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Recent papers matching nedwards's watchlist criteria

	Proteomic analysis during larval development and metamorphosis of the spionid polychaete Pseudopolydora vexillosa [My Copy] Proteome Science, Vol. 7 (14 December 2009), 44. by Flora Mok, Vengatesen Thiyagarajan, Pei-Yuan Qian
	An efficient algorithm for the stochastic simulation of the hybridization of DNA to microarrays [My Copy] BMC Bioinformatics, Vol. 10 (10 December 2009), 411. by Erdem Arslan, Ian Laurenzi
	Refining gene signatures: a Bayesian approach [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 410. by Amira Djebbari, Aurelie Labbe posted by 1 person phoenixzxl
	An improved empirical bayes approach to estimating differential gene expression in microarray time-course data: BETR (Bayesian Estimation of Temporal Regulation) [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (10 December 2009), 409. by Martin Aryee, Gutierrez P. Jose, Igor Kramnik, Tapabrata Maiti, John Quackenbush posted by 1 person TRHvidsten
	Exploring complex miRNA-mRNA interactions with Bayesian networks by splitting-averaging strategy [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 408. by Bing Liu, Jiuyong Li, Anna Tsykin, Lin Liu, Arti Gaur, Gregory Goodall posted by 2 people microRNA heliopais
	Protein-protein docking using region-based 3D Zernike descriptors [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (09 December 2009), 407. by Vishwesh Venkatraman, Yifeng Yang, Lee Sael, Daisuke Kihara posted by 1 person bdessailly
	Correction: Disease candidate gene identification and prioritization using protein interaction networks [My Copy] BMC Bioinformatics, Vol. 10 (09 December 2009), 406. by Jing Chen, Bruce Aronow, Anil Jegga
	Exploring biological network structure with clustered random networks [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 405. by Shweta Bansal, Shashank Khandelwal, Lauren Meyers posted by 5 people Geknitics bdessailly phoenixzxl shikin karthikraman
	Identifying differentially methylated genes using mixed effect and generalized least square models [My Copy] BMC Bioinformatics, Vol. 10 (09 December 2009), 404. by Shuying Sun, Pearlly Yan, Tim Huang, Shili Lin
	Investigating heterogeneous protein annotations toward cross-corpora utilization [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (9 December 2009), 403. by Yue Wang, Jin D. Kim, Rune Saetre, Sampo Pyysalo, Jun'ichi Tsujii posted by 6 people BergmanLab cisevol Orengo Group Journal Picks sillitoe cdepablo mjbell
	A close examination of double filtering with fold change and t test in microarray analysis [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 402. by Song Zhang, Jing Cao posted by 4 people renatomilani barriot meanerelk frohike
	Genome-wide maps of mono- and di-nucleosomes of Aspergillus fumigatus [My Copy] Bioinformatics, Vol. 25, No. 18., pp. 2295-2297. by Hiromi Nishida, Takayuki Motoyama, Shogo Yamamoto, Hiroyuki Aburatani, Hiroyuki Osada
	Evidence for human microRNA-offset RNAs in small RNA sequencing data [My Copy] Bioinformatics, Vol. 25, No. 18. (15 September 2009), pp. 2298-2301. by David Langenberger, Clara Bermudez-Santana, Jana Hertel, Steve Hoffmann, Philipp Khaitovich, Peter F. Stadler posted by 10 people hzoltan microRNA microRNA heliopais dswan natstreet fishtank n00c kutter01 samgj
	k-link EST clustering: evaluating error introduced by chimeric sequences under different degrees of linkage. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 18. (15 September 2009), pp. 2302-2308. by Lauren M. Bragg, Glenn Stone posted by 1 person orzenil
	Using a mutual information-based site transition network to map the genetic evolution of influenza A/H3N2 virus. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 18. (15 September 2009), pp. 2309-2317. by Zhen Xia, Gulei Jin, Jun Zhu, Ruhong Zhou posted by 4 people marywaye zwang phoenixzxl druvus
	Motif discovery and motif finding from genome-mapped DNase footprint data [My Copy] Bioinformatics (Oxford, England) In Bioinformatics, Vol. 25, No. 18. (15 September 2009), pp. 2318-2325. by Ivan V. Kulakovskiy, Alexander V. Favorov, Vsevolod J. Makeev posted by 5 people bsamal operon nuin maximilianh cisevol
	Prediction of protein -residue contacts by Markov logic networks with grounding-specific weights [My Copy] Bioinformatics, Vol. 25, No. 18., pp. 2326-2333. by Marco Lippi, Paolo Frasconi
	Comparative study on ChIP-seq data: normalization and binding pattern characterization [My Copy] Bioinformatics, Vol. 25, No. 18. (15 September 2009), pp. 2334-2340. by Cenny Taslim, Jiejun Wu, Pearlly Yan, et al.Greg Singer, Jeffrey Parvin, Tim Huang, Shili Lin, Kun Huang posted by 11 people Bioinformatics - CRUK Stew tonamswish stubrown inesdesantiago ewilban1 guhjy Chinnaiyan Lab mkiyer humburg rschulz
	Transcriptional landscape estimation from tiling array data using a model of signal shift and drift. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 18. (15 September 2009), pp. 2341-2347. by Pierre Nicolas, Aurélie Leduc, Stéphane Robin, Simon Rasmussen, Hanne Jarmer, Philippe Bessières posted by 2 people rdiaz humburg
	Unite and conquer: univariate and multivariate approaches for finding differentially expressed gene sets [My Copy] Bioinformatics, Vol. 25, No. 18. (15 September 2009), pp. 2348-2354. by Galina V. Glazko, Frank Emmert-Streib posted by 9 people shikin zufar rdiaz brianb m509396 dswan natstreet guhjy neils
	Robustness considerations in selecting efficient two-color microarray designs [My Copy] Bioinformatics, Vol. 25, No. 18. (15 September 2009), pp. 2355-2361. by A. H. Mahbub M. Latif, Frank Bretz, Edgar Brunner posted by 1 person rdiaz
	Determining noisy attractors of delayed stochastic gene regulatory networks from multiple data sources [My Copy] Bioinformatics, Vol. 25, No. 18., pp. 2362-2368. by Xiaofeng Dai, Olli Yli-Harja, Andre S. Ribeiro
	TileProbe: modeling tiling array probe effects using publicly available data [My Copy] Bioinformatics (9 July 2009), btp425. by Jennifer T. Judy, Hongkai Ji posted by 1 person humburg
	Identification of distant family relationships [My Copy] Bioinformatics, Vol. 25, No. 18. (15 September 2009), pp. 2376-2382. by Oivind Skare, Nuala Sheehan, Thore Egeland posted by 2 people jsatkosk pkonings
	DYNAMIK: a software environment for cell DYNAmics, Motility, and Information tracKing, with an application to Ras pathways. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 18. (15 September 2009), pp. 2383-2388. by Stefan Jaeger, Qingfeng Song, Su-Shing S. Chen posted by 2 people dglane001 guhjy
	Cross-scale, cross-pathway evaluation using an agent-based non-small cell lung cancer model [My Copy] Bioinformatics, Vol. 25, No. 18. (15 September 2009), pp. 2389-2396. by Zhihui Wang, Christina M. Birch, Jonathan Sagotsky, Thomas S. Deisboeck posted by 1 person m509396
	Supervised prediction of drug-target interactions using bipartite local models [My Copy] Bioinformatics, Vol. 25, No. 18. (15 September 2009), pp. 2397-2403. by Kevin Bleakley, Yoshihiro Yamanishi posted by 5 people mingzhi ptrobajo apocapoc zwang phoenixzxl
	The impact of incomplete knowledge on evaluation: an experimental benchmark for protein function prediction [My Copy] Bioinformatics, Vol. 25, No. 18. (15 September 2009), pp. 2404-2410. by Curtis Huttenhower, Matthew A. Hibbs, Chad L. Myers, Amy A. Caudy, David C. Hess, Olga G. Troyanskaya posted by 4 people wilbur tmmurali TRHvidsten phoenixzxl
	High throughput minor histocompatibility antigen prediction. [My Copy] Bioinformatics (Oxford, England) (1 July 2009) by David S. Deluca, Britta Eiz-Vesper, Nektarios Ladas, Barbara Anna-Maria A. Khattab, Rainer Blasczyk posted by 1 person hifzur
	ADAN: a database for prediction of protein-protein interaction of modular domains mediated by linear motifs [My Copy] Bioinformatics (14 July 2009), btp424. by J. A. Encinar, G. Fernandez-Ballester, I. E. Sanchez, et al.E. Hurtado-Gomez, F. Stricher, P. Beltrao, L. Serrano posted by 2 people robfsouza neils
	WebArrayDB: cross-platform microarray data analysis and public data repository [My Copy] Bioinformatics, Vol. 25, No. 18. (15 September 2009), pp. 2425-2429. by Xiao-Qin Xia, Michael McClelland, Steffen Porwollik, Wenzhi Song, Xianling Cong, Yipeng Wang posted by 9 people ptrobajo lwaldron daforerog dswan natstreet guhjy brianb neils rschulz
	HAPLOWSER: a whole-genome haplotype browser for personal genome and metagenome [My Copy] Bioinformatics, Vol. 25, No. 18. (15 September 2009), pp. 2430-2431. by Jong H. Kim, Woo-Cheol Kim, Michael S. Waterman, Sanghyun Park, Lei M. Li posted by 5 people n00c dakelley natstreet djkt guhjy
	TTA Lynx: a web-based service for analysis of actinomycete genes containing rare TTA codon [My Copy] Bioinformatics, Vol. 25, No. 18., pp. 2432-2433. by Nestor Zaburannyy, Bohdan Ostash, Victor Fedorenko
	SNP-o-matic [My Copy] Bioinformatics, Vol. 25, No. 18. (15 September 2009), pp. 2434-2435. by Heinrich M. Manske, Dominic P. Kwiatkowski posted by 13 people hzoltan darian GeeSharpMinor daforerog ThomasDOtto natstreet misonneh druvus guhjy Zephyrus orzenil n00c Journal picks
	HI: haplotype improver using paired-end short reads [My Copy] Bioinformatics, Vol. 25, No. 18. (15 September 2009), pp. 2436-2437. by Quan Long, Daniel MacArthur, Zemin Ning, Chris Tyler-Smith posted by 9 people n00c jsatkosk Journal picks PabloMarin djkt pkonings natstreet guhjy jasontsai
	PIQA: pipeline for Illumina G1 genome analyzer data quality assessment [My Copy] Bioinformatics, Vol. 25, No. 18. (15 September 2009), pp. 2438-2439. by A. Martinez-Alcantara, E. Ballesteros, C. Feng, et al.M. Rojas, H. Koshinsky, V. Y. Fofanov, P. Havlak, Y. Fofanov posted by 3 people djkt guhjy n00c
	TreeTime: an extensible C++ software package for Bayesian phylogeny reconstruction with time-calibration. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 18. (15 September 2009), pp. 2440-2441. by Lin Himmelmann, Dirk Metzler posted by 4 people nuin nlapalu iSEEM djkt
	Affy exon tissues: exon levels in normal tissues in human, mouse and rat [My Copy] Bioinformatics, Vol. 25, No. 18. (15 September 2009), pp. 2442-2443. by Andrew A. Pohl, Charles W. Sugnet, Tyson A. Clark, Kayla Smith, Pauline A. Fujita, Melissa S. Cline posted by 2 people dswan guhjy
	Path: a tool to facilitate pathway-based genetic association analysis. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 18. (15 September 2009), pp. 2444-2446. by David Zamar, Ben Tripp, George Ellis, Denise Daley posted by 6 people zufar jamesmorris daforerog natstreet pkonings guhjy
	ITM Probe: analyzing information flow in protein networks [My Copy] Bioinformatics In Bioinformatics, Vol. 25, No. 18. (15 September 2009), pp. 2447-2449. by Aleksandar Stojmirovic, Yi-Kuo Yu posted by 2 people bsamal mitko
	ViTraM: visualization of transcriptional modules. [My Copy] Bioinformatics (Oxford, England), Vol. 25, No. 18. (15 September 2009), pp. 2450-2451. by Hong Sun, Karen Lemmens, Tim Van den Bulcke, Kristof Engelen, Bart De Moor, Kathleen Marchal posted by 5 people idonaldson natstreet TRHvidsten guhjy frohike
	Antimony: a modular model definition language [My Copy] Bioinformatics, Vol. 25, No. 18., pp. 2452-2454. by Lucian P. Smith, Frank T. Bergmann, Deepak Chandran, Herbert M. Sauro
	Optimizing substitution matrix choice and gap parameters for sequence alignment. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (2 December 2009), 396. by Robert C. Edgar posted by 7 people Orengo Group Journal Picks sillitoe Journal picks avilella jarretinha barriot walshtp
	Inferring protein function by domain context similarities in protein-protein interaction networks [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2 December 2009), 395. by Song Zhang, Hu Chen, Ke Liu, Zhirong Sun posted by 7 people bdessailly Orengo Group Journal Picks sillitoe barriot phoenixzxl poirel karthikraman
	Derivation of an amino acid similarity matrix for peptide:MHC binding and its application as a Bayesian prior [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (2009), 394. by Yohan Kim, John Sidney, Clemencia Pinilla, Alessandro Sette, Bjoern Peters posted by 2 people operon neils
	Phylogeny-guided interaction mapping in seven eukaryotes. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (30 November 2009), 393. by Janusz Dutkowski, Jerzy Tiuryn posted by 2 people Orengo Group Journal Picks sillitoe
	siDirect 2.0: updated software for designing functional siRNA with reduced seed-dependent off-target effect [My Copy] BMC Bioinformatics, Vol. 10 (30 November 2009), 392. by Yuki Naito, Jun Yoshimura, Shinichi Morishita, Kumiko Ui-Tei
	JANE: efficient mapping of prokaryotic ESTs and variable length sequence reads on related template genomes. [My Copy] BMC bioinformatics, Vol. 10, No. 1. (2009), 391. by Chunguang Liang, Alexander Schmid, María José J. López-Sánchez, et al.Andres Moya, Roy Gross, Jörg Bernhardt, Thomas Dandekar posted by 2 people freesci dakelley
	A comparison between protein profiles of B lymphocyte subpopulations and mantle cell lymphoma cells [My Copy] Proteome Science, Vol. 7 (23 November 2009), 43. by Henrik Stranneheim, Lukas Orre, Janne Lehtio, Jenny Flygare
	Functional phosphoproteomic profiling of phosphorylation sites in membrane fractions of salt-stressed Arabidopsis thaliana [My Copy] Proteome Science, Vol. 7, No. 1. (2009), 42. by Jue L. Hsu, Lan Y. Wang, Shu Y. Wang, et al.Ching H. Lin, Kuo C. Ho, Fong K. Shi, Ing F. Chang posted by 1 person renatomilani

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proteomics	327
tandem-mass-spectrometry	183
peptide-identification	143
mass-spectrometry	98
microorganism-identification	52
protein-quantitation	51
systems-biology	51
sequence-alignment	46
string-matching	40
peptide-identification-statistics	38
gapped-seeds	33
denovo-interpretation	30
n-terminal-peptides	28
genome-annotation	24
label-free	24
top-down	19
phosphorylation	16
heterogeneous-data-sources	16
peak-detection	16
isotope-cluster-modeling	15
proteomics-software	14
protein-protein-interactions	14
string-indexing	13
bacillus	13
data-integration	11
bchb-583-review	11
oligonucleotide-design	11
nopdf	11
spectral-matching	10
high-accuracy	9
serum-profiling	8
cancer-biomarkers	8
seed-strategies	8
alternative-splicing	7
isotope-label	7
bchb-583	7
biomarkers	7
protein-quantitation-statistics	7
protein-identification	7
machine-learning	7
proteomics-data-standards	6
antibiotic-resistance	6
sequencing-by-hybridization-graph	6
gene-expression	6
review	6
genome-assembly	6
sequence-database	6
dna-based	6
locality-sensitive-hashing	6
peptide-spectrum-score	6
post-translational-modifications	6
ft-ms	5
c-terminal-peptides	5
acid-cleavage	5
membrane	5
proteomics-data-repository	5
proteomics-data	5
proteolytic-trimming	5
unique-oligonucleotides	5
peptide-atlas	4
proteomics-workflows	4
inexact-string-matching	4
msblast	4
stable-isotope-labeling	4
breast-cancer	4
protein-homology	3
short-read-sequencing	3
mascot	3
motif-finding	3
tandem	3
malaria	3
translation-initiation	3
haplotypes	3
alignment-anchors	3
algorithms	3
cancer	3
glycomics	3
prosight-score	3
glycoproteins	3
ribosomal-proteins	3
cadmium	3
hupo-ppp	2
species-signatures	2
tandem-mass-spectra	2
organelle	2
peptide-identification-combiners	2
external-algorithms	2
estrogen	2
graph-algorithms	2
gene-finders	2
hidden-markov-models	2
suffix-trees	2
spectral-counting	2
approximate-graph-matching	2
subtractive-proteomics	2
mudpit	2
proteoimcs	2
burrows-wheeler	2
signal-peptide	2
phasing	2
omssa	2
proteomics-projects	2
subcelluar-fractionation	1
plasma	1
gycomics	1
ovarian-cancer	1
approximation-algorithms	1
genetic-engineering	1
protoemics	1
staphylococcus-aureus	1
sequest	1
acetylation	1
androgen	1
multiplexed-pcr	1
histones	1
protein-isoforms	1
sequencing-technologies	1
drug-resistance	1
multidrug-resistance	1
proteomcs	1
prostate-cancer	1
phosphopeptide	1
orbitrap	1
ubiquitination	1
applied-statistics	1
biomarker	1
glyomics	1
partial-digest-problem	1
spectral-processing	1
randomized-algorithms	1
dynamic-exclusion	1
profile-correlation	1
proteogenomics	1
statistical-significance	1
electron-transfer-dissociation	1
sensitivity	1
correlation	1
fractionation	1
protomics	1
codon-adaption-index	1
shotgun	1
peptide-enumeration	1
specificity	1
alzheimers-disease	1
protein-motif-statistics	1
digest-specificity	1
protein-families	1
phylogenetic-analysis	1
metabolomics	1
combinatorics	1
protein-informatics	1
gas-phase-fractionation	1
hd-exchange	1
prosight	1
beta-lactamase	1
maldi	1
middle-down	1
data-resources	1
optimization	1
shutgun-proteomics	1
cloud-computing	1

nedwards's watchlist [more than 800 articles] Export

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