bjorns's library 274 articles Export

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	No simple dependence between protein evolution rate and the number of protein-protein interactions: only the most prolific interactors tend to evolve slowly. [My Copy] BMC Evol Biol, Vol. 3 (6 January 2003) by I. K. Jordan, Y. I. Wolf, E. V. Koonin posted to helicobacter kaks networks refs_jme05 yeast by bjorns on 2005-08-25 08:05:42 as along with 1 person and 1 group penka Nie
	Correlation between gene expression profiles and protein-protein interactions within and across genomes. [My Copy] Bioinformatics, Vol. 21, No. 11. (1 June 2005), pp. 2730-2738. by N. Bhardwaj, H. Lu posted to expression networks refs_jme05 by bjorns on 2005-07-06 13:32:36 as
	Complete genome sequence of the acetic acid bacterium Gluconobacter oxydans [My Copy] Nature Biotechnology, Vol. 23, No. 2. (23 January 2005), pp. 195-200. by Christina Prust, Marc Hoffmeister, Heiko Liesegang, et al.Arnim Wiezer, Wolfgang F. Fricke, Armin Ehrenreich, Gerhard Gottschalk, Uwe Deppenmeier posted to alpha genome by bjorns on 2005-06-15 13:22:18 as along with 1 person johanviklund
	Structure of the head of the Bartonella adhesin BadA. [My Copy] PLoS pathogens, Vol. 4, No. 8. (2008) by P. Szczesny, D. Linke, A. Ursinus, et al.K. Bär, H. Schwarz, T. M. Riess, V. A. Kempf, A. N. Lupas, J. Martin, K. Zeth posted to autotransporter bada bartonella by bjorns on 2008-11-24 15:05:24 as
	A Single Determinant Dominates the Rate of Yeast Protein Evolution [My Copy] Mol Biol Evol, Vol. 23, No. 2. (1 February 2006), pp. 327-337. by D. Allan Drummond, Alpan Raval, Claus O. Wilke posted to expression kaks rate yeast by bjorns on 2005-10-31 13:38:11 as along with 6 people and 1 group biomcgary mgomes azazello penka jpoyatos bicko Nie
	Insights on the Evolution of Metabolic Networks of Unicellular Translationally Biased Organisms from Transcriptomic Data and Sequence Analysis. [My Copy] J Mol Evol (26 September 2005) by Alessandra Carbone, Richard Madden posted to codon helicobacter metabolic networks by bjorns on 2005-10-03 08:11:27 as
	Global analysis of mRNA decay and abundance in Escherichia coli at single-gene resolution using two-color fluorescent DNA microarrays. [My Copy] Proc Natl Acad Sci U S A, Vol. 99, No. 15. (23 July 2002), pp. 9697-9702. by J. A. Bernstein, A. B. Khodursky, P. H. Lin, S. Lin-Chao, S. N. Cohen posted to ecoli expression refs_jme05 by bjorns on 2005-09-15 13:10:27 as along with 3 people athma balajis madhadron
	Gene expression level influences amino acid usage, but not codon usage, in the tsetse fly endosymbiont Wigglesworthia. [My Copy] Microbiology, Vol. 149, No. Pt 9. (September 2003), pp. 2585-2596. by J. T. Herbeck, D. P. Wall, J. J. Wernegreen posted to codon endosymbiotic refs_jme05 by bjorns on 2005-09-13 15:29:24 as along with 2 people operon skumagai
	Mutational and Selective Pressures on Codon and Amino Acid Usage in Buchnera, Endosymbiotic Bacteria of Aphids [My Copy] Genome Research, Vol. 14, No. 1. (January 2004), pp. 44-53. by Claude Rispe, François Delmotte, Roeland C. H. J. van Ham, Andres Moya posted to codon endosymbiotic refs_jme05 by bjorns on 2005-09-06 10:13:32 as along with 3 people codonusage michaelbarton operon
	Genome streamlining in a cosmopolitan oceanic bacterium. [My Copy] Science, Vol. 309, No. 5738. (19 August 2005), pp. 1242-1245. by S. J. Giovannoni, H. J. Tripp, S. Givan, et al.M. Podar, K. L. Vergin, D. Baptista, L. Bibbs, J. Eads, T. H. Richardson, M. Noordewier, M. S. Rappé, J. M. Short, J. C. Carrington, E. J. Mathur posted to alpha genome by bjorns on 2005-08-21 12:53:28 as along with 5 people sanxiyn michaelbarton johanviklund knaseanka vrich
	Functional genomic analysis of the rates of protein evolution. [My Copy] Proc Natl Acad Sci U S A, Vol. 102, No. 15. (12 April 2005), pp. 5483-5488. by D. P. Wall, A. E. Hirsh, H. B. Fraser, et al.J. Kumm, G. Giaever, M. B. Eisen, M. W. Feldman posted to essentialgenes expression kaks yeast by bjorns on 2005-08-18 15:07:48 as
	The evolution of connectivity in metabolic networks. [My Copy] PLoS Biol, Vol. 3, No. 7. (July 2005) by T. Pfeiffer, O. S. Soyer, S. Bonhoeffer posted to networks by bjorns on 2005-08-16 20:11:29 as along with 10 people and 1 group sergiun wangbo wilbur jameswasmuth westoll alexg balicea tny livingthingdan Ema livingthing
	Gene expression levels influence amino acid usage and evolutionary rates in endosymbiotic bacteria. [My Copy] Gene, Vol. 352 (6 June 2005), pp. 109-117. by J. Schaber, C. Rispe, J. Wernegreen, et al.A. Buness, F. Delmotte, F. J. Silva, A. Moya posted to endosymbiotic expression kaks refs_jme05 by bjorns on 2005-07-05 15:46:02 as
	A highly unexpected strong correlation between fixation probability of nonsynonymous mutations and mutation rate [My Copy] Trends in Genetics, Vol. In Press, Corrected Proof by Gerald J. Wyckoff, Christine M. Malcom, Eric J. Vallender, Bruce T. Lahn posted to kaks by bjorns on 2005-06-17 15:47:17 as along with 6 people and 1 group aprasad JAShapiro balajis penka shoshin bpcusack Nie
	Insights into the evolutionary history of tubercle bacilli as disclosed by genetic rearrangements within a PE_PGRS duplicated gene pair [My Copy] BMC Evolutionary Biology, Vol. 6 (12 December 2006), 107. by Anis Karboul, Nicolaas, Amine Namouchi, et al.Veronique Vincent, Christophe Sola, Nalin Rastogi, Philip Suffys, Michel Fabre, Angel Cataldi, Richard C. Huard, Natalia Kurepina, Barry Kreiswirth, John L. Ho, Cristina M. Gutierrez, Helmi Mardassi posted to duplications repeats by bjorns on 2007-05-28 09:22:01 as
	Recognition and Delivery of Effector Proteins into Eukaryotic Cells by Bacterial Secretion Systems [My Copy] Traffic, Vol. 7, No. 8. (August 2006), pp. 929-939. by Cambronne, D. Eric, Roy, R. Craig posted to review typeiii typeiv by bjorns on 2007-01-02 15:33:28 as
	Type III protein secretion systems in bacterial pathogens of animals and plants. [My Copy] Microbiology and molecular biology reviews : MMBR, Vol. 62, No. 2. (June 1998), pp. 379-433. by C. J. Hueck posted to review typeiii by bjorns on 2007-01-02 09:45:29 as along with 4 people katholt knaseanka robert manzanita
	Definition of a bacterial type IV secretion pathway for a DNA substrate. [My Copy] Science, Vol. 304, No. 5674. (21 May 2004), pp. 1170-1173. by E. Cascales, P. J. Christie posted to typeiv by bjorns on 2006-05-10 09:37:26 as
	A bacterial conjugation machinery recruited for pathogenesis. [My Copy] Mol Microbiol, Vol. 49, No. 5. (September 2003), pp. 1253-1266. by A. Seubert, R. Hiestand, F. de la Cruz, C. Dehio posted to typeiv by bjorns on 2006-05-10 09:04:47 as
	Functional interactions between type IV secretion systems involved in DNA transfer and virulence. [My Copy] Microbiology, Vol. 151, No. Pt 11. (November 2005), pp. 3505-3516. by H. D. de Paz, F. J. Sangari, S. Bolland, et al.J. M. García-Lobo, C. Dehio, F. de la Cruz, M. Llosa posted to trw typeiv by bjorns on 2006-05-10 09:02:50 as
	Clusters of diverse genes existing as multiple, sequence-variable mosaics in a phytoplasma genome. [My Copy] FEMS Microbiol Lett, Vol. 255, No. 1. (February 2006), pp. 59-65. by R. Jomantiene, R. E. Davis posted to recombination strain by bjorns on 2006-02-17 15:46:38 as along with 1 person operon
	Comparative sequence analysis of the internal transcribed spacer 1 of Ochrobactrum species. [My Copy] Syst Appl Microbiol (10 December 2005) by Michael Lebuhn, Stephan Bathe, Wafa Achouak, Anton Hartmann, Thierry Heulin, Michael Schloter posted to ochrobactrum by bjorns on 2006-01-04 16:01:38 as
	Genome Phylogenies Indicate a Meaningful alpha-Proteobacterial Phylogeny and Support A Grouping of the Mitochondria With the Rickettsiales. [My Copy] Mol Biol Evol (8 September 2005) by David A A. Fitzpatrick, Christopher J J. Creevey, James O O. McInerney posted to alpha mito phylogeny by bjorns on 2005-11-04 07:55:11 as along with 2 people johanviklund Schmidtc
	Tracing the evolution of a large protein complex in the eukaryotes, NADH:ubiquinone oxidoreductase (Complex I). [My Copy] J Mol Biol, Vol. 348, No. 4. (13 May 2005), pp. 857-870. by T. Gabaldón, D. Rainey, M. A. Huynen posted to egs by bjorns on 2005-09-20 08:10:14 as along with 2 people swp09 matzke
	An anaerobic mitochondrion that produces hydrogen [My Copy] Nature, Vol. 434, No. 7029. (03 March 2005), pp. 74-79. by Brigitte Boxma, Rob M. d. de Graaf, Georg W. M. v. d. van der Staay, et al.Theo A. v. van Alen, Guenola Ricard, Toni Gabaldon, Angela H. A. M. v. van Hoek, S. Y. M. d. Seung, Werner J. H. Koopman, Jaap J. v. van Hellemond, Aloysius G. M. Tielens, Thorsten Friedrich, Marten Veenhuis, Martijn A. Huynen, Johannes H. P. Hackstein posted to egs by bjorns on 2005-09-20 08:02:23 as along with 1 person mdoorn
	Variation and evolution of biomolecular systems: searching for functional relevance. [My Copy] FEBS Lett, Vol. 579, No. 8. (21 March 2005), pp. 1839-1845. by M. A. Huynen, T. Gabaldón, B. Snel posted to egs by bjorns on 2005-09-20 07:44:29 as along with 1 person kuhn
	Unexpected correlations between gene expression and codon usage bias from microarray data for the whole Escherichia coli K-12 genome. [My Copy] Nucleic Acids Res, Vol. 31, No. 23. (1 December 2003), pp. 6976-6985. by M. dos Reis, L. Wernisch, R. Savva posted to codon ecoli expression refs_jme05 by bjorns on 2005-09-19 10:20:09 as
	Bacterial genome size reduction by experimental evolution [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 102, No. 34. (23 August 2005), pp. 12112-12116. by A. I. Nilsson, S. Koskiniemi, S. Eriksson, E. Kugelberg, J. C. D. Hinton, D. I. Andersson posted to recombination reduction salmonella by bjorns on 2005-08-26 18:04:03 as along with 5 people druvus operon aprasad dayjm radek
	Protein signatures distinctive of alpha proteobacteria and its subgroups and a model for alpha-proteobacterial evolution. [My Copy] Crit Rev Microbiol, Vol. 31, No. 2. (2005), pp. 101-135. by R. S. Gupta posted to alpha phylogeny review by bjorns on 2005-08-25 07:50:21 as
	A novel method for accurate operon predictions in all sequenced prokaryotes. [My Copy] Nucleic Acids Res, Vol. 33, No. 3. (2005), pp. 880-892. by M. N. Price, K. H. Huang, E. J. Alm, A. P. Arkin posted to operons by bjorns on 2005-08-24 11:02:33 as along with 2 people stefanorb balajis
	Free recombination within Helicobacter pylori. [My Copy] Proc Natl Acad Sci U S A, Vol. 95, No. 21. (13 October 1998), pp. 12619-12624. by S. Suerbaum, J. M. Smith, K. Bapumia, et al.G. Morelli, N. H. Smith, E. Kunstmann, I. Dyrek, M. Achtman posted to helicobacter recombination refs_jme05 by bjorns on 2005-08-23 16:01:26 as along with 1 person AaronDarling
	Recombination and mutation during long-term gastric colonization by Helicobacter pylori: estimates of clock rates, recombination size, and minimal age. [My Copy] Proc Natl Acad Sci U S A, Vol. 98, No. 26. (18 December 2001), pp. 15056-15061. by D. Falush, C. Kraft, N. S. Taylor, et al.P. Correa, J. G. Fox, M. Achtman, S. Suerbaum posted to helicobacter recombination by bjorns on 2005-08-23 14:44:25 as along with 1 person Xavier
	Correlation of codon bias measures with mRNA levels: analysis of transcriptome data from Escherichia coli. [My Copy] Biochem Biophys Res Commun, Vol. 327, No. 1. (4 February 2005), pp. 4-7. by R. M. Goetz, A. Fuglsang posted to ecoli expression refs_jme05 by bjorns on 2005-08-22 14:46:22 as
	Protein dispensability and rate of evolution. [My Copy] Nature, Vol. 411, No. 6841. (28 June 2001), pp. 1046-1049. by A. E. Hirsh, H. B. Fraser posted to essentialgenes kaks refs_jme05 yeast by bjorns on 2005-08-22 08:57:48 as along with 5 people and 1 group balicea penka bluto cjeans tfogal Nie
	Metabolic efficiency and amino acid composition in the proteomes of Escherichia coli and Bacillus subtilis. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 99, No. 6. (19 March 2002), pp. 3695-3700. by Hiroshi Akashi, Takashi Gojobori posted to expression kaks refs_jme05 by bjorns on 2005-08-22 08:29:44 as along with 4 people and 1 group bpcusack kinestetika michaelbarton tny microbiology_nijmegen
	Translational selection and yeast proteome evolution. [My Copy] Genetics, Vol. 164, No. 4. (August 2003), pp. 1291-1303. by H. Akashi posted to kaks refs_jme05 yeast by bjorns on 2005-08-22 08:18:32 as along with 2 people and 1 group penka michaelbarton Nie
	Characterization of the Genome Composition of Bartonella koehlerae by Microarray Comparative Genomic Hybridization Profiling. [My Copy] J Bacteriol, Vol. 187, No. 17. (September 2005), pp. 6155-6165. by H. L. Lindroos, A. Mira, D. Repsilber, et al.O. Vinnere, K. Näslund, M. Dehio, C. Dehio, S. G. Andersson posted to bartonella molev by bjorns on 2005-08-21 15:45:47 as
	Absence of translationally selected synonymous codon usage bias in Helicobacter pylori. [My Copy] Microbiology, Vol. 146 ( Pt 4) (April 2000), pp. 851-860. by B. Lafay, J. C. Atherton, P. M. Sharp posted to codon helicobacter refs_jme05 by bjorns on 2005-07-07 08:56:35 as
	A strand-specific model for chromosome segregation in bacteria. [My Copy] Mol Microbiol, Vol. 49, No. 4. (August 2003), pp. 895-903. by E. P. Rocha, J. Fralick, G. Vediyappan, A. Danchin, V. Norris posted to gene_organization theory by bjorns on 2005-07-05 15:35:31 as
	Gene essentiality determines chromosome organisation in bacteria. [My Copy] Nucleic Acids Res, Vol. 31, No. 22. (15 November 2003), pp. 6570-6577. by E. P. Rocha, A. Danchin posted to essentialgenes gene_organization by bjorns on 2005-07-05 09:00:50 as along with 2 people operon BarrosH
	An analysis of determinants of amino acids substitution rates in bacterial proteins. [My Copy] Mol Biol Evol, Vol. 21, No. 1. (January 2004), pp. 108-116. by E. P. Rocha, A. Danchin posted to essentialgenes expression kaks refs_jme05 by bjorns on 2005-07-05 07:23:31 as along with 5 people and 1 group michaelbarton tny penka jpoyatos skumagai Nie
	Systematic identification of selective essential genes in Helicobacter pylori by genome prioritization and allelic replacement mutagenesis. [My Copy] J Bacteriol, Vol. 183, No. 4. (February 2001), pp. 1259-1268. by A. F. Chalker, H. W. Minehart, N. J. Hughes, et al.K. K. Koretke, M. A. Lonetto, K. K. Brinkman, P. V. Warren, A. Lupas, M. J. Stanhope, J. R. Brown, P. S. Hoffman posted to essentialgenes helicobacter by bjorns on 2005-07-04 10:49:51 as
	Global transposon mutagenesis and essential gene analysis of Helicobacter pylori. [My Copy] J Bacteriol, Vol. 186, No. 23. (December 2004), pp. 7926-7935. by N. R. Salama, B. Shepherd, S. Falkow posted to essentialgenes helicobacter refs_jme05 by bjorns on 2005-07-04 10:21:18 as
	An expanded genome-scale model of Escherichia coli K-12 (iJR904 GSM/GPR) [My Copy] Genome Biology, Vol. 4, No. 9. (2003), R54. by Jennifer Reed, Thuy Vo, Christophe Schilling, Bernhard Palsson posted to ecoli networks by bjorns on 2005-06-29 11:16:27 as along with 5 people and 2 groups schwartzjmc csanford michaelbarton cate JeremyZucker biospec MetabolicModeling
	The Bartonella vinsonii subsp. arupensis immunodominant surface antigen BrpA gene, encoding a 382-kilodalton protein composed of repetitive sequences, is a member of a multigene family conserved among bartonella species. [My Copy] Infect Immun, Vol. 73, No. 5. (May 2005), pp. 3128-3136. by R. D. Gilmore, T. M. Bellville, S. L. Sviat, M. Frace posted to bartonella brpa surface by bjorns on 2005-06-28 08:05:14 as
	Dissecting the bacterial type VI secretion system by a genome wide in silico analysis: what can be learnt from available microbial genomic resources? [My Copy] BMC Genomics, Vol. 10, No. 1. (2009) by Frederic Boyer, Gwennaele Fichant, Jeremie Berthod, Yves Vandenbrouck, Ina Attree posted to typeiv by bjorns on 2009-05-09 14:38:50 as along with 1 person neils
	Gene Conversion Maintains Nonfunctional Transposable Elements in an Obligate Mutualistic Endosymbiont [My Copy] Mol Biol Evol, Vol. 26, No. 8. (1 August 2009), pp. 1679-1682. by Richard Cordaux posted to geneconversion by bjorns on 2009-05-09 14:34:46 as along with 1 person operon
	Visualization of pseudogenes in intracellular bacteria reveals the different tracks to gene destruction [My Copy] Genome Biology, Vol. 9 (26 February 2008), R42. by Hans-Henrik Fuxelius, Alistair C. Darby, Nam-Huyk Cho, Siv G. E. Andersson posted to molev by bjorns on 2008-09-01 12:00:23 as along with 4 people johanviklund treangen druvus operon
	Adhesion mediated by autotransporters of Gram-negative bacteria: Structural and functional features [My Copy] Research in Microbiology, Vol. 157, No. 5. (June 2006), pp. 407-416. by Victoria Girard, Michael Mourez posted to autotransporter review by bjorns on 2008-03-18 13:35:32 as
	Protein Secretion in Gram-Negative Bacteria via the Autotransporter Pathway [My Copy] Annual Review of Microbiology, Vol. 61, No. 1. (2007), pp. 89-112. by Nathalie Dautin, Harris D. Bernstein posted to autotransporter by bjorns on 2008-03-18 13:32:27 as

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refs_jme05	84
kaks	24
expression	23
typeiv	19
helicobacter	18
networks	17
alpha	16
review	14
duplications	13
typeiii	13
bartonella	12
genome	12
recombination	12
molev	11
rocha	10
codon	9
essentialgenes	9
strain	9
ecoli	8
egs	7
geneconversion	7
gene_organization	7
rate	7
sino	7
theory	7
yeast	7
erythrocytes	6
phylogeny	6
az	5
jc	5
pseudo	5
repeats	5
autotransporter	4
endosymbiotic	4
my	4
simulation	4
adaptive	3
duplication	3
fast	3
pkpd	3
surface	3
454	2
4sis	2
bovis	2
buchnera	2
diversifying	2
flagella	2
lgt	2
metabolic	2
ochrobactrum	2
sequencing	2
trw	2
typeii	2
bada	1
brpa	1
circadian	1
clinical	1
cog	1
drosophila	1
ftsk	1
fusion	1
gamma	1
gene_content	1
immunesystem	1
lic	1
mito	1
mrna	1
operons	1
opinion	1
preview	1
promoter	1
puf	1
reduction	1
ringoflife	1
salmonella	1
sar11	1
system	1
transporter	1
typev	1

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