Works matching IS 17520509 AND DT 2016

Results: 131

An improved method for functional similarity analysis of genes based on Gene Ontology.

Published in:

BMC Systems Biology, 2016, v. 10, p. 465, doi. 10.1186/s12918-016-0359-z

By:

Zhen Tian;
Chunyu Wang;
Maozu Guo;
Xiaoyan Liu;
Zhixia Teng

Publication type:

Article

MORO: a Cytoscape app for relationship analysis between modularity and robustness in large-scale biological networks.

Published in:

BMC Systems Biology, 2016, v. 10, p. 521, doi. 10.1186/s12918-016-0363-3

By:

Cong-Doan Truong;
Tien-Dzung Tran;
Yung-Keun Kwon

Publication type:

Article

Improved protein-protein interactions prediction via weighted sparse representation model combining continuous wavelet descriptor and PseAA composition.

Published in:

BMC Systems Biology, 2016, v. 10, p. 485, doi. 10.1186/s12918-016-0360-6

By:

Yu-An Huang;
Zhu-Hong You;
Xing Chen;
Gui-Ying Yan

Publication type:

Article

Screening lifespan-extending drugs in Caenorhabditis elegans via label propagation on drug-protein networks.

Published in:

BMC Systems Biology, 2016, v. 10, p. 509, doi. 10.1186/s12918-016-0362-4

By:

Hui Liu;
Mengmeng Guo;
Ting Xue;
Jihong Guan;
Libo Luo;
Ziheng Zhuang

Publication type:

Article

Pretata: predicting TATA binding proteins with novel features and dimensionality reduction strategy.

Published in:

BMC Systems Biology, 2016, v. 10, p. 401, doi. 10.1186/s12918-016-0353-5

By:

Quan Zou;
Shixiang Wan;
Ying Ju;
Jijun Tang;
Xiangxiang Zeng

Publication type:

Article

Interspecies gene function prediction using semantic similarity.

Published in:

BMC Systems Biology, 2016, v. 10, p. 495, doi. 10.1186/s12918-016-0361-5

By:

Guoxian Yu;
Wei Luo;
Guangyuan Fu;
Jun Wang

Publication type:

Article

The extraction of drug-disease correlations based on module distance in incomplete human interactome.

Published in:

BMC Systems Biology, 2016, v. 10, p. 531, doi. 10.1186/s12918-016-0364-2

By:

Liang Yu;
Bingbo Wang;
Xiaoke Ma;
Lin Gao

Publication type:

Article

High-dimensional omics data analysis using a variable screening protocol with prior knowledge integration (SKI).

Published in:

BMC Systems Biology, 2016, v. 10, p. 457, doi. 10.1186/s12918-016-0358-0

By:

Cong Liu;
Jianping Jiang;
Jianlei Gu;
Zhangsheng Yu;
Tao Wang;
Hui Lu

Publication type:

Article

Subtype-specific CpG island shore methylation and mutation patterns in 30 breast cancer cell lines.

Published in:

BMC Systems Biology, 2016, v. 10, p. 433, doi. 10.1186/s12918-016-0356-2

By:

Heejoon Chae;
Sangseon Lee;
Nephew, Kenneth P.;
Sun Kim

Publication type:

Article

Sig2GRN: a software tool linking signaling pathway with gene regulatory network for dynamic simulation.

Published in:

2016

By:

Fan Zhang;
Runsheng Liu;
Jie Zheng

Publication type:

Product Review

Integrative analysis of methylation and transcriptional profiles to predict aging and construct aging specific cross-tissue networks.

Published in:

BMC Systems Biology, 2016, v. 10, p. 413, doi. 10.1186/s12918-016-0354-4

By:

Yin Wang;
Tao Huang;
Lu Xie;
Lei Liu

Publication type:

Article

Gene-microRNA network module analysis for ovarian cancer.

Published in:

BMC Systems Biology, 2016, v. 10, p. 445, doi. 10.1186/s12918-016-0357-1

By:

Shuqin Zhang;
Ng, Michael K.

Publication type:

Article

Identifying the missing proteins in human proteome by biological language model.

Published in:

BMC Systems Biology, 2016, v. 10, p. 393, doi. 10.1186/s12918-016-0352-6

By:

Qiwen Dong;
Kai Wang;
Xuan Liu

Publication type:

Article

Clustering and evolutionary analysis of small RNAs identify regulatory siRNA clusters induced under drought stress in rice.

Published in:

BMC Systems Biology, 2016, v. 10, p. 423, doi. 10.1186/s12918-016-0355-3

By:

Inuk Jung;
Hongryul Ahn;
Seon-Ju Shin;
Jukon Kim;
Hawk-Bin Kwon;
Woosuk Jung;
Sun Kim

Publication type:

Article

A novel index of protein-protein interface propensity improves interface residue recognition.

Published in:

BMC Systems Biology, 2016, v. 10, p. 381, doi. 10.1186/s12918-016-0351-7

By:

Wentao Dai;
Aiping Wu;
Liangxiao Ma;
Yi-Xue Li;
Taijiao Jiang;
Yuan-Yuan Li

Publication type:

Article

A computational method for the investigation of multistable systems and its application to genetic switches.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0375-z

By:

Leon, Miriam;
Woods, Mae L.;
Fedorec, Alex J. H.;
Barnes, Chris P.

Publication type:

Article

Small RNA profiles in soybean primary root tips under water deficit.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0374-0

By:

Yun Zheng;
Hivrale, Vandana;
Xiaotuo Zhang;
Valliyodan, Babu;
Lelandais-Brière, Christine;
Farmer, Andrew D.;
May, Gregory D.;
Crespi, Martin;
Nguyen, Henry T.;
Sunkar, Ramanjulu

Publication type:

Article

DMirNet: Inferring direct microRNA-mRNA association networks.

Published in:

2016

By:

Minsu Lee;
HyungJune Lee

Publication type:

Product Review

Superpixel-based segmentation of muscle fibers in multi-channel microscopy.

Published in:

BMC Systems Biology, 2016, v. 10, p. 39, doi. 10.1186/s12918-016-0372-2

By:

Nguyen, Binh P.;
Heemskerk, Hans;
So, Peter T. C.;
Tucker-Kellogg, Lisa

Publication type:

Article

A physarum-inspired prize-collecting steiner tree approach to identify subnetworks for drug repositioning.

Published in:

BMC Systems Biology, 2016, v. 10, p. 25, doi. 10.1186/s12918-016-0371-3

By:

Sun, Yahui;
Hameed, Pathima Nusrath;
Verspoor, Karin;
Halgamuge, Saman

Publication type:

Article

Integrated single cell data analysis reveals cell specific networks and novel coactivation markers.

Published in:

BMC Systems Biology, 2016, v. 10, p. 11, doi. 10.1186/s12918-016-0370-4

By:

Ghazanfar, Shila;
Bisogni, Adam J.;
Ormerod, John T.;
Lin, David M.;
Yang, Jean Y. H.

Publication type:

Article

The quality of metabolic pathway resources depends on initial enzymatic function assignments: a case for maize.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0369-x

By:

Walsh, Jesse R.;
Schaeffer, Mary L.;
Peifen Zhang;
Rhee, Seung Y.;
Dickerson, Julie A.;
Sen, Taner Z.

Publication type:

Article

Unearthing the transition rates between photoreceptor conformers.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0368-y

By:

Smith, Robert W.;
Helwig, Britta;
Westphal, Adrie H.;
Pel, Eran;
Hörner, Maximilian;
Beyer, Hannes M.;
Samodelov, Sophia L.;
Weber, Wilfried;
Zurbriggen, Matias D.;
Borst, Jan Willem;
Fleck, Christian

Publication type:

Article

SParSE++: improved event-based stochastic parameter search.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0367-z

By:

Roh, Min K.;
Daigle Jr., Bernie J.

Publication type:

Article

Mathematical model on Alzheimer's disease.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0348-2

By:

Wenrui Hao;
Friedman, Avner

Publication type:

Article

Integrative transcriptome network analysis of iPSC-derived neurons from schizophrenia and schizoaffective disorder patients with 22q11.2 deletion.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0366-0

By:

Mingyan Lin;
Pedrosa, Erika;
Hrabovsky, Anastasia;
Jian Chen;
Puliafito, Benjamin R.;
Gilbert, Stephanie R.;
Deyou Zheng;
Lachman, Herbert M.

Publication type:

Article

Untargeted metabolomics unravels functionalities of phosphorylation sites in Saccharomyces cerevisiae.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0350-8

By:

Nakic, Zrinka Raguz;
Seisenbacher, Gerhard;
Posas, Francesc;
Sauer, Uwe

Publication type:

Article

DGCA: A comprehensive R package for Differential Gene Correlation Analysis.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0349-1

By:

McKenzie, Andrew T.;
Katsyv, Igor;
Won-Min Song;
Minghui Wang;
Bin Zhang

Publication type:

Article

A method for automated pathogenic content estimation with application to rheumatoid arthritis.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0344-6

By:

Xiaoyuan Zhou;
Nardini, Christine

Publication type:

Article

In silico identification of essential proteins in Corynebacterium pseudotuberculosis based on protein-protein interaction networks.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0346-4

By:

Folador, Edson Luiz;
de Carvalho, Paulo Vinícius Sanches Daltro;
Silva, Wanderson Marques;
Ferreira, Rafaela Salgado;
Silva, Artur;
Gromiha, Michael;
Ghosh, Preetam;
Barh, Debmalya;
Azevedo, Vasco;
Röttger, Richard

Publication type:

Article

In silico metabolic network analysis of Arabidopsis leaves.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0347-3

By:

Beckers, Veronique;
Dersch, Lisa Maria;
Lotz, Katrin;
Melzer, Guido;
Bläsing, Oliver Ernst;
Fuchs, Regine;
Ehrhardt, Thomas;
Wittmann, Christoph

Publication type:

Article

Combining laboratory and mathematical models to infer mechanisms underlying kinetic changes in macrophage susceptibility to an RNA virus.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0345-5

By:

Doeschl-Wilson, Andrea;
Wilson, Alison;
Nielsen, Jens;
Nauwynck, Hans;
Archibald, Alan;
Ait-Ali, Tahar

Publication type:

Article

The potential for non-adaptive origins of evolutionary innovations in central carbon metabolism.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0343-7

By:

Hosseini, Sayed-Rzgar;
Wagner, Andreas

Publication type:

Article

Generalized method of moments for estimating parameters of stochastic reaction networks.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0342-8

By:

Lück, Alexander;
Wolf, Verena

Publication type:

Article

Erratum to: A novel mathematical model of ATM/p53/NF-κB pathways points to the importance of the DDR switch-off mechanisms.

Published in:: 2016
Publication type:: Correction Notice

BCM: toolkit for Bayesian analysis of Computational Models using samplers.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0339-3

By:

Thijssen, Bram;
Dijkstra, Tjeerd M. H.;
Heskes, Tom;
Wessels, Lodewyk F. A.

Publication type:

Article

Attractor landscape analysis of colorectal tumorigenesis and its reversion.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0341-9

By:

Sung-Hwan Cho;
Sang-Min Park;
Ho-Sung Lee;
Hwang-Yeol Lee;
Kwang-Hyun Cho

Publication type:

Article

An efficient algorithm for identifying primary phenotype attractors of a large-scale Boolean network.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0338-4

By:

Sang-Mok Choo;
Kwang-Hyun Cho

Publication type:

Article

The effect of inhibition of PP1 and TNFα signaling on pathogenesis of SARS coronavirus.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0336-6

By:

McDermott, Jason E.;
Mitchell, Hugh D.;
Gralinski, Lisa E.;
Eisfeld, Amie J.;
Josset, Laurence;
Bankhead III, Armand;
Neumann, Gabriele;
Tilton, Susan C.;
Schäfer, Alexandra;
Li, Chengjun;
Fan, Shufang;
McWeeney, Shannon;
Baric, Ralph S.;
Katze, Michael G.;
Waters, Katrina M.

Publication type:

Article

Identification of control targets in Boolean molecular network models via computational algebra.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0332-x

By:

Murrugarra, David;
Veliz-Cuba, Alan;
Aguilar, Boris;
Laubenbacher, Reinhard

Publication type:

Article

Quantifying differences in cell line population dynamics using CellPD.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0337-5

By:

Juarez, Edwin F.;
Lau, Roy;
Friedman, Samuel H.;
Ghaffarizadeh, Ahmadreza;
Jonckheere, Edmond;
Agus, David B.;
Mumenthaler, Shannon M.;
Macklin, Paul

Publication type:

Article

Identifying model error in metabolic flux analysis - a generalized least squares approach.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0335-7

By:

Sokolenko, Stanislav;
Quattrociocchi, Marco;
Aucoin, Marc G.

Publication type:

Article

Metabolic modeling of a chronic wound biofilm consortium predicts spatial partitioning of bacterial species.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0334-8

By:

Phalak, Poonam;
Jin Chen;
Carlson, Ross P.;
Henson, Michael A.

Publication type:

Article

Information theoretic approaches for inference of biological networks from continuous-valued data.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0331-y

By:

Budden, David M.;
Crampin, Edmund J.

Publication type:

Article

Identification of key player genes in gene regulatory networks.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0329-5

By:

Nazarieh, Maryam;
Wiese, Andreas;
Will, Thorsten;
Hamed, Mohamed;
Helms, Volkhard

Publication type:

Article

The Arabidopsis phytohormone crosstalk network involves a consecutive metabolic route and circular control units of transcription factors that regulate enzyme-encoding genes.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0333-9

By:

Xun Yue;
Xing Guo Li;
Xin-Qi Gao;
Xiang Yu Zhao;
Yu Xiu Dong;
Chao Zhou

Publication type:

Article

Analyzing negative feedback using a synthetic gene network expressed in the Drosophila melanogaster embryo.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0330-z

By:

Jermusyk, Ashley A.;
Murphy, Nicholas P.;
Reeves, Gregory T.

Publication type:

Article

Dynamic optimization of biological networks under parametric uncertainty.

Published in:

BMC Systems Biology, 2016, v. 10, p. 1, doi. 10.1186/s12918-016-0328-6

By:

Nimmegeers, Philippe;
Telen, Dries;
Logist, Filip;
Van Impe, Jan

Publication type:

Article

A novel integrated gene coexpression analysis approach reveals a prognostic three-transcription-factor signature for glioma molecular subtypes.

Published in:

BMC Systems Biology, 2016, v. 107, p. 369, doi. 10.1186/s12918-016-0315-y

By:

Sujuan Wu;
Junyi Li;
Mushui Cao;
Jing Yang;
Yi-Xue Li;
Yuan-Yuan Li

Publication type:

Article

State feedback control design for Boolean networks.

Published in:

BMC Systems Biology, 2016, v. 107, p. 357, doi. 10.1186/s12918-016-0314-z

By:

Rongjie Liu;
Chunjiang Qian;
Shuqian Liu;
Yu-Fang Jin

Publication type:

Article