Academic Journals Database
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BioData Mining

ISSN: 1756--0381
Publisher: BioMed Central


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Synthesis-View: visualization and interpretation of SNP association results for multi-cohort, multi-phenotype data and meta-analysis

Author(s): Pendergrass Sarah A | Dudek Scott M | Crawford Dana C | Ritchie Marylyn D
Volume: 3
Issue: 1
Year: 2010
A biclustering algorithm based on a Bicluster Enumeration Tree: application to DNA microarray data

Author(s): Ayadi Wassim | Elloumi Mourad | Hao Jin-Kao
Volume: 2
Issue: 1
Year: 2009
3PFDB - A database of Best Representative PSSM Profiles (BRPs) of Protein Families generated using a novel data mining approach

Author(s): Shameer Khader | Nagarajan Paramasivam | Gaurav Kumar | Sowdhamini Ramanathan
Volume: 2
Issue: 1
Year: 2009
LD-Spline: Mapping SNPs on genotyping platforms to genomic regions using patterns of linkage disequilibrium

Author(s): Bush William S | Chen Guanhua | Torstenson Eric S | Ritchie Marylyn D
Volume: 2
Issue: 1
Year: 2009
Spatially Uniform ReliefF (SURF) for computationally-efficient filtering of gene-gene interactions

Author(s): Greene Casey S | Penrod Nadia M | Kiralis Jeff | Moore Jason H
Volume: 2
Issue: 1
Year: 2009
Statistical quality assessment and outlier detection for liquid chromatography-mass spectrometry experiments

Author(s): Schulz-Trieglaff Ole | Machtejevas Egidijus | Reinert Knut | Schlüter Hartmut | Thiemann Joachim | Unger Klaus
Volume: 2
Issue: 1
Year: 2009
Partitioning clustering algorithms for protein sequence data sets

Author(s): Fayech Sondes | Essoussi Nadia | Limam Mohamed
Volume: 2
Issue: 1
Year: 2009
Multifactor dimensionality reduction analysis identifies specific nucleotide patterns promoting genetic polymorphisms

Author(s): Arehart Eric | Gleim Scott | White Bill | Hwa John | Moore Jason H
Volume: 2
Issue: 1
Year: 2009
Database mining for selection of SNP markers useful in admixture mapping

Author(s): Baye Tesfaye M | Tiwari Hemant K | Allison David B | Go Rodney C
Volume: 2
Issue: 1
Year: 2009
Fast approximate hierarchical clustering using similarity heuristics

Author(s): Kull Meelis | Vilo Jaak
Volume: 1
Issue: 1
Year: 2008
Mining tissue specificity, gene connectivity and disease association to reveal a set of genes that modify the action of disease causing genes

Author(s): Reverter Antonio | Ingham Aaron | Dalrymple Brian P
Volume: 1
Issue: 1
Year: 2008
Search extension transforms Wiki into a relational system: A case for flavonoid metabolite database

Author(s): Arita Masanori | Suwa Kazuhiro
Volume: 1
Issue: 1
Year: 2008
A review of estimation of distribution algorithms in bioinformatics

Author(s): Armañanzas Rubén | Inza Iñaki | Santana Roberto | Saeys Yvan | Flores Jose | Lozano Jose | Peer Yves | Blanco Rosa | Robles Víctor | Bielza Concha | Larrañaga Pedro
Volume: 1
Issue: 1
Year: 2008
Clustering-based approaches to SAGE data mining

Author(s): Wang Haiying | Zheng Huiru | Azuaje Francisco
Volume: 1
Issue: 1
Year: 2008
Uncovering mechanisms of transcriptional regulations by systematic mining of cis regulatory elements with gene expression profiles

Author(s): Ma Qicheng | Chirn Gung-Wei | Szustakowski Joseph D | Bakhtiarova Adel | Kosinski Penelope A | Kemp Daniel | Nirmala Nanguneri
Volume: 1
Issue: 1
Year: 2008
Neural networks for genetic epidemiology: past, present, and future

Author(s): Motsinger-Reif Alison A | Ritchie Marylyn D
Volume: 1
Issue: 1
Year: 2008
Modeling gene-by-environment interaction in comorbid depression with alcohol use disorders via an integrated bioinformatics approach

Author(s): McEachin Richard C | Keller Benjamin J | Saunders Erika FH | McInnis Melvin G
Volume: 1
Issue: 1
Year: 2008
Filling the gap between biology and computer science

Author(s): Aguilar-Ruiz Jesús S | Moore Jason H | Ritchie Marylyn D
Volume: 1
Issue: 1
Year: 2008
A survey of visualization tools for biological network analysis

Author(s): Pavlopoulos Georgios A | Wegener Anna-Lynn | Schneider Reinhard
Volume: 1
Issue: 1
Year: 2008
Fast Gene Ontology based clustering for microarray experiments

Author(s): Ovaska Kristian | Laakso Marko | Hautaniemi Sampsa
Volume: 1
Issue: 1
Year: 2008
Multivariate profiling of neurodegeneration-associated changes in a subcellular compartment of neurons via image processing

Author(s): Kumarasamy Saravana K | Wang Yunshi | Viswanathan Vignesh | Kraut Rachel S
Volume: 1
Issue: 1
Year: 2008
How do alignment programs perform on sequencing data with varying qualities and from repetitive regions?

Author(s): Yu Xiaoqing | Guda Kishore | Willis Joseph | Veigl Martina | Wang Zhenghe | Markowitz Sanford | Adams Mark D | Sun Shuying
Volume: 5
Issue: 1
Year: 2012
Visually integrating and exploring high throughput Phenome-Wide Association Study (PheWAS) results using PheWAS-View

Author(s): Pendergrass Sarah A | Dudek Scott M | Crawford Dana C | Ritchie Marylyn D
Volume: 5
Issue: 1
Year: 2012
Weighted multiple testing procedures for genomic studies

Author(s): Gui Jiang | Tosteson Tor D | Borsuk Mark
Volume: 5
Issue: 1
Year: 2012
Global tests of P-values for multifactor dimensionality reduction models in selection of optimal number of target genes

Author(s): Dai Hongying | Bhandary Madhusudan | Becker Mara | Leeder J | Gaedigk Roger | Motsinger-Reif Alison A
Volume: 5
Issue: 1
Year: 2012
A multilevel layout algorithm for visualizing physical and genetic interaction networks, with emphasis on their modular organization

Author(s): Tuikkala Johannes | Vähämaa Heidi | Salmela Pekka | Nevalainen Olli S | Aittokallio Tero
Volume: 5
Issue: 1
Year: 2012
Application of a spatially-weighted Relief algorithm for ranking genetic predictors of disease

Author(s): Stokes Matthew E | Visweswaran Shyam
Volume: 5
Issue: 1
Year: 2012
Caipirini: using gene sets to rank literature

Author(s): Soldatos Theodoros G | O'Donoghue Seán I | Satagopam Venkata P | Barbosa-Silva Adriano | Pavlopoulos Georgios A | Wanderley-Nogueira Ana | Soares-Cavalcanti Nina | Schneider Reinhard
Volume: 5
Issue: 1
Year: 2012
Predicting the difficulty of pure, strict, epistatic models: metrics for simulated model selection

Author(s): Urbanowicz Ryan J | Kiralis Jeff | Fisher Jonathan M | Moore Jason H
Volume: 5
Issue: 1
Year: 2012
Peer2ref: a peer-reviewer finding web tool that uses author disambiguation

Author(s): Andrade-Navarro Miguel A | Palidwor Gareth A | Perez-Iratxeta Carol
Volume: 5
Issue: 1
Year: 2012
An automated framework for hypotheses generation using literature

Author(s): Abedi Vida | Zand Ramin | Yeasin Mohammed | Faisal Fazle
Volume: 5
Issue: 1
Year: 2012
Finding biomarkers in non-model species: literature mining of transcription factors involved in bovine embryo development

Author(s): Turenne Nicolas | Tiys Evgeniy | Ivanisenko Vladimir | Yudin Nikolay | Ignatieva Elena | Valour Damien | Degrelle Séverine A | Hue Isabelle
Volume: 5
Issue: 1
Year: 2012
Murine colon proteome and characterization of the protein pathways

Author(s): Magdeldin Sameh | Yoshida Yutaka | Li Huiping | Maeda Yoshitaka | Yokoyama Munesuke | Enany Shymaa | Zhang Ying | Xu Bo | Fujinaka Hidehiko | Yaoita Eishin | Sasaki Sei | Yamamoto Tadashi
Volume: 5
Issue: 1
Year: 2012
Logic minimization and rule extraction for identification of functional sites in molecular sequences

Author(s): Cruz-Cano Raul | Lee Mei-Ling | Leung Ming-Ying
Volume: 5
Issue: 1
Year: 2012
pGQL: A probabilistic graphical query language for gene expression time courses

Author(s): Schilling Ruben | Costa Ivan G | Schliep Alexander
Volume: 4
Issue: 1
Year: 2011
Data mining and the evolution of biological complexity

Author(s): Urbach Davnah | Moore Jason H
Volume: 4
Issue: 1
Year: 2011
The spatial dimension in biological data mining

Author(s): Urbach Davnah | Moore Jason H
Volume: 4
Issue: 1
Year: 2011
Rule based classifier for the analysis of gene-gene and gene-environment interactions in genetic association studies

Author(s): Lehr Thorsten | Yuan Jing | Zeumer Dirk | Jayadev Supriya | Ritchie Marylyn D
Volume: 4
Issue: 1
Year: 2011
Biclustering of Gene Expression Data by Correlation-Based Scatter Search

Author(s): Nepomuceno Juan A | Troncoso Alicia | Aguilar-Ruiz Jesús S
Volume: 4
Issue: 1
Year: 2011
A Normalized Tree Index for identification of correlated clinical parameters in microarray experiments

Author(s): Martin Christian W | Tauchen Anika | Becker Anke | Nattkemper Tim W
Volume: 4
Issue: 1
Year: 2011
Improved Bevirimat resistance prediction by combination of structural and sequence-based classifiers

Author(s): Dybowski J Nikolaj | Riemenschneider Mona | Hauke Sascha | Pyka Martin | Verheyen Jens | Hoffmann Daniel | Heider Dominik
Volume: 4
Issue: 1
Year: 2011
Mining the diseasome

Author(s): Urbach Davnah | Moore Jason H
Volume: 4
Issue: 1
Year: 2011
An R package implementation of multifactor dimensionality reduction

Author(s): Winham Stacey J | Motsinger-Reif Alison A
Volume: 4
Issue: 1
Year: 2011
Hill-Climbing search and diversification within an evolutionary approach to protein structure prediction

Author(s): Chira Camelia | Horvath Dragos | Dumitrescu D
Volume: 4
Issue: 1
Year: 2011
Detection of putative new mutacins by bioinformatic analysis using available web tools

Author(s): Nicolas Guillaume G
Volume: 4
Issue: 1
Year: 2011
Evolving hard problems: Generating human genetics datasets with a complex etiology

Author(s): Himmelstein Daniel S | Greene Casey S | Moore Jason H
Volume: 4
Issue: 1
Year: 2011
Taxon ordering in phylogenetic trees by means of evolutionary algorithms

Author(s): Cerutti Francesco | Bertolotti Luigi | Goldberg Tony L | Giacobini Mario
Volume: 4
Issue: 1
Year: 2011
Blurring contact maps of thousands of proteins: what we can learn by reconstructing 3D structure

Author(s): Vassura Marco | Di Lena Pietro | Margara Luciano | Mirto Maria | Aloisio Giovanni | Fariselli Piero | Casadio Rita
Volume: 4
Issue: 1
Year: 2011
DADA: Degree-Aware Algorithms for Network-Based Disease Gene Prioritization

Author(s): Erten Sinan | Bebek Gurkan | Ewing Rob M | Koyutürk Mehmet
Volume: 4
Issue: 1
Year: 2011
Discrete derivative: a data slicing algorithm for exploration of sharing biological networks between rheumatoid arthritis and coronary heart disease

Author(s): Zheng Guang | Jiang Miao | He Xiaojuan | Zhao Jing | Guo Hongtao | Chen Gao | Zha Qinglin | Lu Aiping
Volume: 4
Issue: 1
Year: 2011
Comprehensive analysis of human microRNA target networks

Author(s): Satoh Jun-ichi | Tabunoki Hiroko
Volume: 4
Issue: 1
Year: 2011
Interpol: An R package for preprocessing of protein sequences

Author(s): Heider Dominik | Hoffmann Daniel
Volume: 4
Issue: 1
Year: 2011
Detection of changes in gene regulatory patterns, elicited by perturbations of the Hsp90 molecular chaperone complex, by visualizing multiple experiments with an animation

Author(s): Echeverría Pablo C | Forafonov Fedor | Pandey Deo P | Mühlebach Guillaume | Picard Didier
Volume: 4
Issue: 1
Year: 2011
Mining beyond the exome

Author(s): Urbach Davnah | Moore Jason H
Volume: 4
Issue: 1
Year: 2011
Preprocessing differential methylation hybridization microarray data

Author(s): Sun Shuying | Huang Yi-Wen | Yan Pearlly S | Huang Tim HM | Lin Shili
Volume: 4
Issue: 1
Year: 2011
A comparison of machine learning techniques for survival prediction in breast cancer

Author(s): Vanneschi Leonardo | Farinaccio Antonella | Mauri Giancarlo | Antoniotti Mauro | Provero Paolo | Giacobini Mario
Volume: 4
Issue: 1
Year: 2011
The effects of linkage disequilibrium in large scale SNP datasets for MDR

Author(s): Grady Benjamin J | Torstenson Eric S | Ritchie Marylyn D
Volume: 4
Issue: 1
Year: 2011
Using graph theory to analyze biological networks

Author(s): Pavlopoulos Georgios A | Secrier Maria | Moschopoulos Charalampos N | Soldatos Theodoros G | Kossida Sophia | Aerts Jan | Schneider Reinhard | Bagos Pantelis G
Volume: 4
Issue: 1
Year: 2011
A particle swarm optimization-based algorithm for finding gapped motifs

Author(s): Lei Chengwei | Ruan Jianhua
Volume: 3
Issue: 1
Year: 2010
Grammatical evolution decision trees for detecting gene-gene interactions

Author(s): Motsinger-Reif Alison A | Deodhar Sushamna | Winham Stacey J | Hardison Nicholas E
Volume: 3
Issue: 1
Year: 2010
GeneWaltz--A new method for reducing the false positives of gene finding

Author(s): Misawa Kazuharu | Kikuno Reiko F
Volume: 3
Issue: 1
Year: 2010
SICTIN: Rapid footprinting of massively parallel sequencing data

Author(s): Enroth Stefan | Andersson Robin | Wadelius Claes | Komorowski Jan
Volume: 3
Issue: 1
Year: 2010
Applications and methods utilizing the Simple Semantic Web Architecture and Protocol (SSWAP) for bioinformatics resource discovery and disparate data and service integration

Author(s): Nelson Rex T | Avraham Shulamit | Shoemaker Randy C | May Gregory D | Ware Doreen | Gessler Damian DG
Volume: 3
Issue: 1
Year: 2010
Large scale analysis of positional effects of single-base mismatches on microarray gene expression data

Author(s): Duan Fenghai | Pauley Mark A | Spindel Eliot R | Zhang Li | Norgren Robert B
Volume: 3
Issue: 1
Year: 2010
A reference guide for tree analysis and visualization

Author(s): Pavlopoulos Georgios A | Soldatos Theodoros G | Barbosa-Silva Adriano | Schneider Reinhard
Volume: 3
Issue: 1
Year: 2010
Identification of new biomarker candidates for glucocorticoid induced insulin resistance using literature mining

Author(s): Fleuren Wilco WM | Toonen Erik JM | Verhoeven Stefan | Frijters Raoul | Hulsen Tim | Rullmann Ton | van Schaik René | de Vlieg Jacob | Alkema Wynand
Volume: 6
Issue: 1
Year: 2013
Risk score modeling of multiple gene to gene interactions using aggregated-multifactor dimensionality reduction

Author(s): Dai Hongying | Charnigo Richard J | Becker Mara L | Leeder J | Motsinger-Reif Alison A
Volume: 6
Issue: 1
Year: 2013
Gene ontology analysis of pairwise genetic associations in two genome-wide studies of sporadic ALS

Author(s): Kim Nora | Andrews Peter C | Asselbergs Folkert W | Frost H | Williams Scott M | Harris Brent T | Read Cynthia | Askland Kathleen D | Moore Jason H
Volume: 5
Issue: 1
Year: 2012
A comparison and evaluation of five biclustering algorithms by quantifying goodness of biclusters for gene expression data

Author(s): Li Li | Guo Yang | Wu Wenwu | Shi Youyi | Cheng Jian | Tao Shiheng
Volume: 5
Issue: 1
Year: 2012
‘MicroRNA Targets’, a new AthaMap web-tool for genome-wide identification of miRNA targets in Arabidopsis thaliana

Author(s): Bülow Lorenz | Bolívar Julio C | Ruhe Jonas | Brill Yuri | Hehl Reinhard
Volume: 5
Issue: 1
Year: 2012
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