC Evolutionary Biology, An EST screen from the annelid Pomatoceros lamarckii reveals patterns of gene loss and gain in animals (2009).
  49. Tangphatsornruang, S. and Somta, P. and Uthaipaisanwong, P. and Chanprasert, J. and Sangsrakru, D. and Seehalak, W. and Sommanas, W. and Tragoonrung, S. and Srinives, P., BMC Plant Biology, Characterization of microsatellites and gene contents from genome shotgun sequences of mungbean(Vigna radiata(L.) Wilczek) (2009).
  50. Khajuria, C. and Zhu, Y.C. and Chen, M.S. and Buschman, L.L. and Higgins, R.A. and Yao, J. and Crespo, A.L.B. and Siegfried, B.D. and Muthukrishnan, S. and Zhu, K.Y., BMC genomics, Expressed sequence tags from larval gut of the European corn borer(Ostrinia nubilalis): Exploring candidate genes potentially involved in Bacillus thuringiensis toxicity and resistance (2009).
  51. Haegeman, A. and Jacob, J. and Vanholme, B. and Kyndt, T. and Mitreva, M. and Gheysen, G., Molecular and biochemical parasitology, Expressed sequence tags of the peanut pod nematode Ditylenchus africanus: the first transcriptome analysis of an Anguinid nematode (2009).
  52. Oliver, M.J. and Hudgeons, J. and Dowd, S.E. and Payton, P.R., Physiologia plantarum, A combined subtractive suppression hybridization and expression profiling strategy to identify novel desiccation response transcripts from Tortula ruralis gametophytes (2009).
  53. Fontana, P. and Cestaro, A. and Velasco, R. and Formentin, E. and Toppo, S., PLoS ONE, Rapid annotation of anonymous sequences from genome projects using semantic similarities and a weighting scheme in gene ontology (2009).
  54. Marino, R. and Ponnaiah, M. and Krajewski, P. and Frova, C. and Gianfranceschi, L. and P{\`e}, M.E. and Sari-Gorla, M., Molecular Genetics and Genomics, Addressing drought tolerance in maize by transcriptional profiling and mapping (2009).
  55. Liu, Q. and Zhu, A. and Chai, L. and Zhou, W. and Yu, K. and Ding, J. and Xu, J. and Deng, X., Journal of experimental botany, Transcriptome analysis of a spontaneous mutant in sweet orange [Citrus sinensis (L.) Osbeck] during fruit development (2009).
  56. Norelli, J.L. and Farrell, R.E. and Bassett, C.L. and Baldo, A.M. and Lalli, D.A. and Aldwinckle, H.S. and Wisniewski, M.E., Tree Genetics \& Genomes, Rapid transcriptional response of apple to fire blight disease revealed by cDNA suppression subtractive hybridization analysis (2009).
  57. Moccia, M.D. and Oger-Desfeux, C. and Marais, G.A.B. and Widmer, A., BMC genomics, A White Campion(Silene latifolia) floral expressed sequence tag(EST) library: annotation, EST-SSR characterization, transferability, and utility for comparative mapping (2009).
  58. Nota, B. and Bosse, M. and Ylstra, B. and Van Straalen, N.M. and Roelofs, D., BMC genomics, Transcriptomics reveals extensive inducible biotransformation in the soil-dwelling invertebrate Folsomia candida exposed to phenanthrene (2009).
  59. Taft, AS and Vermeire, JJ and Bernier, J. and Birkeland, SR and Cipriano, MJ and Papa, AR and McArthur, AG and Yoshino, TP, Parasitology, Transcriptome analysis of Schistosoma mansoni larval development using serial analysis of gene expression (SAGE) (2009).
  60. Adhikari, B.N. and Wall, D.H. and Adams, B.J., BMC genomics, Desiccation survival in an Antarctic nematode: molecular analysis using expressed sequenced tags (2009).
  61. Aragon, A.D. and Imani, R.A. and Blackburn, V.R. and Cupit, P.M. and Melman, S.D. and Goronga, T. and Webb, T. and Loker, E.S. and Cunningham, C., Molecular and biochemical parasitology, Towards an understanding of the mechanism of action of praziquantel (2009).
  62. Zha, X. and Xia, Q. and Duan, J. and Wang, C. and He, N. and Xiang, Z., Insect biochemistry and molecular biology, Dosage analysis of Z chromosome genes using microarray in silkworm, Bombyx mori (2009).
  63. Ma, L.J. and Ibrahim, A.S. and Skory, C. and Grabherr, M.G. and Burger, G. and Butler, M. and Elias, M. and Idnurm, A. and Lang, B.F. and Sone, T. and others, , Genomic analysis of the basal lineage fungus Rhizopus oryzae reveals a whole-genome duplication (2009).
  64. Rapp, R.A. and Udall, J.A. and Wendel, J.F., BMC biology, Genomic expression dominance in allopolyploids (2009).
  65. Poretsky, R.S. and Hewson, I. and Sun, S. and Allen, A.E. and Zehr, J.P. and Moran, M.A., Environmental Microbiology, Comparative day/night metatranscriptomic analysis of microbial communities in the North Pacific subtropical gyre (2009).
  66. Kumar, C. and Mann, M., FEBS letters, Bioinformatics analysis of mass spectrometry-based proteomics data sets (2009).
  67. Valérie Hocher, Florence Auguy, Didier Bogusz, Patrick Doumas, Claudine Franche, Hassen Gherbi, Laurent Laplaze, Mariana Obertello, Sergio Svistoonoff, Cah Agric., Actinorhizal nitrogen fixing symbiosis: An example of adaptation against soil abiotic stresses (2009).
  68. Pescarolo, A., Universita degli Studi di Padova, Annotazione funzionale di proteine utilizzando la similarita'semantica in gene ontology (2009).
  69. Sapriel, G. and Quinet, M. and Heijde, M. and Jourdren, L. and Tanty, V. and Dilkes, B.P., PloS One , Genome-Wide Transcriptome Analyses of Silicon Metabolism in Phaeodactylum (2009).
  70. Galla, G., University of Padua, Sexuality deviation in plants, a multilevel approach to study apomixis (2009).
  71. Bowler, C., New Phytologist, Comparative ecophysiology and genomics of the toxic unicellular alga Fibrocapsa japonica (2009).
  72. Alexander Pozhikov, Mehdi Pirooznia, Rachel Ryan, Chaoyang Zhang, Ping Gong, Edward J. Perkins, BIOCOMP, Generation and analysis of expressed sequence tags from the Sheepshead minnow (Cyprinodon variegatus) (2009)
  73. MT Britton, CA Leslie, GH McGranahan, AM Dandeka, UCDavis, FUNCTIONAL GENOMIC ANALYSIS OF WALNUT-NEMATODE INTERACTIONS (2009).
  74. Kim, J.M. and Kim, B.G. and Oh, SJ, Genomics Inform, Evolutionary Signature of Information Transfer Complexity in Cellular Membrane Proteomes (2009).
  75. Guidi-Rontani, C. and Maheswari, U. and Jabbari, K. and Bowler, C., The New phytologist, Comparative ecophysiology and genomics of the toxic unicellular alga Fibrocapsa japonica (2009)
  76. Ma, LJ and Ibrahim, AS and Skory, C. and Grabherr, MG and Burger, G. and Madhani, H.D., PloS Genetics, Genomic Analysis of the Basal Lineage Fungus Rhizopus oryzae Reveals a Whole (2009).
  77. Conesa, A. and Bro, R. and Prats, J.M. and Kjeldahl, K. and Montaner, D. and Dopazo, J., Genomics, Increasing interpretability of the relationship between transcriptome and phenotype through a multivariate function-based transformation of gene expression data (2009)
  78. Trevisan, S., University of Padua, A genomic approach for studying the biological activity of humic substances (2009).
  79. Dong, H.P. and Wang, D.Z. and Dai, M. and Chan, L.L. and Hong, H.S., Limnol. Oceanogr.: Methods, Shotgun proteomics: Tools for analysis of marine particulate proteins (2009)
  80. Fiorilli, V. and Catoni, M. and Miozzi, L. and Novero, M. and Accotto, G.P. and Lanfranco, L., The New phytologist, Global and cell-type gene expression profiles in tomato plants colonized by an arbuscular mycorrhizal fungus (2009)

2008

  1. Ngoka, L., Proteome Science, Sample prep for proteomics of breast cancer: proteomics and gene ontology reveal dramatic differences in protein solubilization preferences of radioimmunoprecipitation assay and urea lysis buffers (2008).
  2. KARMAKER, A., , AN IN SILICO APPROACH TO DISCOVER TRANSCRIPTIONAL REGULATORY ELEMENTS (2008).
  3. Bluhm, B.H. and Dhillon, B. and Lindquist, E.A. and Kema, G.H.J. and Goodwin, S.B. and Dunkle, L.D., BMC genomics, Analyses of expressed sequence tags from the maize foliar pathogen Cercospora zeae-maydis identify novel genes expressed during vegetative, infectious, and reproductive growth (2008).
  4. Conesa, A. and Bro, R. and Garcia-Garcia, F. and Prats, J.M. and G{\\”o}tz, S. and Kjeldahl, K. and Montaner, D. and Dopazo, J., Genomics, Direct functional assessment of the composite phenotype through multivariate projection strategies (2008).
  5. Nguyen, C. and Mannino, M. and Gardiner, K. and Cios, K.J., Journal of Bioinformatics and Computational Biology, ClusFCM: An algorithm for predicting protein functions using homologies and protein interactions (2008).
  6. Leng, W. and Liu, T. and Li, R. and Yang, J. and Wei, C. and Zhang, W. and Jin, Q., BMC genomics, Proteomic profile of dormant Trichophyton Rubrum conidia (2008).
  7. Ngoka, L., Proteome Science, Dramatic down-regulation of oxidoreductases in human hepatocellular carcinoma hepG 2 cells: proteomics and gene ontology unveiling new frontiers in cancer enzymology (2008).
  8. Gillard, J. and Devos, V. and Huysman, M.J.J. and De Veylder, L. and D'hondt, S. and Martens, C. and Vanormelingen, P. and Vannerum, K. and Sabbe, K. and Chepurnov, V.A. and others, Plant physiology, Physiological and transcriptomic evidence for a close coupling between chloroplast ontogeny and cell cycle progression in the pennate diatom Seminavis robusta (2008).
  9. Wynne, J.W. and O'Sullivan, M.G. and Stone, G. and Cook, M.T. and Nowak, B.F. and Lovell, D.R. and Taylor, R.S. and Elliott, N.G., Developmental \& Comparative Immunology, Resistance to amoebic gill disease (AGD) is characterised by the transcriptional dysregulation of immune and cell cycle pathways (2008).
  10. Weinhold, N. and Sander, O. and Domingues, F.S. and Lengauer, T. and Sommer, I., PLoS Computational Biology, Local function conservation in sequence and structure space (2008).
  11. Mennigen, J.A. and Martyniuk, C.J. and Crump, K. and Xiong, H. and Zhao, E. and Popesku, J. and Anisman, H. and Cossins, A.R. and Xia, X. and Trudeau, V.L., Physiological Genomics, Effects of fluoxetine on the reproductive axis of female goldfish (Carassius auratus) (2008).
  12. Botton, A. and Galla, G. and Conesa, A. and Bachem, C. and Ramina, A. and Barcaccia, G., BMC genomics, Large-scale Gene Ontology analysis of plant transcriptome-derived sequences retrieved by AFLP technology (2008).
  13. Nagaraj, S.H. and Gasser, R.B. and Ranganathan, S., PLoS Neglected Tropical Diseases, Needles in the EST haystack: large-scale identification and analysis of excretory-secretory (ES) proteins in parasitic nematodes using expressed sequence tags (ESTs) (2008).
  14. Pirooznia, M. and Habib, T. and Perkins, E.J. and Deng, Y., Bioinformatics, GOfetcher: a database with complex searching facility for gene ontology (2008).
  15. Terol, J. and Naranjo, M.A. and Ollitrault, P. and Talon, M., BMC genomics, Development of genomic resources for Citrus clementina: Characterization of three deep-coverage BAC libraries and analysis of 46, 000 BAC end sequences (2008).
  16. Cervigni, G.D.L. and Paniego, N. and Diaz, M. and Selva, J.P. and Zappacosta, D. and Zanazzi, D. and Landerreche, I. and Martelotto, L. and Felitti, S. and Pessino, S. and others, Plant Molecular Biology, Expressed sequence tag analysis and development of gene associated markers in a near-isogenic plant system of Eragrostis curvula (2008).
  17. Coates, BS and Sumerford, DV and Hellmich, RL and Lewis, LC, Insect molecular biology, Mining an Ostrinia nubilalis midgut expressed sequence tag (EST) library for candidate genes and single nucleotide polymorphisms (SNPs) (2008).
  18. Fourment, M. and Gillings, M.R., BMC bioinformatics, A comparison of common programming languages used in bioinformatics (2008).
  19. Argout, X. and Fouet, O. and Wincker, P. and Gramacho, K. and Legavre, T. and Sabau, X. and Risterucci, A.M. and Da Silva, C. and Cascardo, J. and Allegre, M. and others, BMC genomics, Towards the understanding of the cocoa transcriptome: Production and analysis of an exhaustive dataset of ESTs of Theobroma cacao L. generated from various tissues and under various conditions (2008).
  20. Kane, MD and Sringer, JA and Iannotti, NV and Gough, E. and Johns, SM and Schlueter, SD and Sepulveda, MS, Journal of Fish Biology, Identification of development and tissue-specific gene expression in the fathead minnow Pimephales promelas, Rafinesque using computational and DNA microarray methods (2008).
  21. Nagaraj, S. and Gasser, R. and Nisbet, A. and Ranganathan, S., BMC bioinformatics, In silico analysis of expressed sequence tags from Trichostrongylus vitrinus (Nematoda): comparison of the automated ESTExplorer workflow platform with conventional database searches (2008).
  22. Qin, Y. and Teixeira da Silva, J.A. and Zhang, L. and Zhang, S., Biotechnology Advances, Transgenic strawberry: State of the art for improved traits, Volume 26, Issue 3, May-June 2008, Pages 219-232 (2010).
  23. Hanelt, B. and Lun, C.M. and Adema, C.M., Journal of invertebrate pathology, Comparative ORESTES-sampling of transcriptomes of immune-challenged Biomphalaria glabrata snails (2008).
  24. Low, E.T.L. and Alias, H. and Boon, S.H. and Shariff, E.M. and Tan, C.Y.A. and Ooi, L.C.L. and Cheah, S.C. and Raha, A.R. and Wan, K.L. and Singh, R., BMC Plant Biology, Oil palm(Elaeis guineensis Jacq.) tissue culture ESTs: Identifying genes associated with callogenesis and embryogenesis (2008).
  25. Aragon, A.D. and Imani, R.A. and Blackburn, V.R. and Cunningham, C., Molecular and biochemical parasitology, Microarray based analysis of temperature and oxidative stress induced messenger RNA in Schistosoma mansoni (2008).
  26. Chaudhary, B. and Hovav, R. and Rapp, R. and Verma, N. and Udall, J.A. and Wendel, J.F., Evolution \& Development, Global analysis of gene expression in cotton fibers from wild and domesticated Gossypium barbadense (2008).
  27. Yang, X. and Kalluri, U.C. and Jawdy, S. and Gunter, L.E. and Yin, T. and Tschaplinski, T.J. and Weston, D.J. and Ranjan, P. and Tuskan, G.A., Plant physiology, The F-box gene family is expanded in herbaceous annual plants relative to woody perennial plants (2008).
  28. Geoghegan, F. and Katsiadaki, I. and Williams, TD and Chipman, JK, Journal of Fish Biology, A cDNA microarray for the three-spined stickleback, Gasterosteus aculeatus L., and analysis of the interactive effects of oestradiol and dibenzanthracene exposures (2008).
  29. Wong, C.E. and Bhalla, P.L. and Ottenhof, H. and Singh, M.B., BMC Plant Biology, Transcriptional profiling of the pea shoot apical meristem reveals processes underlying its function and maintenance (2008).
  30. Diab, AM and Williams, TD and Sabine, VS and Chipman, JK and George, SG, Journal of Fish Biology, The GENIPOL European flounder Platichthys flesus L. toxicogenomics microarray: application for investigation of the response to furunculosis vaccination (2008).
  31. Chan, Q.W.T. and Foster, L.J., Genome Biology, Changes in protein expression during honey bee larval development (2008).
  32. Tadeo, F.R. and Cercos, M. and Colmenero-Flores, J.M. and Iglesias, D.J. and Naranjo, M.A. and R{\c{k}}os, G. and Carrera, E. and Ruiz-Rivero, O. and Lliso, I. and Morillon, R. and others, Advances in Botanical Research, Molecular physiology of development and quality of citrus (2008).
  33. Jacob, J. and Mitreva, M. and Vanholme, B. and Gheysen, G., Molecular genetics and genomics, Exploring the transcriptome of the burrowing nematode Radopholus similis (2008).
  34. Auslander, M. and Yudkovski, Y. and Chalifa-Caspi, V. and Herut, B. and Ophir, R. and Reinhardt, R. and Neumann, PM and Tom, M., Marine Biotechnology, Pollution-affected fish hepatic transcriptome and its expression patterns on exposure to cadmium (2008).
  35. Park, Y. and Aikins, J. and Wang, LJ and Beeman, R.W. and Oppert, B. and Lord, J.C. and Brown, S.J. and Lorenzen, M.D. and Richards, S. and Weinstock, G.M. and others, Insect biochemistry and molecular biology, Analysis of transcriptome data in the red flour beetle, Tribolium castaneum (2008).
  36. Deshpande, N. and Wilkins, M.R. and Packer, N. and Nevalainen, H., Glycobiology, Protein glycosylation pathways in filamentous fungi (2008).
  37. Taggart, J.B. and Bron, J.E. and Martin, SAM and Seear, PJ and H{\o}yheim, B. and Talbot, R. and Carmichael, SN and Villeneuve, LAN and Sweeney, GE and Houlihan, DF and others, Journal of Fish Biology, A description of the origins, design and performance of the TRAITS–SGP Atlantic salmon Salmo salar L. cDNA microarray (2008).
  38. Schmid, R. and Blaxter, M.L., BMC bioinformatics, annot 8 r: GO, EC and KEGG annotation of EST datasets (2008).
  39. Schlueter, J.A. and Goicoechea, J.L. and Collura, K. and Gill, N. and Lin, J.Y. and Yu, Y. and Kudrna, D. and Zuccolo, A. and Vallejos, C.E. and Mu{\~n}oz-Torres, M. and others, Tropical Plant Biology, BAC-end sequence analysis and a draft physical map of the common bean (Phaseolus vulgaris L.) genome (2008).
  40. Luro, F.L. and Costantino, G. and Terol, J. and Argout, X. and Allario, T. and Wincker, P. and Talon, M. and Ollitrault, P. and Morillon, R., BMC genomics, Transferability of the EST-SSRs developed on Nules clementine(Citrus clementina Hort ex Tan) to other Citrus species and their effectiveness for genetic mapping (2008).
  41. Moreno, Y. and Geary, T.G., PLoS Neglected Tropical Diseases, Stage-and gender-specific proteomic analysis of Brugia malayi excretory-secretory products (2008).
  42. Cerd{\`a}, J. and Mercade, J. and Lozano, J.J. and Manchado, M. and Tingaud-Sequeira, A. and Astola, A. and Infante, C. and Halm, S. and Vi{\~n}as, J. and Castellana, B. and others, BMC genomics, Genomic resources for a commercial flatfish, the Senegalese sole(Solea senegalensis): EST sequencing, oligo microarray design, and development of the Soleamold bioinformatic platform (2008).
  43. Martens, C. and Vandepoele, K. and Van de Peer, Y., Proceedings of the National Academy of Sciences, Whole-genome analysis reveals molecular innovations and evolutionary transitions in chromalveolate species (2008).
  44. Dobreva, I. and Fielding, A. and Foster, L.J. and Dedhar, S., J. Proteome Res, Mapping the integrin-linked kinase interactome using SILAC (2008).
  45. Datu, B.J.D. and Gasser, R.B. and Nagaraj, S.H. and Ong, E.K. and O'Donoghue, P. and McInnes, R. and Ranganathan, S. and Loukas, A., PLoS Neglected Tropical Diseases, Transcriptional Changes in the Hookworm, Ancylostoma caninum, during the Transition from a Free-Living to a Parasitic Larva (2008).
  46. Wynne, J.W. and O’Sullivan, M.G. and Cook, M.T. and Stone, G. and Nowak, B.F. and Lovell, D.R. and Elliott, N.G., Marine biotechnology, Transcriptome analyses of amoebic gill disease-affected Atlantic salmon (Salmo salar) tissues reveal localized host gene suppression (2008).
  47. Silverman, J.M. and Chan, S. and Robinson, D. and Dwyer, D. and Nandan, D. and Foster, L. and Reiner, N., Genome Biology, Proteomic analysis of the secretome of Leishmania donovani (2008).
  48. Ana, C. and Stefan, G. and others, International Journal of Plant Genomics, Blast2GO: A comprehensive suite for functional analysis in plant genomics (2008).
  49. Al-Shahrour, F. and Carbonell, J. and Minguez, P. and Goetz, S. and Conesa, A. and Tarraga, J. and Medina, I. and Alloza, E. and Montaner, D. and Dopazo, J., Nucleic Acids Research, Babelomics: advanced functional profiling of transcriptomics, proteomics and genomics experiments (2008).
  50. Flagel, L. and Udall, J. and Nettleton, D. and Wendel, J., BMC biology, Duplicate gene expression in allopolyploid Gossypium reveals two temporally distinct phases of expression evolution (2008).
  51. Gotz, S. and Garcia-Gomez, J.M. and Terol, J. and Williams, T.D. and Nagaraj, S.H. and Nueda, M.J. and Robles, M. and Talon, M. and Dopazo, J. and Conesa, A., Nucleic acids research, High-throughput functional annotation and data mining with the Blast 2 GO suite (2008).
  52. Dreos, R., Università degli studi di Trieste, Studio della risposta compatibile di nicotina benthamiana al turnip vein-clearing virus (TVCV) (2008).
  53. De Franceschi, F., University of Padua , Identificazione e caratterizzazione di geni coinvolti nel processo di abscissione in frutti di melo (Malus domestica L. Borkh) (2008)
  54. Schmid, R. and Blaxter, M.L., BMC Bioinformatics, annot8r: rapid assignment of GO, EC and KEGG annotations (2008).
  55. Datu, BJD and Gasser, RB and Nagaraj, SH and Ong, EK and O’Donoghue, P. and Dalton, J., PLoS Neglected Diseases, Transcriptional Changes in the Hookworm, Ancylostoma caninum, during the Transition from a Free-Living to a Parasitic Larva (2008)
  56. PW Laffy, K Benkendorff, CA Abbott, Flinders University, Annotating a partial transcriptome of the marine snail Dicathais orbita’s hypobranchial gland using suppressive subtractive hybridization and BLAST2GO (2008).
  57. BM Nitsche, AFJ Ram, Leiden Universitiy, Aspergillus niger: Mapping fungal specific zinc-finger transcription factors to gene co-expression networks (2008)
  58. Pacharawongsakda, E. and Yokwai, S. and Karoonuthaisiri, N. and Wichadakul, D. and Ingsriswang, S, Bioinformatics and Biomedical Engineering, ESTplus: An Integrative System for Comprehensive and Customized EST Analysis and Proteomic Data Matching (2008).
  59. Sergio R. Nozawa, Frida M. Casanova, Monica S. Ferreira-Nozawa, Rubens T. Honda, Adalberto L.Val and Vera M. F. Almeida-Val, Instituto Nacional de Pesquisas da Amazônia, Identification and characterization of genes in Amazonian tambaqui (Colossoma macropomum) exposed to copper and cadmium (2008).
  60. Yang, X. and Kalluri, U.C. and Jawdy, S. and Gunter, L.E. and Yin, T. and Tschaplinski, T.J. and Weston, D.J. and Ranjan, P. and Tuskan, G.A.,Plant physiology, The F-Box Gene Family Is Expanded in Herbaceous Annual Plants Relative to Woody Perennial Plants (2008).
  61. Taie, A. and Delfino, S. and Principi, D., INTA Argentina, Bioinformatica aplicada a la agrobiotecnologia: desarrollo de recursos y aplicaciones de informatica para el manejo e interpretacion de datos biologicos provenientes del area de la biotecnologia agropecuaria (2008)
  62. Moustafa, A. and Chan, C.X. and Danforth, M. and Zear, D. and Ahmed, H. and Jadhav, N. and Savage, T. and Bhattacharya, D., Genome Informatics, A Phylogenomic Approach for Studying Plastid Endosymbiosis (2008).
  63. Dimmer, E.C. and Huntley, R.P. and Barrell, D.G. and Binns, D. and Draghici, S. and Camon, E.B. and Hubank, M. and Talmud, P.J. and Apweiler, R. and Lovering, R.C., Proteomics, The gene ontology-providing a functional role in proteomic studies (2008)
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2007

  1. Michael Waisberg, F.P.L. and Gustavo, C.C. and Liana, KJ and Omar, S.C. and others, BMC Genomics, Microarray analysis of gene expression induced by sexual contact in Schistosoma mansoni (2007).
  2. Gonzalo, L. and others, Nucleic Acids Research, firestar $\# x02014; prediction of functionally important residues using structural templates and alignment reliability (2007).
  3. Conesa, A. and Forment, J. and Gadea, J. and van Dijk, J., Microarray Technology Through Applications, Microarray technology in agricultural research (2007).
  4. Duthie, K.A. and Osborne, L.C. and Foster, L.J. and Abraham, N. and Abraham, N., Molecular \& Cellular Proteomics, Proteomic analysis of IL-7 induced signaling effectors show selective changes in IL-7R$\alpha$449F knock-in T cell progenitors (2007).
  5. Dimmer, E. and Berardini, T.Z. and Barrell, D. and Camon, E., METHODS IN MOLECULAR BIOLOGY-CLIFTON THEN TOTOWA-, Methods for gene ontology annotation (2007).
  6. Gaj, S. and van Erk, A. and van Haaften, R.I.M. and Evelo, C.T.A., BMC bioinformatics, Linking microarray reporters with protein functions (2007).
  7. Ranganathan, S. and Nagaraj, S.H. and Hu, M. and Strube, C. and Schnieder, T. and Gasser, R.B., BMC genomics, A transcriptomic analysis of the adult stage of the bovine lungworm, Dictyocaulus viviparus (2007).
  8. Yudkovski, Y. and Shechter, A. and Chalifa-Caspi, V. and Auslander, M. and Ophir, R. and Dauphin-Villemant, C. and Waterman, M. and Sagi, A. and Tom, M., Insect Molecular Biology, Hepatopancreatic multi-transcript expression patterns in the crayfish Cherax quadricarinatus during the moult cycle (2007).
  9. Duthie, K.A. and Osborne, L.C. and Foster, L.J. and Abraham, N., Molecular \& Cellular Proteomics, Proteomics analysis of interleukin (IL)-7-induced signaling effectors shows selective changes in IL-7R$\alpha$449F knock-in T cell progenitors (2007).
  10. Waisberg, M. and Lobo, F.P. and Cerqueira, G.C. and Passos, L.K.J. and Carvalho, O.S. and Franco, G.R. and El-Sayed, N.M., BMC genomics, Microarray analysis of gene expression induced by sexual contact in Schistosoma mansoni (2007).
  11. Abernathy, J.W. and Xu, P. and Li, P. and Xu, D.H. and Kucuktas, H. and Klesius, P. and Arias, C. and Liu, Z., BMC genomics, Generation and analysis of expressed sequence tags from the ciliate protozoan parasite Ichthyophthirius multifiliis (2007).
  12. Eads, B.D. and Colbourne, J.K. and Bohuski, E. and Andrews, J., BMC genomics, Profiling sex-biased gene expression during parthenogenetic reproduction in Daphnia pulex (2007).
  13. Clark, M.S. and Thorne, M.A.S. and Pura{\'c}, J. and Grubor-Laj{\v{s}}i{\'c}, G. and Kube, M. and Reinhardt, R. and Worland, M.R., BMC genomics, Surviving extreme polar winters by desiccation: clues from Arctic springtail(Onychiurus arcticus) EST libraries (2007).
  14. Ho, C.L. and Kwan, Y.Y. and Choi, M.C. and Tee, S.S. and Ng, W.H. and Lim, K.A. and Lee, Y.P. and Ooi, S.E. and Lee, W.W. and Tee, J.M. and others, BMC genomics, Analysis and functional annotation of expressed sequence tags(ESTs) from multiple tissues of oil palm(Elaeis guineensis Jacq.) (2007).
  15. Suarez, M.B. and Vizcaino, J.A. and Llobell, A. and Monte, E., Current Genetics, Characterization of genes encoding novel peptidases in the biocontrol fungus Trichoderma harzianum CECT 2413 using the TrichoEST functional genomics approach (2007).
  16. Vizcaino, J.A. and Redondo, J. and Suarez, M.B. and Cardoza, R.E. and Hermosa, R. and Gonzalez, F.J. and Rey, M. and Monte, E., Applied microbiology and biotechnology, Generation, annotation, and analysis of ESTs from four different Trichoderma strains grown under conditions related to biocontrol (2007).
  17. Yockteng, R. and Marthey, S. and Chiapello, H. and Gendrault, A. and Hood, M.E. and Rodolphe, F. and Devier, B. and Wincker, P. and Dossat, C. and Giraud, T., BMC genomics, Expressed sequences tags of the anther smut fungus, Microbotryum violaceum, identify mating and pathogenicity genes (2007).
  18. Cushion, M.T. and Smulian, A.G. and Slaven, B.E. and Sesterhenn, T. and Arnold, J. and Staben, C. and Porollo, A. and Adamczak, R. and Meller, J., PLoS One, Transcriptome of Pneumocystis carinii during fulminate infection: carbohydrate metabolism and the concept of a compatible parasite (2007).
  19. Dardick, C., Molecular Plant-Microbe Interactions, Comparative expression profiling of Nicotiana benthamiana leaves systemically infected with three fruit tree viruses (2007).
  20. Brisson, J.A. and Davis, G.K. and Stern, D.L., Evolution \& Development, Common genome-wide patterns of transcript accumulation underlying the wing polyphenism and polymorphism in the pea aphid (Acyrthosiphon pisum) (2007).
  21. Sangar, V. and Blankenberg, D.J. and Altman, N. and Lesk, A.M., BMC bioinformatics, Quantitative sequence-function relationships in proteins based on gene ontology (2007).
  22. Shaw, J.R. and Colbourne, J.K. and Davey, J.C. and Glaholt, S.P. and Hampton, T.H. and Chen, C.Y. and Folt, C.L. and Hamilton, J.W., Bmc Genomics, Gene response profiles for Daphnia pulex exposed to the environmental stressor cadmium reveals novel crustacean metallothioneins (2007).
  23. Colbourne, J.K. and Eads, B.D. and Shaw, J. and Bohuski, E. and Bauer, D.J. and Andrews, J., Bmc Genomics, Sampling Daphnia's expressed genes: preservation, expansion and invention of crustacean genes with reference to insect genomes (2007).
  24. Nueda, M.J. and Conesa, A. and Westerhuis, J.A. and Hoefsloot, H.C.J. and Smilde, A.K. and Talon, M. and Ferrer, A., Bioinformatics, Discovering gene expression patterns in time course microarray experiments by ANOVA SCA (2007).
  25. Tang, Z. and Li, Y. and Wan, P. and Li, X. and Zhao, S. and Liu, B. and Fan, B. and Zhu, M. and Yu, M. and Li, K., Genome Biology, LongSAGE analysis of skeletal muscle at three prenatal stages in Tongcheng and Landrace pigs (2007).
  26. Lopez, G. and Valencia, A. and Tress, M.L., Nucleic acids research, firestar–prediction of functionally important residues using structural templates and alignment reliability (2007).
  27. Gandia, M. and Conesa, A. and Ancillo, G. and Gadea, J. and Forment, J. and Pallas, V. and Flores, R. and Duran-Vila, N. and Moreno, P. and Guerri, J., Virology, Transcriptional response of Citrus aurantifolia to infection by Citrus tristeza virus (2007).
  28. Martin, SAM and Taggart, JB and Seear, P. and Bron, JE and Talbot, R. and Teale, AJ and Sweeney, GE and Hoyheim, B. and Houlihan, DF and Tocher, DR and others, Physiological genomics, Interferon type I and type II responses in an Atlantic salmon (Salmo salar) SHK-1 cell line by the salmon TRAITS/SGP microarray (2007).
  29. Nagaraj, S.H. and Deshpande, N. and Gasser, R.B. and Ranganathan, S., Nucleic Acids Research, ESTExplorer: an expressed sequence tag (EST) assembly and annotation platform (2007).
  30. Quilang, J. and Wang, S. and Li, P. and Abernathy, J. and Peatman, E. and Wang, Y. and Wang, L. and Shi, Y. and Wallace, R. and Guo, X. and others, BMC genomics, Generation and analysis of ESTs from the eastern oyster, Crassostrea virginica Gmelin and identification of microsatellite and SNP markers (2007).
  31. Rensing, S.A. and Ick, J. and Fawcett, J.A. and Lang, D. and Zimmer, A. and Van de Peer, Y. and Reski, R., BMC Evolutionary Biology, An ancient genome duplication contributed to the abundance of metabolic genes in the moss Physcomitrella patens (2007).
  32. LARSEN, P.F. and NIELSEN, E.E. and WILLIAMS, T.D. and Hemmer-Hansen, J. and CHIPMAN, J.K. and KRUHOeFFER, M. and GROeNKJAER, P. and GEORGE, S.G. and DYRSKJOeT, L. and Loeschcke, V., Molecular Ecology, Adaptive differences in gene expression in European flounder (Platichthys flesus) (2007).
  33. Hane, J.K. and Lowe, R.G.T. and Solomon, P.S. and Tan, K.C. and Schoch, C.L. and Spatafora, J.W. and Crous, P.W. and Kodira, C. and Birren, B.W. and Galagan, J.E. and others, The Plant Cell Online, Dothideomycete plant interactions illuminated by genome sequencing and EST analysis of the wheat pathogen Stagonospora nodorum (2007).
    1. Terol, J. and Conesa, A. and Colmenero, J.M. and Cercos, M. and Tadeo, F. and Agusti, J. and Alos, E. and Andres, F. and Soler, G. and Brumos, J. and others, BMC genomics, Analysis of 13000 unique Citrus clusters associated with fruit quality, production and salinity tolerance (2007).
    2. Adachi, J. and Kumar, C. and Zhang, Y. and Mann, M., Molecular \& Cellular Proteomics, In -depth analysis of the adipocyte proteome by mass spectrometry and bioinformatics (2007).
    3. Hackett, J.D. and Yoon, H.S. and Li, S. and Reyes -Prieto, A. and Rummele, S.E. and Bhattacharya, D., Molecular biology and evolution, Phylogenomic analysis supports the monophyly of cryptophytes and haptophytes and the association of rhizaria with chromalveolates (2007).
    4. Macek, B. and Mijakovic, I. and Olsen, J.V. and Gnad, F. and Kumar, C. and Jensen, P.R. and Mann, M., Molecular \& Cellular Proteomics, The serine/threonine/tyrosine phosphoproteome of the model bacterium Bacillus subtilis (2007).
    5. Labarga, A. and Valentin, F. and Anderson, M. and Lopez, R., Nucleic Acids Research, Web services at the European bioinformatics institute (2007).
    6. Cushion, MT and Smulian, AG and Slaven, BE and Sesterhenn, T. and Arnold, J. and others, PloS One, Transcriptome of Pneumocystis carinii during Fulminate Infection (2007).
    7. Gravato, C. and Guimar{\~a}es, L. and Guilhermino, L.,ICES CM 2007, Effects of pollutants on estuarine and coastal animals: from genes to populations (2007)

2006

  1. Wei, W. and Ding, G. and Wang, X. and Sun, J. and Tu, K. and HAO, P. and Wang, C. and Cao, Z. and Shi, T. and Li, Y., Chinese Science Bulletin, Comparative analysis of whole -genome sequences of Streptococcus suis (2006).
  2. SLAVEN, B.E. and POROLLO, A. and SESTERHENN, T. and SMULIAN, A.G. and CUSHION, M.T. and MELLER, J., Journal of Eukaryotic Microbiology, Large -scale characterization of introns in the Pneumocystis carinii genome (2006).
  3. Durica, D.S. and Kupfer, D. and Najar, F. and Lai, H. and Tang, Y. and Griffin, K. and Hopkins, P.M. and Roe, B., Integrative and Comparative Biology, EST library sequencing of genes expressed during early limb regeneration in the fiddler crab and transcriptional responses to ecdysteroid exposure in limb bud explants (2006).
  4. Faria -Campos, A.C. and Moratelli, F.S. and Mendes, I.K. and Ortolani, P.L. and Oliveira, G.C. and Campos, S.V.A. and Ortega, J.M. and Franco, G.R., Mem{\'o}rias do Instituto Oswaldo Cruz, Production of full -length cDNA sequences by sequencing and analysis of expressed sequence tags from Schistosoma mansoni (2006).
  5. Bonnet, A. and Frappart, PO and Dehais, P. and Tosser -Klopp, G. and Hatey, F., Reproductive Biology and Endocrinology, Identification of differential gene expression in in vitro FSH treated pig granulosa cells using suppression subtractive hybridization (2006).
  6. Cai, Z. and Mao, X. and Li, S. and Wei, L., BMC bioinformatics, Genome comparison using Gene Ontology(GO) with statistical testing (2006).
  7. Nelson, R.T. and Shoemaker, R., BMC genomics, Identification and analysis of gene families from the duplicated genome of soybean using EST sequences (2006).
  8. Aparicio, G. and Gotz, S. and Conesa, A. and Segrelles, D. and Blanquer, I. and Garcia, J.M. and Hernandez, V. and Robles, M. and Talon, M., Studies in Health Technology and Informatics, Blast2GO goes grid: developing a grid -enabled prototype for functional genomics analysis (2006).
  9. Vizcaino, J.A. and Gonzalez, F.J. and Suarez, M.B. and Redondo, J. and Heinrich, J. and Delgado -Jarana, J. and Hermosa, R. and Gutierrez, S. and Monte, E. and Llobell, A. and others, BMC genomics, Generation, annotation and analysis of ESTs from Trichoderma harzianum CECT 2413 (2006).
  10. Reyes -Prieto, A. and Hackett, J.D. and Soares, M.B. and Bonaldo, M.F. and Bhattacharya, D., Current Biology, Cyanobacterial contribution to algal nuclear genomes is primarily limited to plastid functions (2006).
  11. Chan, Q.W.T. and Howes, C.G. and Foster, L.J., Molecular \& Cellular Proteomics, Quantitative comparison of caste differences in honeybee hemolymph (2006).
  12. Ma, J. and Morrow, D. and Fernandes, J. and Walbot, V., Genome Biology, Comparative profiling of the sense and antisense transcriptome of maize lines (2006).
  13. Nagaraj, S.H. and Gasser, R.B. and Ranganathan, S., Briefings in Bioinformatics, A hitchhiker's guide to expressed sequence tag (EST) analysis (2006).

2005

  1. Aranguren, M.E., University of Manchester, Faculty of Engineering and Biological Sciences, Ontology design patterns for the formalisation of biological ontologies (2005).
b2g_in_papers.txt · Last modified: 2010/12/21 08:17 by aconesa
Bioinformatics and Genomics Department
Centro de Investigación Príncipe Felipe
Valencia, SPAIN
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