tny's library 351 articles Export

	X-ray structure of a two-domain type laccase: A missing link in the evolution of multi-copper proteins [My Copy] FEBS Letters (11 March 2009) by Hirofumi Komori, Kentaro Miyazaki, Yoshiki Higuchi posted to domain_combination enzyme experiment structure subunit by tny on 2009-03-30 11:41:46 as
	Protein Design through Systematic Catalytic Loop Exchange in the (β/α)8 Fold [My Copy] Journal of Molecular Biology, Vol. 387, No. 4. (10 April 2009), pp. 949-964. by Adrián Ochoa-Leyva, Xavier Soberón, Filiberto Sánchez, Martha Argüello, Gabriela Montero-Morán, Gloria Saab-Rincón posted to catalytic_site design enzyme structure by tny on 2009-03-30 07:37:26 as
	PBP Active Site Flexibility as the Key Mechanism for β-Lactam Resistance in Pneumococci [My Copy] Journal of Molecular Biology, Vol. 387, No. 4. (10 April 2009), pp. 899-909. by Carlos Contreras-Martel, Cécile Dahout-Gonzalez, Alexandre D. Martins, Miha Kotnik, Andréa Dessen posted to catalytic_site experiment by tny on 2009-03-30 07:35:56 as
	Gclust: trans-kingdom classification of proteins using automatic individual threshold setting [My Copy] Bioinformatics, Vol. 25, No. 5. (1 March 2009), pp. 599-605. by Naoki Sato posted to domain_combination evolution phylogeny protein by tny on 2009-03-01 06:07:40 as along with 1 person operon
	Structures of the Chromophore Binding Sites in BLUF Domains as Studied by Molecular Dynamics and Quantum Chemical Calculations<sup>†</sup> [My Copy] Photochemistry and Photobiology, Vol. 84, No. 4. (2008), pp. 1003-1010. by Kazuya Obanayama, Hiroaki Kobayashi, Kentaro Fukushima, Minoru Sakurai posted to enzyme plant by tny on 2009-01-10 13:29:00 as
	Neighbor-Joining Revealed [My Copy] Mol Biol Evol, Vol. 23, No. 11. (1 November 2006), pp. 1997-2000. by Olivier Gascuel, Mike Steel posted to phylogeny by tny on 2009-01-08 08:59:08 as along with 4 people vtraag vingron rhyax ArtemPankin
	Surprising complexity of the ancestral apoptosis network [My Copy] Genome Biology, Vol. 8 (24 October 2007), R226. by Christian M. Zmasek, Qing Zhang, Yuzhen Ye, Adam Godzik posted to apoptosis domain_combination network by tny on 2009-01-08 04:36:56 as along with 4 people and 1 group thegoose2 tharris cjeans cmzmasek C. elegans / WormBase
	A class frequency mixture model that adjusts for site-specific amino acid frequencies and improves inference of protein phylogeny. [My Copy] BMC Evolutionary Biology, Vol. 8 (16 December 2008), 331. by Huai-Chun, Andrew J. Roger posted to aminoacid_composition phylogeny protein by tny on 2008-12-22 04:55:42 as along with 2 people and 1 group michaelbarton hdopazo BergmanLab
	Buffering by gene duplicates: an analysis of molecular correlates and evolutionary conservation. [My Copy] BMC genomics, Vol. 9 (16 December 2008), 609. by K. Hannay, E. M. Marcotte, C. Vogel posted to duplication essentiality by tny on 2008-12-22 04:53:02 as along with 9 people michaelbarton gurprit_raunu dquest bpcusack biomcgary sylvainforet natstreet JustinCrocker druvus
	Extended Newick: it is time for a standard representation of phylogenetic networks [My Copy] BMC Bioinformatics, Vol. 9 (15 December 2008), 532. by Gabriel, Gabriel Valiente posted to evolution newick_format phylogenetic_network by tny on 2008-12-22 04:49:39 as along with 4 people nuin jmeppley druvus barriot
	Evolutionary-new centromeres preferentially emerge within gene deserts [My Copy] Genome Biology, Vol. 9 (16 December 2008), R173. by Mariana, Mariano Rocchi posted to chromosome experiment by tny on 2008-12-22 03:37:33 as along with 1 person djkt
	The evolution of domain-content in bacterial genomes [My Copy] Biology Direct, Vol. 3 (11 December 2008), 51. by Nacho Molina, Erik van Nimwegen posted to bacteria domain_combinatioin evolution by tny on 2008-12-22 03:23:15 as along with 1 person druvus
	Selective maintenance of Drosophila tandemly-arranged duplicated genes during evolution [My Copy] Genome Biology, Vol. 9 (16 December 2008), R176. by Carlos, Miguel Manzanares posted to duplication tandem by tny on 2008-12-22 03:18:54 as along with 3 people and 1 group cisevol djkt dandaman cis-regulatory-evolution
	AnEnPi: Identification and annotation of analogous enzymes [My Copy] BMC Bioinformatics, Vol. 9 (17 December 2008), 544. by Thomas, Antonio B. de Miranda posted to analogous database_issue enzyme by tny on 2008-12-22 03:15:49 as along with 1 person idoerg
	GeneChaser: identifying all biological and clinical conditions in which genes of interest are differentially expressed. [My Copy] BMC bioinformatics, Vol. 9, No. 1. (2008) by R. Chen, R. Mallelwar, A. Thosar, S. Venkatasubrahmanyam, A. J. Butte posted to gene_expression by tny on 2008-12-22 03:15:10 as along with 13 people and 2 groups rcr1991 zufar daforerog TRHvidsten jfr ilyashl dswan renatomilani Zephyrus guhjy cgaugain barriot GeeSharpMinor Bioinformatics Roswell Cancer Crosstalk
	Fr-TM-align: a new protein structural alignment method based on fragment alignments and the TM-score [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (12 December 2008), 531. by Shashi Pandit, Jeffrey Skolnick posted to pred by tny on 2008-12-22 03:12:41 as along with 3 people sebk biehl reyez
	PocketMatch: A new algorithm to compare binding sites in protein structures [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008), 543. by Kalidas Yeturu, Nagasuma Chandra posted to ligand_binding prediction by tny on 2008-12-22 03:12:05 as along with 9 people and 1 group cdsouthan nanonan pauldobson sobolevnrm jteyra kshameer reyez higueruelo druvus baker-group
	Classes of complex networks defined by role-to-role connectivity profiles [My Copy] Nat Phys, Vol. 3, No. 1. (January 2007), pp. 63-69. by Roger Guimera, Marta Sales-Pardo, Luis A. Amaral posted to connectivity connectivity_profile entropy_profile network phylogenetic_profile by tny on 2008-11-23 15:03:19 as along with 9 people and 1 group lawraga adampah ocs aalibes okarsligil jaspervoskuilen biehl AbnerCYH Diego_Prada Bioinformatics
	Centroid estimation in discrete high-dimensional spaces with applications in biology [My Copy] Proceedings of the National Academy of Sciences, Vol. 105, No. 9. (4 March 2008), pp. 3209-3214. by Luis E. Carvalho, Charles E. Lawrence posted to biology informatics statisticalkinetics by tny on 2008-11-23 14:08:31 as along with 3 people saket aitter sconlan
	Structure-based activity prediction for an enzyme of unknown function [My Copy] Nature (01 July 2007) by Johannes C. Hermann, Ricardo Marti-Arbona, Alexander A. Fedorov, et al.Elena Fedorov, Steven C. Almo, Brian K. Shoichet, Frank M. Raushel posted to function prediction protein structure by tny on 2008-11-23 13:41:40 as along with 9 people operon ucbcjbm aheilbut tjimenez daevans zwang pkolb kimicc ivke
	The DEAD-box RNA helicase Ded1p affects and accumulates in Saccharomyces cerevisiae P-bodies. [My Copy] Molecular biology of the cell, Vol. 19, No. 3. (March 2008), pp. 984-993. by C. Beckham, A. Hilliker, A. M. Cziko, A. Noueiry, M. Ramaswami, R. Parker posted to multifunctional_protein by tny on 2008-11-17 07:45:02 as
	Support Vector Machines and Kernels for Computational Biology [My Copy] PLoS Comput Biol, Vol. 4, No. 10. (31 October 2008), e1000173. by Asa Ben-Hur, Cheng S. Ong, Sören Sonnenburg, Bernhard Schölkopf, Gunnar Rätsch posted to kernel review svm by tny on 2008-11-03 02:38:19 as along with 32 people and 3 groups guhjy VGreiff tomhebbron ucbcjbm thegoose Zephyrus phoenixzxl winterschlaefer kshameer svozil mmartin jfr MarcoAlvarez sobolevnrm Yanno Scis0000002 srp33 GustavoLacerda nuin rdiaz dakelley rschulz Borelli taguchi kristina bayesian chad_davis mdstobbe giovenko markchen druvus GeeSharpMinor Bioinformatics baker-group VisionLab
	An electrostatic network and long-range regulation of Src kinases [My Copy] Protein Sci, Vol. 17, No. 11. (1 November 2008), pp. 1871-1880. by Elif Ozkirimli, Shalini S. Yadav, Todd W. Miller, Carol B. Post posted to allosteric catalytic_domain kinase reguratory_domain by tny on 2008-10-28 11:30:43 as along with 1 person skoddet
	Complex genomic rearrangements lead to novel primate gene function [My Copy] Genome Research, Vol. 15, No. 3., 343. by Francesca D. Ciccarelli, Christian von Mering, Mikita Suyama, Eoghan D. Harrington, Elisa Izaurralde, Peer Bork posted to domain domain_accretion evolution example rearrangement by tny on 2008-10-27 09:51:21 as
	Recent duplication, domain accretion and the dynamic mutation of the human genome. [My Copy] Trends in genetics : TIG, Vol. 17, No. 11. (November 2001), pp. 661-669. by E. E. Eichler posted to domain domain_combination by tny on 2008-10-27 09:21:20 as along with 1 person bpcusack
	Biogeochemistry: Life before the rise of oxygen [My Copy] Nature, Vol. 455, No. 7216. (23 October 2008), pp. 1051-1052. by Woodward W. Fischer posted to cyanobacteria eukaryote photosynthesis review by tny on 2008-10-23 04:10:43 as
	Protein-folding location can regulate manganese-binding versus copper- or zinc-binding [My Copy] Nature, Vol. 455, No. 7216. (23 October 2008), pp. 1138-1142. by Steve Tottey, Kevin J. Waldron, Susan J. Firbank, et al.Brian Reale, Conrad Bessant, Katsuko Sato, Timothy R. Cheek, Joe Gray, Mark J. Banfield, Christopher Dennison, Nigel J. Robinson posted to folding localization metal_binding by tny on 2008-10-23 04:06:59 as along with 2 people paulschlesinger neils
	Automated Improvement of Domain ANnotations using context analysis of domain arrangements (AIDAN) [My Copy] Bioinformatics, Vol. 23, No. 14. (15 July 2007), pp. 1834-1836. by Francois Beaussart, January Weiner, Erich Bornberg-Bauer posted to annotation domain_combination by tny on 2008-10-22 12:37:16 as along with 3 people january kluck gulkur
	Metabolic innovations towards the human lineage [My Copy] BMC Evolutionary Biology, Vol. 8 (09 September 2008), 247. by Shiri Freilich, Leon Goldovsky, Christos A. Ouzounis, Janet M. Thornton posted to human kegg metabolic_network origin phylogeny reaction by tny on 2008-10-17 05:49:08 as along with 1 person gjuggler
	A compromise required by gene sharing enables survival: Implications for evolution of new enzyme activities. [My Copy] Proceedings of the National Academy of Sciences of the United States of America (29 August 2008) by Sean Yu Y. McLoughlin, Shelley D D. Copley posted to enzyme enzyme_function experiment new_function by tny on 2008-09-16 11:43:28 as along with 1 person bpcusack
	Evolutionary Conservation of Protein Backbone Flexibility [My Copy] Journal of Molecular Evolution, Vol. 63, No. 4. (14 October 2006), pp. 448-457. by Sandra Maguid, Sebastián Fernández-Alberti, Gustavo Parisi, Julián Echave posted to dynamics by tny on 2008-08-27 08:52:05 as along with 4 people and 2 groups gisle barry jlh64 edvin structural_bioinformatics Bioinformatics
	Allostery and cooperativity revisited [My Copy] Protein Sci, Vol. 17, No. 8. (1 August 2008), pp. 1295-1307. by Qiang Cui, Martin Karplus posted to allosteric dynamics review by tny on 2008-08-20 04:29:42 as along with 3 people sdbneuro ruvido agrossfield
	Correspondences between low-energy modes in enzymes: Dynamics-based alignment of enzymatic functional families [My Copy] Protein Sci, Vol. 17, No. 5. (1 May 2008), pp. 918-929. by Andrea Zen, Vincenzo Carnevale, Arthur M. Lesk, Cristian Micheletti posted to alignment dynamics enzyme_dynamics journal_alert by tny on 2008-08-20 03:55:00 as along with 2 people and 1 group skoddet edvin Nielsen group
	Web Services at the European Bioinformatics Institute [My Copy] Nucl. Acids Res., Vol. 35, No. Web Server issue. (18 June 2007), gkm291. by Alberto Labarga, Franck Valentin, Mikael Anderson, Rodrigo Lopez posted to database_issue webservice by tny on 2008-08-18 07:25:02 as along with 12 people jeargle tomjad druvus Cortel daforerog moborg dullhunk sujaikumar sgoetz niallhaslam sim82 alanrw
	Different evolutionary histories of kringle and protease domains in serine proteases: a typical example of domain evolution. [My Copy] Journal of molecular evolution, Vol. 40, No. 3. (March 1995), pp. 331-336. by K. Ikeo, K. Takahashi, T. Gojobori posted to domain evolution protease by tny on 2008-08-18 06:53:42 as
	Prediction of novel archaeal enzymes from sequence-derived features. [My Copy] Protein Sci, Vol. 11, No. 12. (December 2002), pp. 2894-2898. by L. J. Jensen, M. Skovgaard, S. Brunak posted to archaea enzyme_function by tny on 2008-08-08 09:14:24 as along with 1 person larsjuhljensen
	FeatureMap3D--a tool to map protein features and sequence conservation onto homologous structures in the PDB. [My Copy] Nucleic acids research, Vol. 34, No. Web Server issue. (1 July 2006) by R. Wernersson, K. Rapacki, H. H. Staerfeldt, P. W. Sackett, A. Mølgaard posted to struture tool viewer by tny on 2008-08-08 09:13:26 as
	The Protein Identifier Cross-Reference (PICR) service: reconciling protein identifiers across multiple source databases [My Copy] BMC Bioinformatics, Vol. 8, No. 1. (2007) by Richard Cote, Philip Jones, Lennart Martens, et al.Samuel Kerrien, Florian Reisinger, Quan Lin, Rasko Leinonen, Rolf Apweiler, Henning Hermjakob posted to database proteinidmapping by tny on 2008-08-08 09:05:41 as along with 11 people robert druvus whoare chad_davis guhjy dullhunk niallhaslam antonkratz barriot dansullivanblk kynn
	Metal ions in biological catalysis: from enzyme databases to general principles. [My Copy] Journal of biological inorganic chemistry : JBIC : a publication of the Society of Biological Inorganic Chemistry (5 July 2008) by Claudia Andreini, Ivano Bertini, Gabriele Cavallaro, Gemma L. Holliday, Janet M. Thornton posted to catalysis enzyme metal_binding by tny on 2008-08-08 06:22:51 as along with 2 people ucbcjbm gemmalholliday
	Escape from adaptive conflict after duplication in an anthocyanin pathway gene [My Copy] Nature (25 June 2008) by David, Mark D. Rausher posted to duplication enzyme evolution by tny on 2008-08-08 05:59:25 as along with 4 people and 1 group gjuggler stajich bpcusack djkt Mycology
	CORRIE: enzyme sequence annotation with confidence estimates [My Copy] BMC Bioinformatics, Vol. 8, No. Suppl 4. (2007) by Benjamin Audit, Emmanuel Levy, Wally Gilks, Leon Goldovsky, Christos Ouzounis posted to annotation ecnumber enzyme_function prediction by tny on 2008-07-29 05:49:10 as along with 1 person shung
	Differences in evolutionary pressure acting within highly conserved ortholog groups [My Copy] BMC Evolutionary Biology, Vol. 8 (17 July 2008), 208. by Teresa M. Przytycka, Raja Jothi, L. Aravind, David J. Lipman posted to entropy_profile evolutionary_rate ortholog by tny on 2008-07-24 10:17:12 as along with 1 person operon
	Phylogenetic analyses suggest multiple changes of substrate specificity within the Glycosyl hydrolase 20 family [My Copy] BMC Evolutionary Biology, Vol. 8 (22 July 2008), 214. by Jari Intra, Giulio Pavesi, David S. Horner posted to enzyme_function evolution by tny on 2008-07-24 10:09:00 as
	LIGPLOT: a program to generate schematic diagrams of protein-ligand interactions [My Copy] Protein Eng., Vol. 8, No. 2. (1 February 1995), pp. 127-134. by Andrew C. Wallace, Roman A. Laskowski, Janet M. Thornton posted to database_issue ligand_binding by tny on 2008-07-22 02:47:06 as
	Evolution of the phospho-tyrosine signaling machinery in premetazoan lineages — PNAS [My Copy] posted to domain_combination enzyme_superfamily evolution tyrosinekinase by tny on 2008-07-16 06:34:13 as
	Golgi α-mannosidase II cleaves two sugars sequentially in the same catalytic site [My Copy] e Proceedings of the National Academy of Sciences (2008) by Niket Shah, Douglas A. Kuntz, David R. Rose posted to catalytic_site enzyme_structure multifunctional_enzyme sugar_binding by tny on 2008-07-16 06:21:33 as
	The new higher level classification of eukaryotes with emphasis on the taxonomy of protists. [My Copy] J Eukaryot Microbiol, Vol. 52, No. 5. (t 2005), pp. 399-451. by S. M. Adl, A. G. Simpson, M. A. Farmer, et al.R. A. Andersen, O. R. Anderson, J. R. Barta, S. S. Bowser, G. Brugerolle, R. A. Fensome, S. Fredericq, T. Y. James, S. Karpov, P. Kugrens, J. Krug, C. E. Lane, L. A. Lewis, J. Lodge, D. H. Lynn, D. G. Mann, R. M. McCourt, L. Mendoza, O. Moestrup, S. E. Mozley-Standridge, T. A. Nerad, C. A. Shearer, A. V. Smirnov, F. W. Spiegel, M. F. Taylor posted to phylogeny by tny on 2008-07-11 10:01:58 as along with 4 people and 1 group jmeppley jdelcampo Fabnot cmzmasek Microbial-Ecology
	Of clades and clans: terms for phylogenetic relationships in unrooted trees [My Copy] Trends in Ecology & Evolution, Vol. 22, No. 3. (March 2007), pp. 114-115. by Mark Wilkinson, James O. Mcinerney, Robert P. Hirt, Peter G. Foster, Martin T. Embley posted to phylogeny review by tny on 2008-07-11 03:26:51 as along with 4 people and 2 groups dchughes echinotrix agg19954 TaqSys G4ID Genetics-of-Gambling
	A short history of the thermodynamics of enzyme-catalyzed reactions. [My Copy] J Biol Chem, Vol. 279, No. 27. (2 July 2004), pp. 27831-27836. by R. A. Alberty posted to enzyme review thermodynamics by tny on 2008-06-25 04:45:37 as along with 2 people proportional robert
	Tryptophan synthase: A multienzyme complex with an intramolecular tunnel [My Copy] The Chemical Record, Vol. 1, No. 2. (2001), pp. 140-151. by Edith W. Miles posted to multifunctional_enzyme by tny on 2008-06-23 09:32:59 as

Note: You may cite this page as: http://www.citeulike.org/user/tny

Result page: 1 2 3 4 5 6 7 8 Next

enzyme	113
evolution	59
review	46
protein	42
domain	41
network	38
metabolism	25
domain_combination	20
experiment	18
example	17
multifunctional_enzyme	17
database_issue	16
comparative	14
pathway	14
structure	14
catalytic	13
catalytic_site	12
metal_binding	12
phylogeny	12
catalysis	9
prediction	9
bacteria	8
classification	8
duplication	8
enzyme_function	8
gene_fusion	8
domain_interaction	6
dynamics	6
alignment	5
enzyme_structure	5
oligomer	5
p-loop	5
tree	5
domain_graph	4
enzyme_and_transcription_factor	4
enzyme_superfamily	4
interaction	4
kinase	4
metabolic	4
report_suppl	4
annotation	3
catalytic_mechanism	3
database	3
diversity	3
eukaryote	3
homolog-detection	3
metabolic_network	3
metabolome	3
metaloprotein	3
plant	3
transcription_factor	3
unread	3
0_no_tag	2
12dec05	2
aars	2
allosteric	2
aminoacid_composition	2
archaea	2
cambrian	2
compound	2
connectivity	2
design	2
domain_swapping	2
drug	2
enolase	2
entropy_profile	2
function	2
gene_expression	2
human	2
intron	2
kegg	2
ligand_binding	2
mashup	2
moonlight_enzyme	2
moonlighting_enzyme	2
ortholog	2
pep	2
phylogenetic_profile	2
reaction	2
scale_free	2
shikimate	2
structural_genomics	2
subunit	2
system_biology	2
template	2
tool	2
tree_comparison	2
13jan06	1
14-3-3	1
acc	1
aggregation	1
aldorase	1
alternative_splicing	1
amylase	1
analogous	1
apoptosis	1
assignment	1
benchmark	1
biocheminformatics	1
biology	1
catalytic_domain	1
cath	1
cbs_domain	1
chromosome	1
cis-regulatory	1
column	1
complex	1
connectivity_profile	1
convergent	1
cyanobacteria	1
d361	1
disorder	1
domain_accretion	1
domain_characterization	1
domain_combinatioin	1
domain_geometry	1
domain_insertion	1
drug_discovery	1
ec	1
ecnumber	1
electrostatic	1
engeneering	1
enzyme_and_cell_cycle	1
enzyme_dynamics	1
enzyme_recruitment	1
essentiality	1
euk	1
evolutional_context	1
evolutionary_rate	1
exon	1
family	1
fas_yeast	1
fly	1
folding	1
gene_fission	1
gene_reguratory	1
genetics	1
google	1
had	1
hgt	1
hierarchy	1
his_metabolism	1
horizontal_gene_transfer	1
hydrogen_bond	1
icl	1
influenza	1
informatics	1
interactome	1
journal_alert	1
journal_club	1
kernel	1
localization	1
luca	1
membrane	1
metabolic_pathway	1
metabolite	1
metabolites	1
metalloenzyme	1
minimal_gene	1
minimalgenome	1
modeling	1
molecular_tunnel	1
ms	1
mule	1
multifunctional_protein	1
multi_scale	1
network_motif	1
new_function	1
newick_format	1
nucler_localize	1
orfan	1
origin	1
p450	1
pca	1
pdz	1
periodic_table	1
peroxisome	1
photosynthesis	1
phylogenetic_network	1
pka	1
plasticity	1
pof	1
post_translational_modification	1
power_low	1
ppi	1
pred	1
program	1
promiscuity	1
protease	1
proteinidmapping	1
protein_knot	1
raft	1
rearrangement	1
reguratory_domain	1
repeat	1
schiff-base	1
scopec	1
small_world	1
statisticalkinetics	1
statistics	1
structure1opk	1
struture	1
substitution_rate	1
substrate-assisted	1
sugar_binding	1
sumo	1
supra-domain	1
svm	1
swiss_prot	1
tamiflu	1
tandem	1
taxonomy	1
test	1
thermodynamics	1
transposon	1
trna	1
trscrp_reg	1
tyrosinekinase	1
viewer	1
webservice	1
ww	1
yea	1
yeast	1

tny's library 351 articles Export

tny's tags