walshtp's library 111 articles Export

	Sector and Sphere: the design and implementation of a high-performance data cloud [My Copy] Physical and Engineering Sciences, Vol. 367, No. 1897. (28 June 2009), pp. 2429-2445. by Yunhong Gu, Robert L. Grossman posted to sphere sector hpc cloudcomputing cloud by walshtp on 2009-11-13 09:39:02 as along with 2 people saymen morita_souhei
	PDBe: Protein Data Bank in Europe [My Copy] Nucl. Acids Res. (25 October 2009), gkp916. by S. Velankar, C. Best, B. Beuth, et al.C. H. Boutselakis, N. Cobley, A. W. Sousa Da Silva, D. Dimitropoulos, A. Golovin, M. Hirshberg, M. John, E. B. Krissinel, R. Newman, T. Oldfield, A. Pajon, C. J. Penkett, J. Pineda-Castillo, G. Sahni, S. Sen, R. Slowley, A. Suarez-Uruena, J. Swaminathan, G. van Ginkel, W. F. Vranken, K. Henrick, G. J. Kleywegt posted to wwpdb protein_structure pdbe pdb ebi database by walshtp on 2009-11-04 15:26:46 as along with 1 person and 1 group dullhunk Journal picks
	Striped Smith-Waterman speeds database searches six times over other SIMD implementations [My Copy] Bioinformatics, Vol. 23, No. 2. (15 January 2007), pp. 156-161. by Michael Farrar posted to smith_waterman simd by walshtp on 2009-11-03 19:48:17 as along with 2 people nedwards cmzmasek
	CloudBurst: highly sensitive read mapping with MapReduce [My Copy] Bioinformatics, Vol. 25, No. 11. (1 June 2009), pp. 1363-1369. by Michael C. Schatz posted to nextgen mapreduce hadoop by walshtp on 2009-11-02 21:38:05 as along with 33 people and 2 groups joshdsullivan cthachuk hzoltan jfr idonaldson orzenil heliopais dakelley bozdagd agbiotec jandot guhjy n00c cymacs semrich nuin operon AlexBateman fgibson rschulz dswan mitko djkt humburg jmeppley coela vagoskar svenrahmann natstreet brianb Neeperando druvus neils KCL & UCL Bioinformatics Bioinformatics
	Userscripts for the Life Sciences [My Copy] BMC Bioinformatics, Vol. 8, No. 1. (2007), 487. by Egon Willighagen, Noel O'Boyle, Harini Gopalakrishnan, et al.Dazhi Jiao, Rajarshi Guha, Christoph Steinbeck, David Wild posted to no-tag by walshtp on 2009-10-22 14:03:09 as along with 20 people and 1 group inthemiddle guillermosanchez3 kshameer Yanno daforerog csjonline egonw druvus Zephyrus guhjy dullhunk sleepingcell neils laughcry Gaetan sci91078 mircea craigecht mattions wisdom_love Roswell Cancer Crosstalk
	Breaking the hierarchy - a new cluster selection mechanism for hierarchical clustering methods [My Copy] Algorithms for Molecular Biology, Vol. 4, No. 1. (2009), 12. by Laszlo Zahoranszky, Gyula Katona, Peter Hari, Andras M. Csizmadia, Katharina Zweig, Gergely Z. Kohalmi posted to clustering algorithm by walshtp on 2009-10-19 21:11:22 as along with 1 person reyez
	Algorithm::Evolutionary, a flexible Perl module for evolutionary computation [My Copy] Soft Computing - A Fusion of Foundations, Methodologies and Applications by Juan Merelo Guervós, Pedro Castillo, Enrique Alba posted to programming perl evolutionary_computation by walshtp on 2009-10-05 12:16:17 as
	Alignment Uncertainty and Genomic Analysis [My Copy] Science, Vol. 319, No. 5862. (25 January 2008), pp. 473-476. by Karen M. Wong, Marc A. Suchard, John P. Huelsenbeck posted to sequence_alignment genomics genomic_data alignment_methods by walshtp on 2009-09-29 14:16:02 as along with 33 people and 2 groups Jporci operon darian ptrobajo friendpine skembel druvus treangen bpb aprasad dayjm pradiptaray dpollard tny djkt cjeans zwang lisa1 cactus biomcgary lilou dandaman gjuggler renatomilani mclarenv youdon bpcusack guhjy jdelcampo adacier gracio timflutre jfr EisenLab microbiology_nijmegen
	Global Analysis of Cdk1 Substrate Phosphorylation Sites Provides Insights into Evolution [My Copy] Science, Vol. 325, No. 5948. (25 September 2009), pp. 1682-1686. by Liam J. Holt, Brian B. Tuch, Judit Villen, Alexander D. Johnson, Steven P. Gygi, David O. Morgan posted to substrate_phosphorylation science protein_protein_interactions mass_spectrometry group_talks by walshtp on 2009-09-29 14:04:40 as along with 5 people nzm brianb djkt jjray neils
	Fast embedding methods for clustering tens of thousands of sequences [My Copy] Computational Biology and Chemistry, Vol. 32, No. 4. (August 2008), pp. 282-286. by Gordon Blackshields, Mark Larkin, Iain M. Wallace, Andreas Wilm, Desmond G. Higgins posted to sequence clustering by walshtp on 2009-09-26 14:28:16 as along with 1 person and 2 groups barry Bioinformatics structural_bioinformatics
	Upcoming challenges for multiple sequence alignment methods in the high-throughput era [My Copy] Bioinformatics, Vol. 25, No. 19. (1 October 2009), pp. 2455-2465. by Carsten Kemena, Cedric Notredame posted to sequence ngs multiple hts alignment by walshtp on 2009-09-26 13:23:48 as along with 10 people and 2 groups fstrozzi manduca djkt rdiaz sjcockell torfinnnome nuin natstreet druvus ollieredfernwork Journal picks Orengo Group Journal Picks
	Efficient SCOP-fold classification and retrieval using index-based protein substructure alignments [My Copy] Bioinformatics, Vol. 25, No. 19. (1 October 2009), pp. 2559-2565. by Pin-Hao Chi, Bin Pang, Dmitry Korkin, Chi-Ren Shyu posted to structure scop protein alignment by walshtp on 2009-09-26 13:20:56 as along with 2 people zwang robfsouza
	ShortRead: a bioconductor package for input, quality assessment and exploration of high-throughput sequence data. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 19. (1 October 2009), pp. 2607-2608. by Martin Morgan, Simon Anders, Michael Lawrence, Patrick Aboyoun, Hervé Pagès, Robert Gentleman posted to r ngs nextgen bioconductor by walshtp on 2009-09-26 13:19:31 as along with 13 people and 1 group darian jforment fstrozzi rschulz djkt jmeppley dswan torfinnnome jamesmorris joaocarrico natstreet n00c druvus Bioinformatics Core Service
	Maximum likelihood genome assembly. [My Copy] Journal of computational biology : a journal of computational molecular cell biology, Vol. 16, No. 8. (August 2009), pp. 1101-1116. by Paul Medvedev, Michael Brudno posted to sequencing_technologies sequencing nextgen genomics by walshtp on 2009-09-21 09:33:13 as along with 7 people dakelley nuin djkt n00c natstreet druvus operon
	Probing the “Dark Matter” of Protein Fold Space [My Copy] Structure, Vol. 17, No. 9. (09 September 2009), pp. 1244-1252. by William R. Taylor, Vijayalakshmi Chelliah, Siv M. Hollup, James T. MacDonald, Inge Jonassen posted to protein_structure protein_fold_space by walshtp on 2009-09-17 07:55:09 as
	Cloud computing [My Copy] Bioinformatics, Vol. 25, No. 12. (15 June 2009), 1475. by Alex Bateman, Matt Wood posted to cloudcomputing by walshtp on 2009-09-16 21:50:32 as along with 23 people and 4 groups jfr rdiaz fgibson Jingbo aan pekrau tnhh niallhaslam bertelsen apaydin barry kiekyon reyez sobolevnrm cymacs druvus acesforum thegoose mikel_egana dullhunk dswan jmeppley bmajoros structural_bioinformatics McCammon baker-group Bioinformatics
	Fast mapping of short sequences with mismatches, insertions and deletions using index structures. [My Copy] PLoS computational biology, Vol. 5, No. 9. (11 September 2009), e1000502. by Steve Hoffmann, Christian Otto, Stefan Kurtz, et al.Cynthia M. Sharma, Philipp Khaitovich, Jörg Vogel, Peter F. Stadler, Jörg Hackermüller posted to sequencing nextgen hts genomics by walshtp on 2009-09-16 21:06:28 as along with 19 people and 4 groups cthachuk hzoltan darian nuin fenghezi behindtherabbit jandot torfinnnome stubrown dswan polivares orzenil natstreet djkt jmcq n00c heliopais ppgardne druvus Bioinformatics BergmanLab iSEEM Journal picks
	TagDust--a program to eliminate artifacts from next generation sequencing data [My Copy] Bioinformatics, Vol. 25, No. 21. (1 November 2009), pp. 2839-2840. by Timo Lassmann, Yoshihide Hayashizaki, Carsten O. Daub posted to sequencing_technologies nextgen by walshtp on 2009-09-16 07:29:25 as along with 19 people and 1 group hzoltan chvlyl operon kshameer djkt rtogawa seb1 idonaldson nuin debasis jgill GeeSharpMinor sotacam torfinnnome heliopais jandot n00c rschulz druvus Journal picks
	Pvclust: an R package for assessing the uncertainty in hierarchical clustering [My Copy] Bioinformatics, Vol. 22, No. 12. (15 June 2006), pp. 1540-1542. by Ryota Suzuki, Hidetoshi Shimodaira posted to r pvclust by walshtp on 2009-09-10 09:43:26 as along with 10 people ltitodem druvus jfr maryee wnpx josepe ghattem elfar quianominorleo briordan
	XMPP for cloud computing in bioinformatics supporting discovery and invocation of asynchronous web services [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 279. by Johannes Wagener, Ola Spjuth, Egon Willighagen, Jarl Wikberg posted to xmpp cloud bioinformaitcs by walshtp on 2009-09-09 16:11:05 as along with 11 people and 1 group operon dswan brianb vagoskar CameronNeylon daforerog mchelen barriot nuin dullhunk druvus Bioinformatics
	A Quick Guide to Teaching R Programming to Computational Biology Students [My Copy] PLoS Comput Biol, Vol. 5, No. 8. (28 August 2009), e1000482. by Stephen J. Eglen posted to r programming bioinformatics by walshtp on 2009-09-01 15:44:46 as along with 61 people and 4 groups kaliczp maren sobolevnrm ltitodem zchen75 artaban421 natstreet jasonn tomhebbron psique Stew eshirdel guhjy polivares ajw fishtank diamantis fastjoe23 kshameer daveGerrard hrogers JoeBanks cisevol srijit hwright Ayest VGreiff welliegirl asadrahman rdiaz ptrobajo heliopais coffeerv Vincent_Rouilly marekrud tnhh barry ansobol Zephyrus bertelsen fgibson pkonings Borelli klauso dlizcano dswan skembel djkt jclau lwaldron phoenixzxl timhubbard AJCann thegoose dullhunk brianb neils silberbauer daforerog ppgardne druvus Bioinformatics - CRUK BergmanLab eLearning in Leicester Journal picks
	R/parallel - speeding up bioinformatics analysis with R [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (22 September 2008), 390. by Gonzalo Vera, Ritsert Jansen, Remo Suppi posted to rparallel r programming by walshtp on 2009-08-21 12:08:47 as along with 26 people and 1 group Zephyrus daveGerrard sotacam cassj dposada jfr Yanno siebert operon talponer guhjy dakelley chad_davis ptrobajo pengchy shikin robertlischke chrisamiller cisevol druvus renatomilani rdiaz nuin GeeSharpMinor neils jandot BergmanLab
	p3d--Python module for structural bioinformatics. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (2009), 258. by Christian Fufezan, Michael Specht posted to structural python programming bioinformatics by walshtp on 2009-08-21 12:06:19 as along with 3 people and 1 group operon nuin nickolay Journal picks
	Low Cost, Scalable Proteomics Data Analysis Using Amazon’s Cloud Computing Services and Open Source Search Algorithms [My Copy] Journal of Proteome Research, Vol. 8, No. 6. (5 June 2009), pp. 3148-3153. by Brian D. Halligan, Joey F. Geiger, Andrew K. Vallejos, Andrew S. Greene, Simon N. Twigger posted to cloud hpc proteomics by walshtp on 2009-08-01 11:02:33 as along with 5 people Scis0000002 nedwards sjcockell neils brianb
	Comparative Analysis of Protein Structure Alignments [My Copy] BMC Structural Biology, Vol. 7 (Jul 2007), pp. 50-50. by Gabriele Mayr, Francisco Domingues, Peter Lackner posted to alignment file-import-09-07-30 protein structure by walshtp on 2009-07-30 09:32:16 as
	An evaluation of automated homology modelling methods at low target template sequence similarity -- Dalton and Jackson 23 (15): 1901 -- Bioinformatics [My Copy] posted to comparative_modelling file-import-09-07-30 by walshtp on 2009-07-30 09:32:16 as
	StrBioLib: a Java library for development of custom computational structural biology applications -- Chandonia 23 (15): 2018 -- Bioinformatics [My Copy] posted to file-import-09-07-30 structural_biology by walshtp on 2009-07-30 09:32:16 as
	Structural footprinting in protein structure comparison: The impact of structural fragments [My Copy] BMC Structural Biology, Vol. 7 (Aug 2007), pp. 53-53. by Elena Zotenko, Rezarta Dogan, W. Wilbur, Dianne O'Leary, Teresa Przytycka posted to alignment file-import-09-07-30 by walshtp on 2009-07-30 09:32:16 as
	Novel leverage of structural genomics [My Copy] Nat Biotech, Vol. 25 (Aug 2007), pp. 849-851. by Jinfeng Liu, Gaetano Montelione, Burkhard Rost posted to file-import-09-07-30 rost by walshtp on 2009-07-30 09:32:15 as
	SISYPHUS--structural alignments for proteins with non-trivial relationships -- Andreeva et al. 35 (Supplement 1): D253 -- Nucleic Acids Research [My Copy] posted to file-import-09-07-30 sisyphus by walshtp on 2009-07-30 09:32:15 as
	SCOP: a structural classification of proteins database for the investigation of sequences and structures. [My Copy] Journal of molecular biology., Vol. 247 (Apr 1995), pp. 536-540. by A. Murzin, S. Brenner, T. Hubbard, C. Chothia posted to file-import-09-07-30 scop by walshtp on 2009-07-30 09:32:15 as
	The ASTRAL compendium for protein structure and sequence analysis -- Brenner et al. 28 (1): 254 -- Nucleic Acids Research [My Copy] posted to classification file-import-09-07-30 protein structure by walshtp on 2009-07-30 09:32:15 as
	Realism about PDB [My Copy] Nat Biotech, Vol. 25 (Aug 2007), pp. 845-846. by Helen Berman, Kim Henrick, Haruki Nakamura, John Markley, Philip Bourne, John Westbrook posted to file-import-09-07-30 pdb by walshtp on 2009-07-30 09:32:15 as
	Overhauling the PDB [My Copy] Nat Biotech, Vol. 25 (Apr 2007), pp. 437-442. by Amanda Schierz, Larisa Soldatova, Ross King posted to file-import-09-07-30 pdb by walshtp on 2009-07-30 09:32:15 as
	ProtBuD: a database of biological unit structures of protein families and superfamilies -- Xu et al. 22 (23): 2876 -- Bioinformatics [My Copy] posted to classification file-import-09-07-30 protein structure by walshtp on 2009-07-30 09:32:15 as
	Rapid detection of similarity in protein structure and function through contact metric distances -- Lisewski and Lichtarge 34 (22): e152 -- Nucleic Acids Research [My Copy] posted to comparison file-import-09-07-30 protein structure by walshtp on 2009-07-30 09:32:15 as
	Automatic classification of protein structure by using Gauss integrals [My Copy] Proceedings of the National Academy of Sciences, Vol. 100 (Jan 2003), pp. 119-124. by Peter Rogen, Boris Fain posted to comparison file-import-09-07-30 protein structure by walshtp on 2009-07-30 09:32:15 as
	Accuracy of structure-based sequence alignments of automatic methods [My Copy] posted to alignment file-import-09-07-30 protein structure by walshtp on 2009-07-30 09:32:15 as
	Methods of remote homology detection can be combined to increase coverage by 10% in the midnight zone [My Copy] posted to comparison file-import-09-07-30 by walshtp on 2009-07-30 09:32:15 as
	Twilight zone of protein sequence alignments. [My Copy] Protein engineering, Vol. 12 (Feb 1999), pp. 85-94. by B. Rost posted to alignment file-import-09-07-30 by walshtp on 2009-07-30 09:32:15 as
	ClustalW and ClustalX version 2.0 [My Copy] posted to alignment file-import-09-07-30 sequence by walshtp on 2009-07-30 09:32:14 as
	BioMed Central \| Abstract \| 1471-2105-9-74 \| Towards an automatic classification of protein structural domains based on structural similarity [My Copy] (Feb 2008) posted to file-import-09-07-30 sheba by walshtp on 2009-07-30 09:32:14 as
	ROC and confusion analysis of structure comparison methods identify the main causes of divergence from manual protein classification [My Copy] BMC bioinformatics, Vol. 7 (xx 2006) by Vichetra Sam, Chin H. Tai, Jean Garnier, Jean F. Gibrat, Byungkook Lee, Peter J. Munson posted to alignment file-import-09-07-30 protein structural by walshtp on 2009-07-30 09:32:14 as
	AutoPSI: a database for automatic structural classification of protein sequences and structures. [My Copy] Nucleic acids research, Vol. 36 (Jan 2008), pp. D398-401. by Fabian Birzele, Jan E. Gewehr, Ralf Zimmer posted to file-import-09-07-30 vorolign by walshtp on 2009-07-30 09:32:14 as
	A comparison of SCOP and CATH with respect to domain-domain interactions. [My Copy] Proteins, Vol. 70 (Jan 2008), pp. 54-62. by Emily R. Jefferson, Thomas P. Walsh, Geoffrey J. Barton posted to cath file-import-09-07-30 by walshtp on 2009-07-30 09:32:14 as
	Prediction of protein structure from ideal forms [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 70 (xx 2008), pp. 1610-1619. by William R. Taylor, Gail J. Bartlett, Vijayalakshmi Chelliah, et al.Daniel Klose, Kuang Lin, Tom Sheldon, Inge Jonassen posted to file-import-09-07-30 prediction by walshtp on 2009-07-30 09:32:14 as
	Structural search and retrieval using a tableau representation of protein folding patterns [My Copy] Bioinformatics, Vol. 24 (Jan 2008) by Arun S. Konagurthu, Peter J. Stuckey, Arthur M. Lesk posted to comparison file-import-09-07-30 protein structure by walshtp on 2009-07-30 09:32:13 as
	SCANPS: a web server for iterative protein sequence database searching by dynamic programing, with display in a hierarchical SCOP browser [My Copy] Nucleic Acids Research (May 2008) by Thomas Walsh, Caleb Webber, Stephen Searle, Shane Sturrock, Geoffrey Barton posted to file-import-09-07-30 protein search sequence by walshtp on 2009-07-30 09:32:13 as
	SNAPPI-DB: a database and API of Structures, iNterfaces and Alignments for Protein-Protein Interactions [My Copy] Nucleic acids research, Vol. 35 (Jan 2007), pp. D580-9. by Emily R. Jefferson, Thomas P. Walsh, Timothy J. Roberts, Geoffrey J. Barton posted to file-import-09-07-30 snappi by walshtp on 2009-07-30 09:32:13 as
	Biological Units and their Effect upon the Properties and Prediction of Protein–Protein Interactions [My Copy] Journal of Molecular Biology, Vol. 364 (xx 2006) posted to file-import-09-07-30 interactions protein-protein by walshtp on 2009-07-30 09:32:13 as

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

Result page: 1 2 3 Next

file-import-09-07-30	84
protein	35
structure	30
alignment	22
classification	7
comparison	7
structural	7
bioinformatics	6
pdb	6
sequence	6
cloud	5
nextgen	5
programming	5
r	4
genomics	3
hpc	3
scop	3
cloudcomputing	2
clustering	2
computing	2
dialign	2
gjb	2
hts	2
msa	2
ngs	2
oxbench	2
prediction	2
protein_structure	2
search	2
sequencing	2
sequencing_technologies	2
20	1
3dcoffee	1
algorithm	1
alignment_methods	1
balibase	1
benchmark	1
bioconductor	1
bioinformaitcs	1
cath	1
comparative_modelling	1
cuda	1
database	1
dialign-t	1
dialign-tx	1
ebi	1
evolution	1
evolutionary_computation	1
gdh	1
genomic_data	1
gpu	1
group_talks	1
hadoop	1
interactions	1
malecon	1
mammoth-mult	1
mapreduce	1
mass	1
mass_spectrometry	1
microblogging	1
multiple	1
mumsa	1
networks	1
pdbe	1
pdbml	1
perl	1
protein_fold_space	1
protein-protein	1
protein_protein_interactions	1
proteomics	1
pvclust	1
python	1
read	1
rgg	1
rost	1
rparallel	1
science	1
sector	1
seqmap	1
sequence_alignment	1
sheba	1
short	1
simd	1
sisyphus	1
smith_waterman	1
snappi	1
spec	1
sphere	1
structural_biology	1
substrate_phosphorylation	1
tcoffee	1
testing	1
vorolign	1
web	1
wwpdb	1
xml	1
xmpp	1

walshtp's library 111 articles Export

walshtp's tags