Stop the war!Остановите войну!
for scientists:
default search action
Google
Google Scholar
Semantic Scholar
Internet Archive Scholar
CiteSeerX
ORCIDBMC Bioinformatics, Volume 18 - Supplements
Volume 18, Number S-1, January 2017
- Zakhar S. Mustafin, Sergey A. Lashin
, Yury G. Matushkin, Konstantin V. Gunbin, Dmitry A. Afonnikov:
Orthoscape: a cytoscape application for grouping and visualization KEGG based gene networks by taxonomy and homology principles. 28:1-28:9
- Kuang-Lim Chan, Rozana Rosli, Tatiana V. Tatarinova, Michael Hogan, Mohd Firdaus Raih, Eng-Ti Leslie Low:
Seqping: gene prediction pipeline for plant genomes using self-training gene models and transcriptomic data. 29:1-29:7
Volume 18, Number S-2, February 2017
- Paul Murray, Fintan McGee, Angus Graeme Forbes:
A taxonomy of visualization tasks for the analysis of biological pathway data. 21:1-21:13 - Katarína Furmanová, Miroslava Jaresová, Jan Byska, Adam Jurcík, Július Parulek, Helwig Hauser, Barbora Kozlíková:
Interactive exploration of ligand transportation through protein tunnels. 22:1-22:16 - Lucia Kocincová, Miroslava Jaresová, Jan Byska, Július Parulek, Helwig Hauser, Barbora Kozlíková:
Comparative visualization of protein secondary structures. 23:1-23:12 - Chihua Ma, Timothy Luciani, Anna Terebus, Jie Liang, G. Elisabeta Marai:
PRODIGEN: visualizing the probability landscape of stochastic gene regulatory networks in state and time space. 24:1-24:14 - Marwan Abdellah, Ahmet Bilgili, Stefan Eilemann, Julian C. Shillcock, Henry Markram, Felix Schürmann:
Bio-physically plausible visualization of highly scattering fluorescent neocortical models for in silico experimentation. 62:1-62:14 - Sophie Engle, Sean Whalen, Alark Joshi, Katherine S. Pollard:
Unboxing cluster heatmaps. 63:1-63:15 - Rensu P. Theart, Ben Loos, Thomas R. Niesler:
Virtual reality assisted microscopy data visualization and colocalization analysis. 64:1-64:16 - Viktor Vad, Douglas Cedrim, Wolfgang Busch, Peter Filzmoser, Ivan Viola:
Generalized box-plot for root growth ensembles. 65:1-65:15
Volume 18, Number S-3, March 2017
- Chuanchao Zhang, Juan Liu, Qianqian Shi, Tao Zeng, Luonan Chen:
Comparative network stratification analysis for identifying functional interpretable network biomarkers. 1-12 - Weiyun Ma, Dmitriy Smirnov, Ran Libeskind-Hadas:
DTL reconciliation repair. 13-21 - Yuchao Xia, Yun Liu, Minghua Deng, Ruibin Xi:
Pysim-sv: a package for simulating structural variation data with GC-biases. 23-30 - Wei-Sheng Tien, Jun-Hong Chen, Kun-Pin Wu:
SheddomeDB: the ectodomain shedding database for membrane-bound shed markers. 31-48 - Jarno Alanko, Fabio Cunial, Djamal Belazzougui, Veli Mäkinen:
A framework for space-efficient read clustering in metagenomic samples. 49-60 - Junpeng Zhang, Thuc Duy Le, Lin Liu, Jiuyong Li:
Identifying miRNA sponge modules using biclustering and regulatory scores. 61-72 - Lei Sun, Jun Wang, Jinmao Wei:
AVC: Selecting discriminative features on basis of AUC by maximizing variable complementarity. 73-89 - Shifu Chen, Tanxiao Huang, Yanqing Zhou, Yue Han, Mingyan Xu, Jia Gu:
AfterQC: automatic filtering, trimming, error removing and quality control for fastq data. 91-100 - Chandana Tennakoon, Wing-Kin Sung:
BATVI: Fast, sensitive and accurate detection of virus integrations. 101-111 - Vikas Bansal:
A computational method for estimating the PCR duplication rate in DNA and RNA-seq experiments. 113-123 - Shun-Long Weng, Kai-Yao Huang, Fergie Joanda Kaunang, Chien-Hsun Huang, Hui-Ju Kao, Tzu-Hao Chang, Hsin-Yao Wang, Jang-Jih Lu, Tzong-Yi Lee:
Investigation and identification of protein carbonylation sites based on position-specific amino acid composition and physicochemical features. 125-141 - Mengge Zhang, Lianping Yang, Jie Ren, Nathan A. Ahlgren, Jed A. Fuhrman, Fengzhu Sun:
Prediction of virus-host infectious association by supervised learning methods. 143-154 - Yinglei Lai:
A statistical method for the conservative adjustment of false discovery rate (q-value). 155-163 - Hai'e Gong, Haicang Zhang, Jianwei Zhu, Chao Wang, Shiwei Sun, Wei-Mou Zheng, Dongbo Bu:
Improving prediction of burial state of residues by exploiting correlation among residues. 165-175
Volume 18, Number S-4, March 2017
- Byung-Jun Yoon, Xiaoning Qian, Tamer Kahveci:
Selected research articles from the 2016 International Workshop on Computational Network Biology: Modeling, Analysis, and Control (CNB-MAC). 1-3 - Osama A. Arshad, Aniruddha Datta:
Towards targeted combinatorial therapy design for the treatment of castration-resistant prostate cancer. 5-15 - Kevin Matlock, Noah Berlow, Charles Keller, Ranadip Pal:
Combination therapy design for maximizing sensitivity and minimizing toxicity. 17-29 - Hamed Hassani-Saadi, Reza Sameni, Amin Zollanvari:
Interpretive time-frequency analysis of genomic sequences. 31-39 - Arzu Burcak Sonmez, Tolga Can:
Comparison of tissue/disease specific integrated networks using directed graphlet signatures. 41-50 - Haijing Jin, Ying-Wooi Wan, Zhandong Liu:
Comprehensive evaluation of RNA-seq quantification methods for linearity. 51-59
Volume 18, Number S-5, March 2017
- Paolo Romano, Ralf Hofestädt, Matthias Lange, Domenica D'Elia:
The joint NETTAB/Integrative Bioinformatics 2015 Meeting: aims, topics and outcomes. 1-5 - Raquel Dias, Bryan Kolaczkowski:
Improving the accuracy of high-throughput protein-protein affinity prediction may require better training data. 7-18 - Ashwini Jeggari, Andrey Alexeyenko:
NEArender: an R package for functional interpretation of 'omics' data via network enrichment analysis. 19-28 - Umberto Perron, Paolo Provero, Ivan Molineris:
In silico prediction of lncRNA function using tissue specific and evolutionary conserved expression. 29-39 - Francesca Mulas, Amy Li, David H. Sherr, Stefano Monti:
Network-based analysis of transcriptional profiles from chemical perturbations experiments. 41-55 - Simona De Summa, Giovanni Malerba, Rosamaria Pinto, Antonio Mori, Vladan Mijatovic, Stefania Tommasi:
GATK hard filtering: tunable parameters to improve variant calling for next generation sequencing targeted gene panel data. 57-65
Volume 18, Number 6, June 2017
- Guohao Zhang, Peter V. Kochunov, L. Elliot Hong, Sinead Kelly, Christopher D. Whelan, Neda Jahanshad, Paul M. Thompson, Jian Chen:
ENIGMA-Viewer: interactive visualization strategies for conveying effect sizes in meta-analysis. 17-29 - Marianna Milano, Pietro Hiram Guzzi, Olga Tymofiyeva, Duan Xu, Christopher P. Hess, Pierangelo Veltri, Mario Cannataro:
An extensive assessment of network alignment algorithms for comparison of brain connectomes. 31-45 - Sugeerth Murugesan, Kristofer E. Bouchard, Edward F. Chang, Max Dougherty, Bernd Hamann, Gunther H. Weber:
Multi-scale visual analysis of time-varying electrocorticography data via clustering of brain regions. 236:1-236:15
Volume 18, Number 7, May 2017
- Yoon Hyeok Lee, Hojae Choi, Seongyong Park, Boah Lee, Gwan-Su Yi:
Drug repositioning for enzyme modulator based on human metabolite-likeness. 15-24 - Eunyoung Kim, Hojung Nam:
Prediction models for drug-induced hepatotoxicity by using weighted molecular fingerprints. 25-34 - Baeksoo Kim, Jihoon Jo, Jonghyun Han, Chungoo Park, Hyunju Lee:
In silico re-identification of properties of drug target proteins. 35-44 - Go Eun Heo, Keun Young Kang, Min Song, Jeong-Hoon Lee:
Analyzing the field of bioinformatics with the multi-faceted topic modeling technique. 45-57 - Judita Preiss, Mark Stevenson:
Quantifying and filtering knowledge generated by literature based discovery. 59-67 - Hai J. Tran, Gil Speyer, Jeff Kiefer, Seungchan Kim:
Contextualization of drug-mediator relations using evidence networks. 69-78 - Kiseong Kim, Sangyeon Lee, Doheon Lee, Kwang Hyung Lee:
Coupling effects on turning points of infectious diseases epidemics in scale-free networks. 79-88 - Namshik Han, Harry Noyes, Andy Brass:
TIGERi: modeling and visualizing the responses to perturbation of a transcription factor network. 260:1-260:13
Volume 18, Number 8, June 2017
- Sharma V. Thankachan, Sriram P. Chockalingam, Yongchao Liu, Ambujam Krishnan, Srinivas Aluru:
A greedy alignment-free distance estimator for phylogenetic inference. 238:1-238:8 - Trevor Cickovski, Eli Peake, Vanessa Aguiar-Pulido, Giri Narasimhan:
ATria: a novel centrality algorithm applied to biological networks. 239:1-239:10 - Ekaterina Gerasimov, Alex Zelikovsky, Ion I. Mandoiu, Yurij Ionov:
Identification of cancer-specific motifs in mimotope profiles of serum antibody repertoire. 244:1-244:6 - Sunny Raj, Faraz Hussain, Zubir Husein, Neslisah Torosdagli, Damla Turgut, Narsingh Deo, Sumanta N. Pattanaik, Chung-Che Jeff Chang, Sumit Kumar Jha:
A theorem proving approach for automatically synthesizing visualizations of flow cytometry data. 245:1-245:11 - Thomas Olson, Rahul Singh:
Predicting anatomic therapeutic chemical classification codes using tiered learning. 266:1-266:13
Volume 18, Number S-10, September 2017
- Divya Tej Sowpati, Surabhi Srivastava, Jyotsna Dhawan, Rakesh K. Mishra:
C-State: an interactive web app for simultaneous multi-gene visualization and comparative epigenetic pattern search. 13-24 - Henry Heberle, Marcelo Falsarella Carazzolle, Guilherme P. Telles, Gabriela Meirelles, Rosane Minghim:
CellNetVis: a web tool for visualization of biological networks using force-directed layout constrained by cellular components. 25-37 - Marwan Abdellah, Juan Hernando, Nicolas Antille, Stefan Eilemann, Henry Markram, Felix Schürmann:
Reconstruction and visualization of large-scale volumetric models of neocortical circuits for physically-plausible in silico optical studies. 39-50 - Alexandre V. Fassio, Pedro M. Martins, Samuel da S. Guimarães, Sócrates S. A. Junior, Vagner S. Ribeiro, Raquel Cardoso de Melo Minardi, Sabrina de Azevedo Silveira:
Vermont: a multi-perspective visual interactive platform for mutational analysis. 51-63 - Lan H. Nguyen, Susan P. Holmes:
Bayesian Unidimensional Scaling for visualizing uncertainty in high dimensional datasets with latent ordering of observations. 65-79 - Chen He, Luana Micallef, ZiaurRehman Tanoli, Samuel Kaski, Tero Aittokallio, Giulio Jacucci:
MediSyn: uncertainty-aware visualization of multiple biomedical datasets to support drug treatment selection. 393:1-393:12
Volume 18, Number S-11, October 2017
- Jonathan D. Young, Chunhui Cai, Xinghua Lu:
Unsupervised deep learning reveals prognostically relevant subtypes of glioblastoma. 5-17 - Santosh Philips, Heng-Yi Wu, Lang Li:
Using machine learning algorithms to identify genes essential for cell survival. 19-29 - Haixu Tang, Etienne Nzabarushimana:
STRScan: targeted profiling of short tandem repeats in whole-genome sequencing data. 31-36 - Yongsheng Bai, Jeff Kinne, Lizhong Ding, Ethan Rath, Aaron Cox, Siva Dharman Naidu:
Identification of genome-wide non-canonical spliced regions and analysis of biological functions for spliced sequences using Read-Split-Fly. 37-48 - Leandro de Araújo Lima, Kai Wang:
PennCNV in whole-genome sequencing data. 49-56 - Yuanhang Liu, Ping Wu, Jingqi Zhou, Teresa L. Johnson-Pais, Zhao Lai, Wasim H. Chowdhury, Ronald Rodriguez, Yidong Chen:
XBSeq2: a fast and accurate quantification of differential expression and differential polyadenylation. 57-65 - Yuan-De Tan, Xiang H. F. Zhang, Qianxing Mo:
New statistical methods for estimation of recombination fractions in F2 population. 67-78 - Haodi Li, Qingcai Chen, Buzhou Tang, Xiaolong Wang, Hua Xu, Baohua Wang, Dong Huang:
CNN-based ranking for biomedical entity normalization. 79-86 - Xiaomei Han, Jenny Wang, Jie Wang, Sheng Liu, Jianfei Hu, Heng Zhu, Jiang Qian:
ScaPD: a database for human scaffold proteins. 87-91 - Zhandong Liu, W. Jim Zheng, Genevera I. Allen, Yin Liu, Jianhua Ruan, Zhongming Zhao:
The International Conference on Intelligent Biology and Medicine (ICIBM) 2016: from big data to big analytical tools. 405:1-405:3
Volume 18, Number S-12, October 2017
- Xiaoxiong Zheng, Yang Wang, Kai Tian, Jiaogen Zhou, Jihong Guan, Libo Luo, Shuigeng Zhou:
Fusing multiple protein-protein similarity networks to effectively predict lncRNA-protein interactions. 11-18 - Bin Xu, Yang Wang, Zewei Wang, Jiaogen Zhou, Shuigeng Zhou, Jihong Guan:
An effective approach to detecting both small and large complexes from protein-protein interaction networks. 19-28 - Colleen M. Bosworth, Sneha Grandhi, Meetha P. Gould, Thomas LaFramboise:
Detection and quantification of mitochondrial DNA deletions from next-generation sequence data. 29-36 - Wooyoung Kim, Lynnette Haukap:
NemoProfile as an efficient approach to network motif analysis with instance collection. 37-45 - Felix Kühnl, Peter F. Stadler, Sebastian Will:
Tractable RNA-ligand interaction kinetics. 47-55 - Michal Startek, Jakub Nogly, Agnieszka Gromadka, Dariusz Grzebelus, Anna Gambin:
Inferring transposons activity chronology by TRANScendence - TEs database and de-novo mining tool. 57-66 - Dinghua Li, Yukun Huang, Henry C. M. Leung, Ruibang Luo, Hing-Fung Ting, Tak Wah Lam:
MegaGTA: a sensitive and accurate metagenomic gene-targeted assembler using iterative de Bruijn graphs. 67-75 - Prapaporn Techa-angkoon, Yanni Sun, Jikai Lei:
A sensitive short read homology search tool for paired-end read sequencing data. 77-89 - Min Li, Ping Huang, Xiaodong Yan, Jianxin Wang, Yi Pan, Fang-Xiang Wu:
VAliBS: a visual aligner for bisulfite sequences. 91-98 - Hongda Bu, Yanglan Gan, Yang Wang, Shuigeng Zhou, Jihong Guan:
A new method for enhancer prediction based on deep belief network. 99-105 - Matthew Hayes, Jeremy S. Pearson:
Detecting large deletions at base pair level by combining split read and paired read data. 107-113 - Ghada Hany Badr, Haifa A. Al-aqel:
DCJ-RNA - double cut and join for RNA secondary structures. 115-131 - Jian-Yu Shi, Jia-Xin Li, Ke Gao, Peng Lei, Siu-Ming Yiu:
Predicting combinative drug pairs towards realistic screening via integrating heterogeneous features. 409:1-409:9
Volume 18, Number S-13, November 2017
- Ye-tian Fan, Xiwei Tang, Xiaohua Hu, Wei Wu, Qing Ping:
Prediction of essential proteins based on subcellular localization and gene expression correlation. 13-21 - Le Ou-Yang, Hong Yan, Xiao-Fei Zhang:
A multi-network clustering method for detecting protein complexes from multiple heterogeneous networks. 23-34 - Xu Min, Wanwen Zeng, Shengquan Chen, Ning Chen, Ting Chen, Rui Jiang:
Predicting enhancers with deep convolutional neural networks. 35-46 - Yongjun Tang, Diwei Liu, Zixiang Wang, Ting Wen, Lei Deng:
A boosting approach for prediction of protein-RNA binding residues. 47-58 - Wen Zhang, Xiaopeng Zhu, Yu Fu, Junko Tsuji, Zhiping Weng:
Predicting human splicing branchpoints by combining sequence-derived features and multi-label learning methods. 464:1-464:11
Volume 18, Number 14, December 2017
- Cory B. Giles, Chase A. Brown, Michael Ripperger, Zane Dennis, Xiavan Roopnarinesingh, Hunter Porter, Aleksandra Perz, Jonathan D. Wren:
ALE: automated label extraction from GEO metadata. 7-16 - Zongliang Yue, Itika Arora, Eric Y. Zhang, Vincent Laufer, S. Louis Bridges, Jake Y. Chen:
Repositioning drugs by targeting network modules: a Parkinson's disease case study. 17-30 - Dan Li, Mary Qu Yang:
Identification and characterization of conserved lncRNAs in human and rat brain. 31-38 - Keqin Liu, Li He, Zhichao Liu, Junmei Xu, Yuan Liu, Qifan Kuang, Zhining Wen, Menglong Li:
Mutation status coupled with RNA-sequencing data can efficiently identify important non-significantly mutated genes serving as diagnostic biomarkers of endometrial cancer. 39-49 - Recep Erol, Mustafa Bayraktar, Sinan Kockara, Sertan Kaya, Tansel Halic:
Texture based skin lesion abruptness quantification to detect malignancy. 51-60 - Shahin Boluki, Mohammad Shahrokh Esfahani, Xiaoning Qian, Edward R. Dougherty:
Incorporating biological prior knowledge for Bayesian learning via maximal knowledge-driven information priors. 61-80 - Se-Ran Jun, Trudy M. Wassenaar, Visanu Wanchai, Preecha Patumcharoenpol, Intawat Nookaew, David Wayne Ussery:
Suggested mechanisms for Zika virus causing microcephaly: what do the genomes tell us? 81-92 - Mohsen Sharifi, Dan A. Buzatu, Stephen Harris, Jon G. Wilkes:
Development of models for predicting Torsade de Pointes cardiac arrhythmias using perceptron neural networks. 93-102 - Chun-Chi Chen, Xiaoning Qian, Byung-Jun Yoon:
Effective computational detection of piRNAs using n-gram models and support vector machine. 103-109 - Ethan Rath, Stephanie Pitman, Kyu Hong Cho, Yongsheng Bai:
Identification of streptococcal small RNAs that are putative targets of RNase III through bioinformatics analysis of RNA sequencing data. 111-120 - Andrew S. Maxwell, Runzhi Li, Bei Yang, Heng Weng, Aihua Ou, Huixiao Hong, Zhaoxian Zhou, Ping Gong, Chaoyang Zhang:
Deep learning architectures for multi-label classification of intelligent health risk prediction. 121-131 - Hyundoo Jeong, Xiaoning Qian, Byung-Jun Yoon:
CUFID-query: accurate network querying through random walk based network flow estimation. 133-146 - Visanu Wanchai, Preecha Patumcharoenpol, Intawat Nookaew, David Wayne Ussery:
dBBQs: dataBase of Bacterial Quality scores. 147-153 - Quang Tran, Diem-Trang Pham, Vinhthuy Phan:
Using 16S rRNA gene as marker to detect unknown bacteria in microbial communities. 155-161 - Mike Mikailov, Fu-Jyh Luo, Stuart Barkley, Lohit Valleru, Stephen Whitney, Zhichao Liu, Shraddha Thakkar, Weida Tong, Nicholas Petrick:
Scaling bioinformatics applications on HPC. 163-169 - Jonathan D. Wren, Mikhail G. Dozmorov, Inimary T. Toby, Bindu Nanduri, Ramin Homayouni, Prashanti Manda, Shraddha Thakkar:
Proceedings of the 2017 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) Conference. 498:1-498:5
Volume 18, Number 15, December 2017
- Chunchun Zhao, Sartaj Sahni:
Cache and energy efficient algorithms for Nussinov's RNA Folding. 15-30 - Nurit Haspel, Dong Luo, Eduardo Gonzalez:
Detecting intermediate protein conformations using algebraic topology. 31-39 - Sergey Aganezov Jr., Max A. Alekseyev:
CAMSA: a tool for comparative analysis and merging of scaffold assemblies. 41-50 - Osamu Maruyama, Yuki Kuwahara:
RocSampler: regularizing overlapping protein complexes in protein-protein interaction networks. 51-62 - Jan Jelínek, Petr Skoda, David Hoksza:
Utilizing knowledge base of amino acids structural neighborhoods to predict protein-protein interaction sites. 63-72 - Ning Yu, Zeng Yu, Yi Pan:
A deep learning method for lincRNA detection using auto-encoder algorithm. 73-81
Volume 18, Number 16, December 2017
- Ari Hardianto, Muhammad Yusuf, Fei Liu, Shoba Ranganathan:
Exploration of charge states of balanol analogues acting as ATP-competitive inhibitors in kinases. 19-30 - Ching-Yu Yen, Jian-Cheng Lin, Kun-Tze Chen, Chin Lung Lu:
R3D-BLAST2: an improved search tool for similar RNA 3D substructures. 31-38 - Nikhil Pathak, Mei-Ling Lai, Wen-Yu Chen, Betty-Wu Hsieh, Guann-Yi Yu, Jinn-Moon Yang:
Pharmacophore anchor models of flaviviral NS3 proteases lead to drug repurposing for DENV infection. 39-51 - Yahui Sun, Chenkai Ma, Saman K. Halgamuge:
The node-weighted Steiner tree approach to identify elements of cancer-related signaling pathways. 53-65 - Jiajie Peng, Honggang Wang, Junya Lu, Weiwei Hui, Yadong Wang, Xuequn Shang:
Identifying term relations cross different gene ontology categories. 67-74 - Kyoungyeul Lee, Minho Lee, Dongsup Kim:
Utilizing random Forest QSAR models with optimized parameters for target identification and its application to target-fishing server. 75-86 - Marzio Pennisi, Giulia Russo, Silvia Ravalli, Francesco Pappalardo:
Combining agent based-models and virtual screening techniques to predict the best citrus-deriv