neils's prediction [113 articles] Export

Recent papers added to neils's library classified by the tag prediction. You can also see everyone's prediction.

	Identification of genes associated with multiple cancers via integrative analysis [My Copy] BMC Genomics, Vol. 10, No. 1. (2009), 535. by Shuangge Ma, Jian Huang, Meena Moran posted to prediction microarray integration genetics data cancer by neils on 2009-11-17 22:22:30 as
	Identification of substrates for Ser/Thr kinases using residue based statistical pair potentials [My Copy] Bioinformatics (12 November 2009), btp633. by Narendra Kumar, Debasisa Mohanty posted to substrate statistics protein-serine-threonine prediction potential kinase energy by neils on 2009-11-14 00:51:39 as along with 1 person kshameer
	Prediction of hot spot residues at protein-protein interfaces by combining machine learning and energy-based methods [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (30 October 2009), 365. by Stefano Lise, Cedric Archambeau, Massimiliano Pontil, David Jones posted to protein-protein prediction machine-learning interface interaction energy by neils on 2009-11-02 04:17:49 as along with 6 people and 1 group sillitoe apaydin kshameer zwang phoenixzxl higueruelo Orengo Group Journal Picks
	Predictive rule inference for epistatic interaction detection in genome-wide association studies [My Copy] Bioinformatics (30 October 2009), btp622. by Xiang Wan, Can Yang, Qiang Yang, Hong Xue, Nelson L. S. Tang, Weichuan Yu posted to snp prediction interaction gwa epistasis by neils on 2009-11-02 04:16:37 as
	LIBRUS: Combined Machine Learning and Homology Information for Sequence-based Ligand-Binding Residue Prediction [My Copy] Bioinformatics (28 September 2009), btp561. by Chris Kauffman, George Karypis posted to sequence prediction machine-learning ligand homology binding by neils on 2009-09-30 00:52:38 as
	Conserved Expression Patterns Predict microRNA Targets [My Copy] PLoS Comput Biol, Vol. 5, No. 9. (25 September 2009), e1000513. by William Ritchie, Megha Rajasekhar, Stephane Flamant, John E. J. Rasko posted to target prediction mirna expression conservation by neils on 2009-09-28 00:11:18 as along with 11 people and 1 group jperkins heliopais gdb samgj ealloza toni_marco ptrobajo al2na TRHvidsten djkt cisevol microRNA
	Predicting protein-protein binding sites in membrane proteins. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (2009), 312. by Andrew J. Bordner posted to random-forest protein-protein prediction membrane interaction by neils on 2009-09-25 00:17:27 as along with 4 people and 1 group sillitoe hryk niallhaslam reyez Orengo Group Journal Picks
	NN-align. An artificial neural network-based alignment algorithm for MHC class II peptide binding prediction. [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 296. by Morten Nielsen, Ole Lund posted to prediction peptide neural-network mhc class-ii by neils on 2009-09-21 00:42:23 as
	Identification, analysis, and prediction of protein ubiquitination sites [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2009), NA. by Predrag Radivojac, Vladimir Vacic, Chad Haynes, et al.Ross R. Cocklin, Amrita Mohan, Joshua W. Heyen, Mark G. Goebl, Lilia M. Iakoucheva posted to ubiquitin random-forest prediction post-translational modification by neils on 2009-09-02 00:23:20 as
	FLORA: A Novel Method to Predict Protein Function from Structure in Diverse Superfamilies [My Copy] PLoS Comput Biol, Vol. 5, No. 8. (28 August 2009), e1000485. by Oliver C. Redfern, Benoît H. Dessailly, Timothy J. Dallman, Ian Sillitoe, Christine A. Orengo posted to superfamily structure protein prediction function by neils on 2009-08-30 14:44:25 as along with 3 people and 1 group CorinYeats kiekyon TRHvidsten Orengo Group Journal Picks
	Structure-based substrate screening for an enzyme [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 257. by Tao Xu, Lujia Zhang, Xuedong Wang, Dongzhi Wei, Tianbi Li posted to substrate structure screening prediction enzymology docking by neils on 2009-08-21 03:30:09 as
	The PickPocket method for predicting binding specificities for receptors based on receptor pocket similarities: application to MHC-peptide binding [My Copy] Bioinformatics, Vol. 25, No. 10. (15 May 2009), pp. 1293-1299. by Hao Zhang, Ole Lund, Morten Nielsen posted to binding mhc peptide prediction specificity by neils on 2009-07-12 13:19:59 as along with 4 people niallhaslam beapen reyez carlosjavierna
	Predicting protein-protein interactions in Arabidopsis thaliana through integration of orthology, gene ontology and co-expression. [My Copy] BMC Genomics, Vol. 10, No. 1. (2009), 288. by Stefanie De Bodt, Sebastian Proost, Klaas Vandepoele, Pierre Rouze, Yves Van de Peer posted to arabidopsis data integration interaction plant prediction protein-protein by neils on 2009-06-30 00:12:25 as along with 2 people kiekyon barriot
	Orphelia: predicting genes in metagenomic sequencing reads [My Copy] Nucl. Acids Res., Vol. 37, No. suppl_2. (1 July 2009), pp. W101-105. by Katharina J. Hoff, Thomas Lingner, Peter Meinicke, Maike Tech posted to gene metagenomics prediction sequencing software by neils on 2009-05-10 23:48:30 as along with 4 people mlangill sharpton Thaverkamp jmeppley
	Genome-wide de novo prediction of cis-regulatory binding sites in prokaryotes [My Copy] Nucl. Acids Res. (21 April 2009), gkp248. by Shaoqiang Zhang, Minli Xu, Shan Li, Zhengchang Su posted to binding genomics prediction prokaryotic regulation by neils on 2009-04-25 04:04:35 as along with 1 person nuin
	Progress and challenges in predicting protein-protein interaction sites [My Copy] Brief Bioinform, Vol. 10, No. 3. (1 May 2009), pp. 233-246. by Iakes Ezkurdia, Lisa Bartoli, Piero Fariselli, Rita Casadio, Alfonso Valencia, Michael L. Tress posted to interaction interface prediction protein-protein review by neils on 2009-04-22 00:32:06 as along with 9 people and 1 group flbarroso biomcgary nanonan apaydin marti reyez barry renatomilani iakes McCammon
	Detection and characterization of 3D-signature phosphorylation site motifs and their contribution towards improved phosphorylation site prediction. [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 117. by Pawel Durek, Christian Schudoma, Wolfram Weckwerth, Joachim Selbig, Dirk Walther posted to phosphorylation prediction signature structure by neils on 2009-04-22 00:31:09 as along with 2 people oelemento reyez
	EFICAz2: enzyme function inference by a combined approach enhanced by machine learning. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (2009), 107. by Adrian K. Arakaki, Ying Huang, Jeffrey Skolnick posted to enzyme fdr function prediction svm by neils on 2009-04-13 06:07:55 as along with 2 people and 1 group jholder JeremyZucker MetabolicModeling
	microPred: effective classification of pre-miRNAs for human miRNA gene prediction. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 8. (15 April 2009), pp. 989-995. by Rukshan Batuwita, Vasile Palade posted to classification human mirna prediction by neils on 2009-04-09 00:05:21 as along with 5 people and 2 groups jfr guhjy lwaldron djkt daforerog microRNA Bioinformatics
	Predicting helix-helix interactions from residue contacts in membrane proteins [My Copy] Bioinformatics, Vol. 25, No. 8. (15 April 2009), pp. 996-1003. by Allan Lo, Yi-Yuan Chiu, Einar A. Rodland, Ping-Chiang Lyu, Ting-Yi Sung, Wen-Lian Hsu posted to helix interaction membrane prediction protein protein-protein by neils on 2009-04-09 00:04:32 as along with 6 people xdeupi ChanghuiYan george_g friendpine zwang phoenixzxl
	Evolutionary conservation in multiple faces of protein interaction [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 77, No. 1. (2009), pp. 14-25. by Yoon S. Choi, Jae-Seong Yang, Yonghwan Choi, Sung H. Ryu, Sanguk Kim posted to conservation interaction interface prediction protein-protein structure by neils on 2009-04-08 00:55:01 as along with 2 people and 1 group AliC paulschlesinger Orengo Group Journal Picks
	Accurate Prediction of Peptide Binding Sites on Protein Surfaces [My Copy] PLoS Comput Biol, Vol. 5, No. 3. (27 March 2009), e1000335. by Evangelia Petsalaki, Alexander Stark, Eduardo García-Urdiales, Robert B. Russell posted to interaction peptide prediction protein-protein structure surface by neils on 2009-03-30 02:27:13 as along with 8 people and 1 group dfdong higueruelo pablocarb nickolay phoenixzxl idoerg sobolevnrm paulschlesinger baker-group
	Structure Based Prediction of the S. cerevisiae SH3-Ligand Interactions. [My Copy] Journal of molecular biology (23 March 2009) by Gregorio Fernandez-Ballester, Pedro Beltrao, Jose Manuel M. Gonzalez, et al.Young-Hwa H. Song, Matthias Wilmanns, Alfonso Valencia, Luis Serrano posted to homology interaction modelling prediction protein-protein sh3 structure by neils on 2009-03-29 12:51:13 as along with 1 person kgutwin
	Biocomputational prediction of non-coding RNAs in model cyanobacteria [My Copy] BMC Genomics, Vol. 10, No. 1. (2009), 123. by Bjorn Vosz, Jens Georg, Verena Schon, Susanne Ude, Wolfgang Hess posted to cyanobacteria ncrna prediction by neils on 2009-03-23 22:10:30 as
	A feature-based approach to modeling protein-protein interaction hot spots [My Copy] Nucl. Acids Res., Vol. 37, No. 8. (1 May 2009), pp. 2672-2687. by Kyu-Il Cho, Dongsup Kim, Doheon Lee posted to feature interaction modelling prediction protein-protein by neils on 2009-03-10 22:30:40 as along with 5 people pablocarb higueruelo flbarroso phoenixzxl zwang
	Outcome prediction based on microarray analysis: a critical perspective on methods. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (2009) by Michalis Zervakis, Michalis E. Blazadonakis, Georgia Tsiliki, Vasiliki Danilatou, Manolis Tsiknakis, Dimitris Kafetzopoulos posted to analysis microarray prediction review statistics transcriptomics by neils on 2009-02-11 07:52:33 as along with 5 people TRHvidsten guhjy rdiaz renatomilani GeeSharpMinor
	Sequence-based feature prediction and annotation of proteins. [My Copy] Genome biology, Vol. 10, No. 2. (2 February 2009) by Agnieszka S. Juncker, Lars J. Jensen, Andrea Pierleoni, et al.Andreas Bernsel, Michael L. Tress, Peer Bork, Gunnar von Heijne, Alfonso Valencia, Christos A. Ouzounis, Rita Casadio, Søren Brunak posted to annotation bioinformatics methods prediction protein review sequence by neils on 2009-02-02 23:24:56 as along with 5 people larsjuhljensen kgutwin nyyu shwu druvus
	Prediction of Protein–Protein Interaction Sites in Sequences and 3D Structures by Random Forests [My Copy] PLoS Comput Biol, Vol. 5, No. 1. (30 January 2009), e1000278. by Mile Šikić, Sanja Tomić, Kristian Vlahoviček posted to interaction prediction protein-protein random-forest sequence structure by neils on 2009-01-30 01:49:03 as along with 7 people and 2 groups roys svozil marti barry grahamc higueruelo kshameer structural_bioinformatics McCammon
	Prediction of protein-protein interaction types using association rule based classification [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009) by Sung H. Park, Jose Reyes, David Gilbert, Ji W. Kim, Sangsoo Kim posted to bioinformatics classification interaction prediction protein-protein by neils on 2009-01-28 23:18:46 as along with 4 people anf renatomilani grahamc higueruelo
	Accurate domain identification with structure-anchored hidden Markov models, saHMMs. [My Copy] Proteins, Vol. 76, No. 2. (11 December 2008), pp. 343-352. by Jeanette E. Tångrot, Bo Kågström, Uwe H. Sauer posted to bioinformatics domain hmm prediction protein by neils on 2009-01-28 23:17:36 as along with 1 person and 1 group AliC Orengo Group Journal Picks
	GRIP: A web-based system for constructing Gold Standard datasets for protein-protein interaction prediction [My Copy] Source Code for Biology and Medicine, Vol. 4, No. 1. (2009) by Fiona Browne, Haiying Wang, Huiru Zheng, Francisco Azuaje posted to bioinformatics dataset interaction prediction protein-protein web by neils on 2009-01-26 23:11:26 as
	Prediction of Nuclear Proteins using SVM and HMM Models [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009) by Manish Kumar, Gajendra Raghava posted to bioinformatics hmm localisation nls nuclear prediction saac svn by neils on 2009-01-20 00:12:31 as along with 5 people firyarn84 mhamada grahamc mdstobbe druvus
	Masking residues using context-specific evolutionary conservation significantly improves short linear motif discovery [My Copy] Bioinformatics (9 January 2009), btn664. by Norman E. Davey, Denis C. Shields, Richard J. Edwards posted to bioinformatics discovery evolution linear masking motif prediction by neils on 2009-01-14 01:53:35 as along with 2 people nuin jameswasmuth
	Large-scale prediction of long disordered regions in proteins using random forests [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009) by Pengfei Han, Xiuzhen Zhang, Raymond Norton, Zhi P. Feng posted to bioinformatics disorder prediction protein random-forest by neils on 2009-01-07 23:27:39 as
	Prediction of Protein-Protein Interface Sequence Diversity Using Flexible Backbone Computational Protein Design [My Copy] Vol. 16, No. 12. (12 December 2008), pp. 1777-1788. by Elisabeth L. Humphris, Tanja Kortemme posted to backbone bioinformatics interaction interface prediction protein-protein proteins by neils on 2008-12-11 01:38:19 as
	Detection of Functionally Important Regions in Hypothetical Proteins of Known Structure [My Copy] Vol. 16, No. 12. (12 December 2008), pp. 1755-1763. by Guy Nimrod, Maya Schushan, David M. Steinberg, Nir Ben-Tal posted to bioinformatics function interaction prediction protein-protein proteins by neils on 2008-12-11 01:35:57 as
	Prediction of kinase-specific phosphorylation sites using Conditional Random Fields. [My Copy] Bioinformatics (Oxford, England) (20 October 2008) by Thanh Hai H. Dang, Koenraad Van V. Leemput, Alain Verschoren, Kris Laukens posted to bioinformatics kinase phosphorylation prediction random-fields specificity by neils on 2008-12-05 01:11:06 as along with 3 people gulkur coela guhjy
	SPOCTOPUS: A combined predictor of signal peptides and membrane protein topology. [My Copy] Bioinformatics (Oxford, England) (22 October 2008) by Hâkan Viklund, Andreas Bernsel, Marcin Skwark, Arne Elofsson posted to bioinformatics membrane peptide prediction protein signal software by neils on 2008-12-05 01:09:48 as along with 1 person grahamc
	Prediction of specificity-determining residues for small-molecule kinase inhibitors [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008) by Daniel Caffrey, Elizabeth Lunney, Deborah Moshinsky posted to bioinformatics inhibitor kinase prediction protein residue specificity by neils on 2008-11-26 01:00:24 as along with 2 people reyez renatomilani
	Protein networks markedly improve prediction of subcellular localization in multiple eukaryotic species [My Copy] Nucl. Acids Res. (4 October 2008), gkn619. by Kiyoung Lee, Han-Yu Chuang, Andreas Beyer, et al.Min-Kyung Sung, Won-Ki Huh, Bonghee Lee, Trey Ideker posted to bioinformatics interaction localisation network prediction protein-protein subcellular by neils on 2008-11-13 10:50:54 as along with 5 people carlk brianb grahamc giovenko ptrobajo
	Prediction of signal peptides in archaea. [My Copy] Protein engineering, design & selection : PEDS (6 November 2008) by P G G. Bagos, K D D. Tsirigos, S K K. Plessas, T D D. Liakopoulos, S J J. Hamodrakas posted to archaea bioinformatics hmm peptide prediction secretion signal by neils on 2008-11-09 01:28:56 as
	Identification of hot-spot residues in protein-protein interactions by computational docking. [My Copy] BMC bioinformatics, Vol. 9, No. 1. (2008) by Solène Grosdidier, Juan Fernández-Recio posted to bioinformatics docking interaction prediction protein-protein residue by neils on 2008-10-21 10:09:22 as along with 6 people ubcg08l pablocarb bicko grahamc higueruelo i000
	SDR: a database of predicted specificity-determining residues in proteins [My Copy] Nucl. Acids Res. (16 October 2008), gkn716. by Jason E. Donald, Eugene I. Shakhnovich posted to bioinformatics database function prediction protein residue specificity structure by neils on 2008-10-17 09:05:36 as
	Structural assembly of two-domain proteins by rigid-body docking [My Copy] BMC Bioinformatics, Vol. 9 (16 October 2008), 441. by Tammy M. K. Cheng, Tom L. Blundell, Juan Fernandez-Recio posted to docking domain prediction rigid-body structure by neils on 2008-10-17 01:38:53 as
	PlasmoDraft: a database of Plasmodium falciparum gene function predictions based on postgenomic data. [My Copy] BMC bioinformatics, Vol. 9, No. 1. (2008) by Laurent Bréhélin, Jean-François F. Dufayard, Olivier Gascuel posted to annotation database function genomics plasmodium prediction by neils on 2008-10-17 01:38:16 as along with 3 people chica jameswasmuth GeeSharpMinor
	Physical protein-protein interactions predicted from microarrays [My Copy] Bioinformatics, Vol. 24, No. 22. (15 November 2008), pp. 2608-2614. by Ta-tsen Soong, Kazimierz O. Wrzeszczynski, Burkhard Rost posted to bioinformatics interaction microarray prediction protein-protein svm by neils on 2008-10-04 01:44:54 as along with 12 people jperkins kiekyon jfr cgaugain guhjy saket iris_2001 pengchy natstreet grahamc phoenixzxl renatomilani
	Modifying the DPClus algorithm for identifying protein complexes based on new topological structures [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008) by Min Li, Jianer Chen, Jianxin Wang, Bin Hu, Gang Chen posted to bioinformatics complex interaction prediction protein-protein topology by neils on 2008-09-25 02:20:03 as along with 2 people diamantis chad_davis
	A combinatorial score to distinguish biological and nonbiological protein-protein interfaces [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 64 (2006), pp. 68-78. by Shiyong Liu, Qingliang Li, Luhua Lai posted to bioinformatics contact interaction interface prediction protein-protein by neils on 2008-09-24 06:13:00 as
	PredGPI: a GPI-anchor predictor. [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008) by Andrea Pierleoni, Pier L. Martelli, Rita Casadio posted to anchor bioinformatics gpi hmm prediction svm by neils on 2008-09-23 14:51:26 as along with 1 person GeeSharpMinor
	Improving peptide-MHC class I binding prediction for unbalanced datasets [My Copy] BMC Bioinformatics, Vol. 9 (19 September 2008), 385. by Ana P. Sales, Georgia D. Tomaras, Thomas B. Kepler posted to binding bioinformatics class-i mhc peptide prediction by neils on 2008-09-23 01:57:26 as

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bioinformatics	196
protein	152
genomics	143
structure	132
kinase	129
prediction	113
phosphorylation	101
interaction	97
software	96
database	90
protein-protein	86
analysis	84
sequence	83
proteomics	80
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review	71
evolution	67
statistics	64
archaea	58
human	56
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microarray	47
network	45
genome	44
data	38
metagenomics	38
sequencing	36
webserver	36
specificity	35
peptide	34
substrate	34
domain	33
genetics	32
mass-spec	32
expression	30
phylogeny	30
binding	29
virus	29
annotation	25
article-pka-pkg	25
function	25
regulation	25
signal	25
enzyme	24
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r-project	23
molecular	22
crystallography	21
psychrophily	21
signaling	21
complex	20
disease	20
alignment	19
ecology	19
gene	19
localisation	19
next-generation	19
transcriptomics	19
yeast	19
animal	18
comparative	18
transduction	18
article-nar	17
tertiary	17
cell	16
membrane	16
nuclear	16
protein-serine-threonine	16
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nls	15
prokaryotic	15
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transcription	15
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plant	14
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cancer	13
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for-thuber	9
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screen	9
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svm	9
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framework	2
friendfeed	2
global	2
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gmp-dependent	2
google	2
g-protein-coupled	2
greenland	2
haloferax	2
history	2
horizontal	2
hupo	2
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ignicoccus	2
illumina	2
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sh3	2
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twitter	2
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xanthomonas	2
14-3-3	1
145-trisphosphate	1
16s	1
2008	1
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454	1
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cms	1
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ms	1
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opsin	1
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zebrafinch	1
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zimmer	1
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znf	1
zoarces	1
zymomonas	1

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