ISMB 2008 » transcriptomics

This data can be used as starting point

Ellie — Mon, 18 May 2009 08:08:00 +0000

We found sperm express many genes, and that the proteins encoded by these genes encompass many different categories. We identified numerous candidate genes whose involvement in sperm cell development and fertilization can be directly tested in Arabidopsis. USA. gov. Pacific Plant Gene Expression Center Albany_CA Title Comparative Transcriptomics of Arabidopsis thaliana Sperm Cells Authors Borges, Filipe GULBENKIAN INST PORTUGAL Submitted to Plant Physiology Publication Type Peer Reviewed Journal Publication Acceptance Date 27, Publication Date 30, Publishers URL httpwww. plantphysiol.

This data can be used as starting point to discover the roles of these spermexpressed proteins. Project Team McCormick, Sheila Publications Publications Related National Programs Plant Biological and Molecular Processes 302 Plant Genetic Resources, Genomics and Genetic Improvement 301

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Technical Abstract In flowering plants the two sperm cells are embedded within the cytoplasm of the growing pollen tube and as such are passively transported to the embryo sac, wherein double fertilization occurs upon their release. Interpretive Summary We purified sperm cells from Arabidopsis plants. Studies of gene expression in male gametes of maize and Plumbago, and in lily generative cells already showed that the previously held view of transcriptionally inert male gametes was not true, but genomewide studies were lacking.

Comparative analysis of the sperm cell transcriptome with those of representative sporophytic tissues and of pollen showed that sperm has distinct and diverse transcriptional profile. Comparative Transcriptomics of Arabidopsis thaliana Sperm Cells Authors Borges, Filipe GULBENKIAN INST PORTUGAL Submitted to Plant Physiology Publication Type Peer Reviewed Journal Publication Acceptance Date 27, Publication Date 30, Publishers URL httpwww. plantphysiol. org Reprint URL Citation Borges, Gomes, Gardner, Moreno, Mccormick, Feijo, J., Becker, J. Comparative Transcriptomics of Arabidopsis thaliana Sperm Cells Authors Borges, Filipe GULBENKIAN INST PORTUGAL Submitted to Plant Physiology

Functional classifications of genes with enriched expression in sperm cells showed that DNA repair, ubiquitin mediated proteolysis and cell cycle progression are overrepresented Gene Ontology categories

They might also have contributed to

Ellie — Sat, 11 Apr 2009 12:33:16 +0000

The number of mouse cDNAs identified greatly exceeds the number of genes predicted from the sequenced human and mouse genomes. The largest transcriptome reported so far comprises 60,770 mouse fulllength cDNA clones, and is an effective reference data set for comparative transcriptomics. In this review, we discuss aspects of the transcriptome of various organisms in relation to the mouse data, in order to shed light on the regulatory mechanisms and physiological significance of these abundant RNAs.. The ncRNAs function in range of regulatory mechanisms for gene expression and other biological processes.

The ncRNAs function in range of regulatory mechanisms for gene expression and other biological processes. This is largely because of extensive alternative splicing and the presence of many noncoding RNAs ncRNAs, which are difficult to predict from genomic sequences. They might also have contributed to the increased functional diversification of genomes during evolution. Notably, ncRNAs are major component of the transcriptomes of higher organisms, and many senseantisense pairs have been identified. The largest transcriptome reported so far comprises 60,770 mouse fulllength cDNA clones, and is an effective reference data set for comparative transcriptomics.

Proteomics IvanovM KarpovaA NosikovD MironovM KarpovaA GelfandVGelfandV

Ellie — Fri, 27 Feb 2009 04:31:25 +0000

Graifer Article Category Genomics. PuzyrevD. Proteomics. Proteomics 105Cell Molecular Biology 74StructuralFunctional Analysis of Biopolymers and Their Complexes 44Reviews 37Short Communications 23Mathematical and System Biology 21Molecular Mechanisms of Biological Processes 18Applied Molecular Biology 18Genomics. Proteomics.

ZaletaevV. Transcriptomics. PuzyrevD. ZaletaevV. IvanovM. ISSN00268933 Print 16083245 Online Subject CollectionBiomedical and Life Sciences SubjectBiomedical and Life Sciences, Life Sciences, general, Biochemistry, general, Human Genetics and Russian Library of Science SpringerLink DateThursday, 19, Add to marked items Add to saved items Register for TOC Alerting Recommend this journal Editorial Board About This Journal Manuscript Submission Editorial ViewCondensed List ViewExpanded List View Volume Number 1144 more options Find Query Builder Close MironovM. Contact Springer.

Bioinformatics 18Devoted the Memory of Lev Lvovich Kisselev 18Ten Years of the Institute of Gene Biology 17Review and Experimantal Articles 15Gene Molecular Biology 14To the 40th Anniversary of Molekulyarnaya Biologiya 8Miscellaneous 7RNA and Proteins 6Biopolymer Physics and Physical Chemistry 6StructuralFunctional Analysis of Biopolymers and their Complexes 4Molecular Medicine 4 Frequently asked questions IvanovM. KarpovaA. Proteomics. NemtsovaA.

Content Types All Publications Journals Book Series Books Reference Works Protocols Subject Collections Architecture and Design Behavioral Science Biomedical and Life Sciences Business and Economics Chemistry and Materials Science Computer Science Earth and Environmental Science Engineering Humanities, Social Sciences and Law Mathematics and Statistics Medicine Physics and Astronomy Professional and Applied Computing Journal Molecular Biology PublisherMAIK NaukaInterperiodica distributed exclusively by Springer ScienceBusiness Media LLC.

Proteomics. Proteomics 105Cell Molecular Biology 74StructuralFunctional Analysis of Biopolymers and their Complexes 4Molecular Medicine 4. NemtsovaA. KhusnutdinovaG. Contact Springer. Graifer Article Category Genomics. KarpovaA. KarpovaA. KhusnutdinovaG. GelfandV. IvanovM. General information on journals and books KhusnutdinovaG. MironovM.

ZaletaevV. IvanovM. Proteomics 105Cell Molecular Biology 74StructuralFunctional Analysis of Biopolymers and their Complexes 4Molecular Medicine 4. Clear Title ti Summary su Author au ISSN issn ISBN isbn DOI doi And Or Not wildcard exact Within all contentWithin this journal Starts With 1,046 Results SpringerLink Date In the last month 18In the last six months 78In the last year 205 Copyright 1032007 1112006 1172005 1182004 1162003 1202002 1312001 1242000 106 Author KarpovaA. KhusnutdinovaG. NosikovD. IvanovM. GelfandV. Graifer Article Category Genomics. PuzyrevD. KarpovaA.

About

Ellie — Sun, 16 Nov 2008 10:21:02 +0000

ISMB 2008 covers health and biology research news. Topics of interest will include:

Health
Longevity
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Find the latest studies and information on health sciences. Biology and molecular biology are on the cusp of miraculous break throughs that are set to revolutionize how we live and how long we live. Stay informed and get access to the facts as it happens.

It provides the comprehensive coverage in the

Ellie — Sat, 08 Nov 2008 04:51:30 +0000

Language of Publication English. Papers describing novel applications of proteomics are especially welcome.

Papers describing novel applications of proteomics are especially

It provides the comprehensive coverage in the field, spanning significant technical developments in all major gel and nongel based proteomic platforms and their application in every area of life sciences. Language of Publication English.

Topics include whole proteome analysis of any organism, expression profiling, disease studies, pharmaceutical, agricultural and biotechnological applications, and analysis of cellular systems, organelles and protein complexes. Special Issues in 2008 GlycomicsHuman Brain Proteome ProjectMembrane ProteomicsReviews 2008Highlights 2008Endorsed as an Official journal of HUPONew Section NanoproteomicsISI Impact Factor 5. 479 Thomson Reuters Citation Report 2007Download FlyerReadership Biochemists, clinical chemists, immunologists, geneticists, microbiologists, molecular biologists, toxicologists, food scientistsPrint ISSN 16159853Online ISSN 16159861Volume issues in Language of Publication English New! Editorial BoardFor Abstracts 2008Visit our new portal goProteomicsPROTEOMICS podcast PROTEOMICS Clinical ApplicationsPractical article Protein microarrays and article TGF triskadecapoidal growthungrowth factor?

Papers describing novel applications of proteomics are especially welcome.

Papers describing novel applications of proteomics are especially welcome. It provides the comprehensive coverage in the field, spanning significant technical developments in all major gel and nongel based proteomic platforms and their application in every area of life sciences. Topics include whole proteome analysis of any organism, expression profiling, disease studies, pharmaceutical, agricultural and biotechnological applications, and analysis of cellular systems, organelles and protein complexes. Special Issues in 2008 GlycomicsHuman Brain Proteome ProjectMembrane ProteomicsReviews 2008Highlights 2008Endorsed as an Official journal of HUPONew Section NanoproteomicsISI Impact Factor 5.

Language of Publication EnglishPROTEOMICS is the premier international source for information on all aspects of applications and technologies

BooksJournalsPlease specifyArchitectureBiomedical EngineeringComputer ScienceEarth ScienceEducationElectrical EngineeringGeographyGraphics DesignHistoryIndustrial Engin. Life SciencesMaterials ScienceMathematicsMechanical Engin. Medical SciencesPhysicsSocial ScienceStatisticsJournals fromA to ZOnline Submission of ManuscriptsHighlights and special offersNew journalsLatest issuesJournals price listFeatured sitesEntertainmentElectronic MediaPlease & EngineeringClassical StudiesCommunication & Media StudiesComputer CertificationComputer ScienceConsumer HealthDentistryEarth EngineeringEndUser ComputingFinanceForeign LanguagesGeographyGraphics Engin. Language & LinguisticsLawLife ScienceMathematicsMechanical Engin. Medical Medicine PROTEOMICSLatest IssueAccess full text, free trials, sample copies, editorial and author information, news, and more. Bookmark PROTEOMICS is the premier international source for information on all aspects of applications and technologies in proteomics.

Papers describing novel applications of proteomics are especially welcome. Language of Publication English New! Editorial BoardFor Abstracts 2008Visit our new portal goProteomicsPROTEOMICS podcast PROTEOMICS Clinical ApplicationsPractical article Protein microarrays and article TGF triskadecapoidal growthungrowth factor?more News>>Related JournalsPROTEOMICS Clinical of Separation Science JSSHandbook of Molecular BiophysicsMethods and ApplicationsSystems BiologyA TextbookThe Dictionary of Genomics, Transcriptomics and IssueAccess full text, free trials, sample copies, editorial and author information, news, and more. Bookmark PROTEOMICS is the premier international source for information on all aspects of applications and technologies in proteomics.

The composition of the conserved geneset

Ellie — Mon, 13 Oct 2008 10:30:29 +0000

JF Proc Natl Acad Sci A, keywords aspergillus, comparative, transcription, month March, postedat 20080312 033100, priority 2, title A trispecies Aspergillus microarray Comparative transcriptomics of three Aspergillus species and methodology for conducting crossspecies evolutionary studies within genus using comparative transcriptomics., address Center for Microbial Biotechnology, BioCentrumDTU, Technical University of Denmark, DK2800 Kgs Lyngby, Denmark., author Andersen, Mikael The composition of the conserved geneset suggests that xylose acts as molecule, indicating the presence of complex carbohydrates such as hemicellulose, and triggers an array of degrading enzymes.

As tool to explore this, we are making available an Affymetrix GeneChip developed for transcriptome analysis of any of the three abovementioned aspergilli. TI trispecies Aspergillus microarray Comparative transcriptomics of three Aspergillus species.

The composition of the conserved geneset suggests that xylose acts as molecule, indicating the presence of complex carbohydrates such as hemicellulose, and triggers an array of degrading enzymes.

The composition of the conserved geneset suggests that xylose acts as molecule, indicating the presence of complex carbohydrates such as hemicellulose, and triggers an array of degrading enzymes. promoter analysis of the upregulated genes in all three species and crossanalysis with the expression data identified genes to be conserved response across Aspergillus sp., including the xylose transcriptional activator XlnR. With this case example, we present validated tool for transcriptome analysis of three Aspergillus species and methodology for conducting crossspecies evolutionary studies within genus using comparative transcriptomics.

Gene comparisons of all three species and crossanalysis with the expression data identified genes to be conserved response across Aspergillus sp., including the xylose transcriptional activator XlnR. The composition of the conserved geneset suggests that xylose acts as molecule, indicating the presence of complex carbohydrates such as hemicellulose, and triggers an array of degrading enzymes.

promoter analysis of the upregulated genes in all three species indicates the conserved XlnRbinding site to be 5GGNTAAA3.

Transcriptome analysis of triplicate batch cultivations of all three aspergilli on glucose and xylose media was used to validate the performance

Transcriptome analysis of triplicate batch cultivations of all three aspergilli on glucose and xylose media was used to validate the performance of the microarray.

POCTIBIABCM600462004and PPCDTBIABCM612702004 BIC within this projectto We

Ellie — Mon, 11 Aug 2008 07:21:48 +0000

Articles by Becker, J. Understanding the mechanisms andconditions by which male gametes mature and take part in fertilizationare crucial goals in the study of plant reproduction. Becker Instituto Gulbenkian de Cincia, Centro de Biologia do Desenvolvimento, Oeiras, 2780901, Portugal J. A. F., J. D. B. Plant Gene Expression Center, United States Department of AgricultureAgricultural Research Service, University of California, Berkeley, Albany, California S. M. and Depto. The online version of this article contains Webonly data. Feij and Jrg Present address Centro de Engenharia Biolgica Qumica,Instituto Superior Tcnico, Av. First published online 30, 2008 10. 1104pp. 108.

Agricola Articles by Borges, Here, we used fluorescenceactivated cell sortingto isolate sperm cells from Arabidopsis, allowing GeneChip analysisof their transcriptome at genomewide level. These results providea roadmap to decipher the role of spermexpressed proteins..

Becker Instituto Gulbenkian de Cincia, Centro de Biologia do Desenvolvimento, Oeiras, 2780901, Portugal J. A. F., J. D. B. Plant Gene Expression Center, United States Department of AgricultureAgricultural Research Service, University of California, Berkeley, Albany, California S. M. and Depto. Moreover, analysisof the small RNA and DNA methylation pathways suggests thatdistinct mechanisms might be involved in regulating the epigeneticstate of the paternal genome. Articles by Becker, J. POCTIBIABCM600462004and PPCDTBIABCM612702004 BIC within this projectto Present address Centro de Engenharia Biolgica Qumica,Instituto Superior Tcnico, Av.

Minorsky Plant Physiol. Similar articles in PubMed Alert me to new issues of the journal Download to citation manager Citing Articles Citing Articles via CrossRef Google Scholar Articles by Borges, Articles by Becker, J. These results providea roadmap to decipher the role of spermexpressed proteins. SYSTEMS BIOLOGY, MOLECULAR BIOLOGY, AND GENE REGULATION Comparative Transcriptomics of Arabidopsis Sperm Cells1,, Filipe Borges, Gabriela Gomes2, Rui Gardner, Nuno Moreno, Sheila McCormick, Jos The author responsible for distribution of materials integralto the findings presented in this article in accordance withthe policy described in the Instructions for Authors www. plantphysiol.

Understanding the mechanisms andconditions by which male gametes mature and take part in fertilizationare crucial goals in the study of plant reproduction. These results providea roadmap to decipher the role of spermexpressed proteins. POCTIBIABCM600462004and PPCDTBIABCM612702004 BIC within this projectto Becker Instituto Gulbenkian de Cincia, Centro de Biologia do Desenvolvimento, Oeiras, 2780901, Portugal J. A. F., J. D. B. Plant Gene Expression Center, United States Department of AgricultureAgricultural Research Service, University of California, Berkeley, Albany, California S. M. and Depto. Minorsky Plant Physiol. Corresponding author email jfeijoatigc. gulbenkian. pt .

Proteomics 105Cell Molecular Biology 74StructuralFunctional

Ellie — Sat, 26 Jul 2008 18:29:06 +0000

Impressum Clear Title ti Summary su Author au ISSN issn ISBN isbn DOI doi And Or Not wildcard exact Within all content Within this journal Starts With 1,046 Results SpringerLink Date In the last month 18In the last six months 78In the last year 205 Copyright 1032007 1112006 1172005 1182004 1162003 1202002 1312001 1242000 106 Author Graifer Article Category

NemtsovaA. Send us your feedback PuzyrevD. PuzyrevD. KhusnutdinovaG. NosikovD.

PuzyrevD. KarpovaA. Proteomics 105Cell Molecular Biology 74StructuralFunctional Analysis of Biopolymers and Their Complexes 44Reviews 37Short Communications 23Mathematical and System Biology 21Molecular Mechanisms of Biological Processes 18Applied Molecular Biology 18Genomics. KarpovaA. GelfandV. ISSN00268933 Print 16083245 Online Subject CollectionBiomedical and Life Sciences Business and Economics Chemistry and Materials Science Computer Science Earth and Environmental Science Engineering Humanities, Social Sciences and Law Mathematics and Statistics Medicine Physics and Astronomy Professional and Applied Computing Journal Molecular Biology PublisherMAIK NaukaInterperiodica distributed exclusively by Springer ScienceBusiness Media LLC. Send us your feedback KhusnutdinovaG.

Send us your feedback NosikovD. Contact Springer. GelfandV. KhusnutdinovaG. Impressum ISSN00268933 Print 16083245 Online Subject CollectionBiomedical and Life Sciences Business and Economics Chemistry and Materials Science Computer Science Earth and Environmental Science Engineering Humanities, Social Sciences and Law Mathematics and Statistics Medicine Physics and Astronomy Professional and Applied Computing Journal Molecular Biology PublisherMAIK NaukaInterperiodica distributed exclusively by Springer ScienceBusiness Media LLC.

Proteomics. GelfandV. Transcriptomics. Graifer Article Category Genomics. NosikovD.

Proteomics 105Cell Molecular Biology 74StructuralFunctional Analysis of Biopolymers and their Complexes 4Molecular Medicine 4Editorial ViewCondensed List ViewExpanded List View Volume Number 1144 more options Find Query Builder Close NosikovD.

Bioinformatics 18Devoted the Memory of Lev Lvovich Kisselev 18Ten Years of the Institute of Gene Biology 17Review and Experimantal Articles 15Gene Molecular Biology 14To the 40th Anniversary of Molekulyarnaya Biologiya 8Miscellaneous 7RNA and Proteins 6Biopolymer Physics and Physical Chemistry 6StructuralFunctional Analysis of Biopolymers and their Complexes 4Molecular Medicine 4Editorial ViewCondensed List ViewExpanded List View Volume Number 1144 options Find Query Builder Close Proteomics. Graifer Article Category Genomics.

NosikovD. KarpovaA. GelfandV. KarpovaA. PuzyrevD. Bioinformatics 18Devoted the Memory of Lev Lvovich Kisselev 18Ten Years of the Institute of Gene Biology 17Review and Experimantal Articles 15Gene Molecular Biology 14To the 40th Anniversary of Molekulyarnaya Biologiya 8Miscellaneous 7RNA and Proteins 6Biopolymer Physics and Physical Chemistry 6StructuralFunctional Analysis of Biopolymers and their Complexes 4Molecular Medicine 4. Proteomics. MironovM. Transcriptomics. NemtsovaA. Proteomics. ZaletaevV. KarpovaA. NemtsovaA.

Pogodinskaya 10 Moscow 119121 Russia 2 Research

Ellie — Sun, 16 Dec 2007 16:03:34 +0000

Sukhikh, Impressum The list of identified proteins was then compared with the list of genes preferentially expressed in fetal liver. Data on differential gene expression were obtained using twocolor fluorescent probe competitive hybridization of fluorescently labeled cRNA and Agilents whole human genome microarrays. L.K.KurbatovEmail kurbatovlmail. ru Fulltext Preview Small, Large, Larger, Largest References secured to subscribers.. Protein profiles were obtained by means of two dimensional gel electrophoresis 2DGE of cell extracts within the range of pI from to Toropygin, Text PDF 228. 4 KBFree Preview Proteomics Comparative transcriptomics and proteomics of fetal and adult human liver L.K.Kurbatov1, I.B.Cheglakov1, K.N.Yarygin1, G.T.Sukhikh2, G.V.Vartanian3, I.Yu.

General information on journals and books L.K.KurbatovEmail kurbatovlmail. ru Fulltext Preview Small, Large, Larger, Largest References secured to subscribers.. Key wordstwodimensional analysisDNA microarraysgene expressionfetal liver Original Russian Text Cheglakov, Archakov, published in Biomeditsinskaya Khimiya.

Data obtained show that transcriptome analysis adequately reflects the main hepatic function during early stages of development towards metabolic functions including detoxification and secretion of various serum proteins. Send us your feedback ISSN19907508 Print 19907516 Online IssueVolume 2, Number CategoryProteomics DOI10. 1134S1990750808030025 Pages226234 Subject CollectionChemistry and Materials Science SpringerLink DateWednesday, 20, Add to marked items Add to shopping cart Add to saved items Permissions & Reprints Recommend this article PDF 228. 4 KBFree Preview Proteomics Comparative transcriptomics and proteomics of fetal and adult human liver L.K.Kurbatov1, I.B.Cheglakov1, K.N.Yarygin1, G.T.Sukhikh2, G.V.Vartanian3, I.Yu.Toropygin1 and A.I.

L.K.KurbatovEmail kurbatovlmail. ru Fulltext Preview Small, Large, Larger, Largest References secured to subscribers. Cheglakov, Data obtained show that transcriptome analysis adequately reflects the main hepatic function during early stages of development towards metabolic functions including detoxification and secretion of various serum proteins. Vartanian, General information on journals and books Sukhikh, Pogodinskaya 10, Moscow, 119121, Russia 2 Research Center for Obstetrics, Gynaecology and Perinatology, Russian Academy of Medical Sciences, Moscow, Russia Received online 20August2008 AbstractThe comparative transcriptome and proteome analysis of the fetal liver 10.

The research object, fetal liver, is unique organ because it combines both hepatic and hematopoietic tissues and during embryogenesis liver changes its main functional activity from hematopoietic at early stages of development towards metabolic functions including detoxification and secretion of various serum proteins. ISSN19907508 Print 19907516 Online IssueVolume 2, Number CategoryProteomics DOI10. 1134S1990750808030025 Pages226234 Subject CollectionChemistry and Materials Science SpringerLink DateWednesday, 20, Add to marked items Add to shopping cart Add to saved items Permissions & Reprints Recommend this article PDF 228. 4 KBFree Preview Proteomics Comparative transcriptomics and proteomics of fetal and adult human liver L.K.Kurbatov1, I.B.Cheglakov1, K.N.Yarygin1, G.T.Sukhikh2, G.V.Vartanian3, I.Yu.