Genome Biology | Volume 5 Issue 9

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	Volume 5 Issue 9
	Comment
	Comment Fame is a bubble, but not for some Gregory A Petsko Genome Biology 2004, 5:114 (24 August 2004) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Brilliant, acerbic, not given to suffer much of anybody gladly, let alone fools, Francis Crick had enormous influence that was due to his style and high scientific standards.
	Review
	Protein family review The cyclooxygenases NV Chandrasekharan, Daniel L Simmons Genome Biology 2004, 5:241 (27 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary Cyclooxygenases (COXs) catalyze the rate-limiting step in the production of prostaglandins, bioactive compounds involved in processes such as fever and sensitivity to pain, and are the target of aspirin-like drugs. In mammals, the two COX genes encode a constitutive isoenzyme (COX-1) and an inducible isoenzyme (COX-2).
	Minireview What's in a centromere? Jonathan C Lamb, James Theuri, James A Birchler Genome Biology 2004, 5:239 (17 August 2004) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary The complete sequence of rice centromere 8 reveals a small amount of centromere-specific satellite sequence in blocks interrupted by retrotransposons and other repetitive DNA, in an arrangement that is similar in size and content to other centromeres of multicellular eukaryotes.
	Minireview Chemical genomics in yeast Charles Brenner Genome Biology 2004, 5:240 (27 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary Four recent 'chemical genomic' studies, using genome-scale collections of yeast gene deletions, have presented complementary approaches to identifying gene-drug and pathway-drug interactions.
	Opinion Predicting and validating microRNA targets Eric C Lai Genome Biology 2004, 5:115 (31 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary There has been considerable progress in finding microRNA targets computationally, but assessing success and biological significance requires a move into the 'wet' lab.
	Report
	Paper report Articles selected by Faculty of 1000: marine micro-eukaryote phylogenetics; quantitative proteomics; the tubulin-binding proteome; rooting the tree of life with wobble; sizing protein aggregates Genome Biology 2004, 5:345 (6 August 2004) Abstract \| Full text \| Editor’s summary A selection of evaluations from Faculty of 1000 covering phylogenetic ananlysis of marine micro-eukaryotes; quantitative proteomics; the proteomics of tubulin-binding; rooting the tree of life with wobble; sizing protein aggregates.
	Paper report Articles selected by Faculty of 1000: high-throughput Arabidopsis metabolomics; mitochondrial DNA nucleoids; behavioral epigenetics; dissecting DNA-binding proteins; chemical genetics of adipogenesis Genome Biology 2004, 5:346 (20 August 2004) Abstract \| Full text \| Editor’s summary A selection of evaluations from Faculty of 1000 covering high-throughput metabolomics in Arabidopsis; mitochondrial DNA nucleoids; behavioral epigenetics; the dissection of DNA-binding proteins; chemical genetics of adipogenesis.
	Meeting report RNAi for research and therapy Michael A Goldman Genome Biology 2004, 5:342 (17 August 2004) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary A report on the RNAi symposium at the Cambridge Healthtech Institute ‘Beyond Genome’ Conference, San Francisco, USA, 21-24 June 2004.
	Meeting report Structural genomics and structural biology: compare and contrast John-Marc Chandonia, Thomas N Earnest, Steven E Brenner Genome Biology 2004, 5:343 (25 August 2004) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary A report on the Keystone Symposium 'Structural Genomics', held concurrently with the 'Frontiers in Structural Biology' symposium, Snowbird, USA, 13-19 April 2004.
	Meeting report Celebrating 40 years of biochemistry in Europe Errol C Friedberg, Tomas Lindahl Genome Biology 2004, 5:344 (27 August 2004) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary A report of the 29th Congress of the Federation of European Biochemical Societies (FEBS), Warsaw, Poland, 26 June-1 July 2004.
	Research news A tunicate bends the rules Stuart Blackman Genome Biology 2004, 5:spotlight-20040902-01 (2 September 2004) Abstract \| Full text \| Editor’s summary A chordate without Hox gene clustering challenges textbook thinking
	Research news Gene controls beak morphology Maria Anderson Genome Biology 2004, 5:spotlight-20040903-01 (3 September 2004) Abstract \| Full text \| Editor’s summary Answering a Darwinian question, scientists attribute differences in finches' beaks to Bmp4
	Research news Where the expressed genes are Cathy Holding Genome Biology 2004, 5:spotlight-20040906-01 (6 September 2004) Abstract \| Full text \| Editor’s summary Study of chromatin distribution overturns theory that accessibility governs expression
	Research news NIH unveils open access draft Paula Park Genome Biology 2004, 5:spotlight-20040909-01 (9 September 2004) Abstract \| Full text \| Editor’s summary Policy would put NIH-funded papers on a searchable Web site 6 months after publication
	Research news Flies with inner ears? David Secko Genome Biology 2004, 5:spotlight-20040914-01 (14 September 2004) Abstract \| Full text \| Editor’s summary The Drosophila Hmx gene directs development of the mouse inner ear, an organ flies don't possess
	Research news Enhancing the hominoid brain Melissa Phillips Genome Biology 2004, 5:spotlight-20040921-01 (21 September 2004) Abstract \| Full text \| Editor’s summary A study finds that retrotransposition sped up glutamate metabolism in ape and human brains
	Research news Cancer gene map online Charles Q Choi Genome Biology 2004, 5:spotlight-20040928-01 (28 September 2004) Abstract \| Full text \| Editor’s summary Global analysis of microarray data provides a hypothesis-generating tool for cancer
	Research news Chimp papers by the barrel Ishani Ganguli Genome Biology 2004, 5:spotlight-20050902-01 (2 September 2005) Abstract \| Full text \| Editor’s summary Sequence comparisons give most detailed look to date of chimpanzee-human differences
	Research news The evolving human brain Melissa Phillips Genome Biology 2004, 5:spotlight-20050909-01 (9 September 2005) Abstract \| Full text \| Editor’s summary Trio of studies hints at genetic changes that may have spurred human brain evolution
	Research news Nanotubes link immune cells Charles Choi Genome Biology 2004, 5:spotlight-20050920-01 (20 September 2005) Abstract \| Full text \| Editor’s summary Naturally occurring structures could help deliver signals and antigens more rapidly than other means
	Research news Bacteria may have endless diversity Melissa Phillips Genome Biology 2004, 5:spotlight-20050929-01 (29 September 2005) Abstract \| Full text \| Editor’s summary Comparative sequencing reveals enormous variation in genomes from horizontal gene transfer
	Research
	Research Discovery of estrogen receptor α target genes and response elements in breast tumor cells Chin-Yo Lin, Anders Ström, Vinsensius Vega, Say Li Kong, Ai Li Yeo, Jane S Thomsen, Wan Chan, Balraj Doray, Dhinoth K Bangarusamy, Adaikalavan Ramasamy, Liza A Vergara, Suisheng Tang, Allen Chong, Vladimir B Bajic, Lance D Miller, Jan-Åke Gustafsson, Edison T Liu Genome Biology 2004, 5:R66 (12 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary Microarray analysis has identified 89 estrogen target genes. The cis-regulatory elements found upstream of those genes are not well conserved in mouse and human.
	Research A first-draft human protein-interaction map Ben Lehner, Andrew G Fraser Genome Biology 2004, 5:R63 (13 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary Using data from model organisms, the authors have generated a large-scale human protein-protein interaction map. The map can be used to predict the function of human proteins.
	Research An Ambystoma mexicanum EST sequencing project: analysis of 17,352 expressed sequence tags from embryonic and regenerating blastema cDNA libraries Bianca Habermann, Anne-Gaelle Bebin, Stephan Herklotz, Michael Volkmer, Kay Eckelt, Kerstin Pehlke, Hans Epperlein, Hans Schackert, Glenis Wiebe, Elly M Tanaka Genome Biology 2004, 5:R67 (13 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary An EST database has been generated for the axolotl Ambystoma mexicanum. Analysis of this data has uncovered an unusual phylogenetic distribution of the cyclin dependent kinase inhibitor 1 gene family in amphibians.
	Research Computational identification of developmental enhancers: conservation and function of transcription factor binding-site clusters in Drosophila melanogaster and Drosophila pseudoobscura Benjamin P Berman, Barret D Pfeiffer, Todd R Laverty, Steven L Salzberg, Gerald M Rubin, Michael B Eisen, Susan E Celniker Genome Biology 2004, 5:R61 (20 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary 27 predicted gene-regulatory regions in the Drosophila melanogaster genome were analyzed in vivo, confirming 15 active enhancer regions. A comparison with Drosophila pseudoobscura sequences revealed that conservation of binding-site clusters accurately discriminates functional regions from non-functional ones.
	Research Global nucleosome occupancy in yeast Bradley E Bernstein, Chih Liu, Emily L Humphrey, Ethan O Perlstein, Stuart L Schreiber Genome Biology 2004, 5:R62 (20 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| F1000 Biology \| Editor’s summary A genome-wide study of nucleosome occupancy at yeast promoters shows that promoters that regulate active genes, contain multiple conserved motifs, or contain Rap1 binding sites tend to be depleted of nucleosomes.
	Research Comprehensive analysis of pseudogenes in prokaryotes: widespread gene decay and failure of putative horizontally transferred genes Yang Liu, Paul M Harrison, Victor Kunin, Mark Gerstein Genome Biology 2004, 5:R64 (26 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary A comprehensive analysis of the occurrence of pseudogenes in a diverse selection of 64 prokaryote genomes identified around 7,000 candidate pseudogenes. A large fraction of prokaryote pseudogenes seems to have arisen from failed horizontal-transfer events.
	Research Function-informed transcriptome analysis of Drosophila renal tubule Jing Wang, Laura Kean, Jingli Yang, Adrian K Allan, Shireen A Davies, Pawel Herzyk, Julian AT Dow Genome Biology 2004, 5:R69 (26 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| 1 comment \| Editor’s summary Analysis of the transcriptome of the Drosophila melanogaster Malpighian (renal) tubule gives a radically new view of the function of the tubule, emphasising solute transport rather than fluid secretion.
	Research Prediction and identification of Arabidopsis thaliana microRNAs and their mRNA targets Xiu-Jie Wang, José L Reyes, Nam-Hai Chua, Terry Gaasterland Genome Biology 2004, 5:R65 (31 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| F1000 Biology \| Editor’s summary Using bioinformatic methods, 83 novel Arabidopsis miRNAs have been predicted. Putative target mRNAs have been identified for most of the candidate genes.
	Research Microarray analysis of microRNA expression in the developing mammalian brain Eric A Miska, Ezequiel Alvarez-Saavedra, Matthew Townsend, Akira Yoshii, Nenad Šestan, Pasko Rakic, Martha Constantine-Paton, H Robert Horvitz Genome Biology 2004, 5:R68 (31 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary A microarray technology suitable for analyzing the expression of microRNAs and of other small RNAs was used to determine the microRNA expression profile during mouse-brain development and observed a temporal wave of gene expression of sequential classes of microRNAs.
	Method A catalog of human cDNA expression clones and its application to structural genomics Konrad Büssow, Claudia Quedenau, Volker Sievert, Janett Tischer, Christoph Scheich, Harald Seitz, Brigitte Hieke, Frank H Niesen, Frank Götz, Ulrich Harttig, Hans Lehrach Genome Biology 2004, 5:R71 (17 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary A systematic approach for identifying human proteins and protein fragments that can be expressed as soluble proteins in Escherichia coli is described.
	Method Improving identification of differentially expressed genes in microarray studies using information from public databases Richard D Kim, Peter J Park Genome Biology 2004, 5:R70 (26 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary The process of identifying differentially expressed genes in miroarray studies with small sample sizes can be improved substantially by extracting information from a large number of datasets accumulated in public databases.
	Method Large-scale exploration of growth inhibition caused by overexpression of genomic fragments in Saccharomyces cerevisiae Jeanne Boyer, Gwenaël Badis, Cécile Fairhead, Emmanuel Talla, Florence Hantraye, Emmanuelle Fabre, Gilles Fischer, Christophe Hennequin, Romain Koszul, Ingrid Lafontaine, Odile Ozier-Kalogeropoulos, Miria Ricchetti, Guy-Franck Richard, Agnès Thierry, Bernard Dujon Genome Biology 2004, 5:R72 (31 August 2004) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary A screen of the Saccharomyces cerevisiae genome for fragments conferring a growth-impairment phenotype identified 714 fragments in about 84,000 clones tested.

	Volume 5 Issue 9
	Comment
	Comment Fame is a bubble, but not for some Gregory A Petsko Genome Biology 2004, 5:114 (24 August 2004) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Brilliant, acerbic, not given to suffer much of anybody gladly, let alone fools, Francis Crick had enormous influence that was due to his style and high scientific standards.
	Review
	Protein family review The cyclooxygenases NV Chandrasekharan, Daniel L Simmons Genome Biology 2004, 5:241 (27 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary Cyclooxygenases (COXs) catalyze the rate-limiting step in the production of prostaglandins, bioactive compounds involved in processes such as fever and sensitivity to pain, and are the target of aspirin-like drugs. In mammals, the two COX genes encode a constitutive isoenzyme (COX-1) and an inducible isoenzyme (COX-2).
	Minireview What's in a centromere? Jonathan C Lamb, James Theuri, James A Birchler Genome Biology 2004, 5:239 (17 August 2004) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary The complete sequence of rice centromere 8 reveals a small amount of centromere-specific satellite sequence in blocks interrupted by retrotransposons and other repetitive DNA, in an arrangement that is similar in size and content to other centromeres of multicellular eukaryotes.
	Minireview Chemical genomics in yeast Charles Brenner Genome Biology 2004, 5:240 (27 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary Four recent 'chemical genomic' studies, using genome-scale collections of yeast gene deletions, have presented complementary approaches to identifying gene-drug and pathway-drug interactions.
	Opinion Predicting and validating microRNA targets Eric C Lai Genome Biology 2004, 5:115 (31 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary There has been considerable progress in finding microRNA targets computationally, but assessing success and biological significance requires a move into the 'wet' lab.
	Report
	Paper report Articles selected by Faculty of 1000: marine micro-eukaryote phylogenetics; quantitative proteomics; the tubulin-binding proteome; rooting the tree of life with wobble; sizing protein aggregates Genome Biology 2004, 5:345 (6 August 2004) Abstract \| Full text \| Editor’s summary A selection of evaluations from Faculty of 1000 covering phylogenetic ananlysis of marine micro-eukaryotes; quantitative proteomics; the proteomics of tubulin-binding; rooting the tree of life with wobble; sizing protein aggregates.
	Paper report Articles selected by Faculty of 1000: high-throughput Arabidopsis metabolomics; mitochondrial DNA nucleoids; behavioral epigenetics; dissecting DNA-binding proteins; chemical genetics of adipogenesis Genome Biology 2004, 5:346 (20 August 2004) Abstract \| Full text \| Editor’s summary A selection of evaluations from Faculty of 1000 covering high-throughput metabolomics in Arabidopsis; mitochondrial DNA nucleoids; behavioral epigenetics; the dissection of DNA-binding proteins; chemical genetics of adipogenesis.
	Meeting report RNAi for research and therapy Michael A Goldman Genome Biology 2004, 5:342 (17 August 2004) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary A report on the RNAi symposium at the Cambridge Healthtech Institute ‘Beyond Genome’ Conference, San Francisco, USA, 21-24 June 2004.
	Meeting report Structural genomics and structural biology: compare and contrast John-Marc Chandonia, Thomas N Earnest, Steven E Brenner Genome Biology 2004, 5:343 (25 August 2004) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary A report on the Keystone Symposium 'Structural Genomics', held concurrently with the 'Frontiers in Structural Biology' symposium, Snowbird, USA, 13-19 April 2004.
	Meeting report Celebrating 40 years of biochemistry in Europe Errol C Friedberg, Tomas Lindahl Genome Biology 2004, 5:344 (27 August 2004) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary A report of the 29th Congress of the Federation of European Biochemical Societies (FEBS), Warsaw, Poland, 26 June-1 July 2004.
	Research news A tunicate bends the rules Stuart Blackman Genome Biology 2004, 5:spotlight-20040902-01 (2 September 2004) Abstract \| Full text \| Editor’s summary A chordate without Hox gene clustering challenges textbook thinking
	Research news Gene controls beak morphology Maria Anderson Genome Biology 2004, 5:spotlight-20040903-01 (3 September 2004) Abstract \| Full text \| Editor’s summary Answering a Darwinian question, scientists attribute differences in finches' beaks to Bmp4
	Research news Where the expressed genes are Cathy Holding Genome Biology 2004, 5:spotlight-20040906-01 (6 September 2004) Abstract \| Full text \| Editor’s summary Study of chromatin distribution overturns theory that accessibility governs expression
	Research news NIH unveils open access draft Paula Park Genome Biology 2004, 5:spotlight-20040909-01 (9 September 2004) Abstract \| Full text \| Editor’s summary Policy would put NIH-funded papers on a searchable Web site 6 months after publication
	Research news Flies with inner ears? David Secko Genome Biology 2004, 5:spotlight-20040914-01 (14 September 2004) Abstract \| Full text \| Editor’s summary The Drosophila Hmx gene directs development of the mouse inner ear, an organ flies don't possess
	Research news Enhancing the hominoid brain Melissa Phillips Genome Biology 2004, 5:spotlight-20040921-01 (21 September 2004) Abstract \| Full text \| Editor’s summary A study finds that retrotransposition sped up glutamate metabolism in ape and human brains
	Research news Cancer gene map online Charles Q Choi Genome Biology 2004, 5:spotlight-20040928-01 (28 September 2004) Abstract \| Full text \| Editor’s summary Global analysis of microarray data provides a hypothesis-generating tool for cancer
	Research news Chimp papers by the barrel Ishani Ganguli Genome Biology 2004, 5:spotlight-20050902-01 (2 September 2005) Abstract \| Full text \| Editor’s summary Sequence comparisons give most detailed look to date of chimpanzee-human differences
	Research news The evolving human brain Melissa Phillips Genome Biology 2004, 5:spotlight-20050909-01 (9 September 2005) Abstract \| Full text \| Editor’s summary Trio of studies hints at genetic changes that may have spurred human brain evolution
	Research news Nanotubes link immune cells Charles Choi Genome Biology 2004, 5:spotlight-20050920-01 (20 September 2005) Abstract \| Full text \| Editor’s summary Naturally occurring structures could help deliver signals and antigens more rapidly than other means
	Research news Bacteria may have endless diversity Melissa Phillips Genome Biology 2004, 5:spotlight-20050929-01 (29 September 2005) Abstract \| Full text \| Editor’s summary Comparative sequencing reveals enormous variation in genomes from horizontal gene transfer
	Research
	Research Discovery of estrogen receptor α target genes and response elements in breast tumor cells Chin-Yo Lin, Anders Ström, Vinsensius Vega, Say Li Kong, Ai Li Yeo, Jane S Thomsen, Wan Chan, Balraj Doray, Dhinoth K Bangarusamy, Adaikalavan Ramasamy, Liza A Vergara, Suisheng Tang, Allen Chong, Vladimir B Bajic, Lance D Miller, Jan-Åke Gustafsson, Edison T Liu Genome Biology 2004, 5:R66 (12 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary Microarray analysis has identified 89 estrogen target genes. The cis-regulatory elements found upstream of those genes are not well conserved in mouse and human.
	Research A first-draft human protein-interaction map Ben Lehner, Andrew G Fraser Genome Biology 2004, 5:R63 (13 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary Using data from model organisms, the authors have generated a large-scale human protein-protein interaction map. The map can be used to predict the function of human proteins.
	Research An Ambystoma mexicanum EST sequencing project: analysis of 17,352 expressed sequence tags from embryonic and regenerating blastema cDNA libraries Bianca Habermann, Anne-Gaelle Bebin, Stephan Herklotz, Michael Volkmer, Kay Eckelt, Kerstin Pehlke, Hans Epperlein, Hans Schackert, Glenis Wiebe, Elly M Tanaka Genome Biology 2004, 5:R67 (13 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary An EST database has been generated for the axolotl Ambystoma mexicanum. Analysis of this data has uncovered an unusual phylogenetic distribution of the cyclin dependent kinase inhibitor 1 gene family in amphibians.
	Research Computational identification of developmental enhancers: conservation and function of transcription factor binding-site clusters in Drosophila melanogaster and Drosophila pseudoobscura Benjamin P Berman, Barret D Pfeiffer, Todd R Laverty, Steven L Salzberg, Gerald M Rubin, Michael B Eisen, Susan E Celniker Genome Biology 2004, 5:R61 (20 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary 27 predicted gene-regulatory regions in the Drosophila melanogaster genome were analyzed in vivo, confirming 15 active enhancer regions. A comparison with Drosophila pseudoobscura sequences revealed that conservation of binding-site clusters accurately discriminates functional regions from non-functional ones.
	Research Global nucleosome occupancy in yeast Bradley E Bernstein, Chih Liu, Emily L Humphrey, Ethan O Perlstein, Stuart L Schreiber Genome Biology 2004, 5:R62 (20 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| F1000 Biology \| Editor’s summary A genome-wide study of nucleosome occupancy at yeast promoters shows that promoters that regulate active genes, contain multiple conserved motifs, or contain Rap1 binding sites tend to be depleted of nucleosomes.
	Research Comprehensive analysis of pseudogenes in prokaryotes: widespread gene decay and failure of putative horizontally transferred genes Yang Liu, Paul M Harrison, Victor Kunin, Mark Gerstein Genome Biology 2004, 5:R64 (26 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary A comprehensive analysis of the occurrence of pseudogenes in a diverse selection of 64 prokaryote genomes identified around 7,000 candidate pseudogenes. A large fraction of prokaryote pseudogenes seems to have arisen from failed horizontal-transfer events.
	Research Function-informed transcriptome analysis of Drosophila renal tubule Jing Wang, Laura Kean, Jingli Yang, Adrian K Allan, Shireen A Davies, Pawel Herzyk, Julian AT Dow Genome Biology 2004, 5:R69 (26 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| 1 comment \| Editor’s summary Analysis of the transcriptome of the Drosophila melanogaster Malpighian (renal) tubule gives a radically new view of the function of the tubule, emphasising solute transport rather than fluid secretion.
	Research Prediction and identification of Arabidopsis thaliana microRNAs and their mRNA targets Xiu-Jie Wang, José L Reyes, Nam-Hai Chua, Terry Gaasterland Genome Biology 2004, 5:R65 (31 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| F1000 Biology \| Editor’s summary Using bioinformatic methods, 83 novel Arabidopsis miRNAs have been predicted. Putative target mRNAs have been identified for most of the candidate genes.
	Research Microarray analysis of microRNA expression in the developing mammalian brain Eric A Miska, Ezequiel Alvarez-Saavedra, Matthew Townsend, Akira Yoshii, Nenad Šestan, Pasko Rakic, Martha Constantine-Paton, H Robert Horvitz Genome Biology 2004, 5:R68 (31 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary A microarray technology suitable for analyzing the expression of microRNAs and of other small RNAs was used to determine the microRNA expression profile during mouse-brain development and observed a temporal wave of gene expression of sequential classes of microRNAs.
	Method A catalog of human cDNA expression clones and its application to structural genomics Konrad Büssow, Claudia Quedenau, Volker Sievert, Janett Tischer, Christoph Scheich, Harald Seitz, Brigitte Hieke, Frank H Niesen, Frank Götz, Ulrich Harttig, Hans Lehrach Genome Biology 2004, 5:R71 (17 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary A systematic approach for identifying human proteins and protein fragments that can be expressed as soluble proteins in Escherichia coli is described.
	Method Improving identification of differentially expressed genes in microarray studies using information from public databases Richard D Kim, Peter J Park Genome Biology 2004, 5:R70 (26 August 2004) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary The process of identifying differentially expressed genes in miroarray studies with small sample sizes can be improved substantially by extracting information from a large number of datasets accumulated in public databases.
	Method Large-scale exploration of growth inhibition caused by overexpression of genomic fragments in Saccharomyces cerevisiae Jeanne Boyer, Gwenaël Badis, Cécile Fairhead, Emmanuel Talla, Florence Hantraye, Emmanuelle Fabre, Gilles Fischer, Christophe Hennequin, Romain Koszul, Ingrid Lafontaine, Odile Ozier-Kalogeropoulos, Miria Ricchetti, Guy-Franck Richard, Agnès Thierry, Bernard Dujon Genome Biology 2004, 5:R72 (31 August 2004) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary A screen of the Saccharomyces cerevisiae genome for fragments conferring a growth-impairment phenotype identified 714 fragments in about 84,000 clones tested.

Explore Genome Biology

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Volume 5 Issue 9

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