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Volume 21-S, Number 1, December 2020 Selected articles from the 8th IEEE International Conference on Computational Advances in Bio and medical Sciences (ICCABS 2018):bioinformatics
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journals/bmcbi/Ruiz-PerezGMMN20 share record
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Daniel Ruiz-Perez Haibin Guan Purnima Madhivanan Kalai Mathee Giri Narasimhan So you think you can PLS-DA? 2 share record
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Chunchun Zhao Sartaj Sahni Linear space string correction algorithm using the Damerau-Levenshtein distance. 4 export record
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Nasrin Akhter Gopinath Chennupati Hristo N. Djidjev Amarda Shehu Decoy selection for protein structure prediction via extreme gradient boosting and ranking. 189 export record
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Dina Abdelhafiz Jinbo Bi Reda Ammar Clifford Yang Sheida Nabavi Convolutional neural network for automated mass segmentation in mammography. 192 export record
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Simone Ciccolella Mauricio Soto Gomez Murray D. Patterson Gianluca Della Vedova Iman Hajirasouliha Paola Bonizzoni gpps: an ILP-based approach for inferring cancer progression with mutation losses from single cell data. 413 share record
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L. M. Hall Audrey E. Hendricks High-throughput analysis suggests differences in journal false discovery rate by subject area and impact factor but not open access status. 564 export record
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Federico Marini Jan Linke Harald Binder ideal: an R/Bioconductor package for interactive differential expression analysis. 565 share record
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Jieyue He Xinxing Yang Zhuo Gong Ibrahim Zamit Hybrid attentional memory network for computational drug repositioning. 566 export record
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Kai-Yao Huang Fang-Yu Hung Hui-Ju Kao Hui-Hsuan Lau Shun-Long Weng iDPGK: characterization and identification of lysine phosphoglycerylation sites based on sequence-based features. 568 export record
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Matt Velinder Dillon Lee Gabor Marth ped_draw: pedigree drawing with ease. 569 Volume 21-S, Number 2, March 2020 share record
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Xin Guan George Runger Li Liu Dynamic incorporation of prior knowledge from multiple domains in biomarker discovery. 77 export record
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journals/bmcbi/WangZXZYFZGW20 share record
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Yixuan Wang Xuanping Zhang Xiao Xiao Fei-Ran Zhang Xinxing Yan Xuan Feng Zhongmeng Zhao Yanfang Guan Jiayin Wang Accurately estimating the length distributions of genomic micro-satellites by tumor purity deconvolution. 82 export record
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Michael G. Sadovsky Masha Yu. Senashova Andrew Malyshev Amazing symmetrical clustering in chloroplast genomes. 83 export record
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Sara Nasiri Julien Helsper Matthias Jung Madjid Fathi DePicT Melanoma Deep-CLASS: a deep convolutional neural networks approach to classify skin lesion images. 84 export record
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Renzo Angles Mauricio Arenas-Salinas Roberto García José Antonio Reyes-Suárez Ehmke Pohl GSP4PDB: a web tool to visualize, search and explore protein-ligand structural patterns. 85 export record
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Hayman Saddik Riad Nasr Antonio Pinti Eric Watelain Ibrahim Fayad Rafic Baddoura Abdel-Jalil Berro Nathalie Al Rassy Eric Lespessailles Hechmi Toumi Rawad El Hage Sarcopenia negatively affects hip structure analysis variables in a group of Lebanese postmenopausal women. 86 export record
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Galina V. Zhikhareva Mikhail N. Kramm Oleg N. Bodin Ralf Seepold Natividad Martínez Madrid Anton I. Chernikov Yana A. Kupriyanova Natalija A. Zhuravleva Conversion from electrocardiosignals to equivalent electrical sources on heart surface. 87 export record
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Ayca Kirimtat Ondrej Krejcar Ali Selamat Enrique Herrera-Viedma FLIR vs SEEK thermal cameras in biomedicine: comparative diagnosis through infrared thermography. 88 export record
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Ana Cernea Juan Luis Fernández Martínez Enrique J. deAndrés-Galiana Francisco Javier Fernández-Ovies Óscar Álvarez-Machancoses Zulima Fernández-Muñiz Leorey N. Saligan Stephen T. Sonis Robust pathway sampling in phenotype prediction. Application to triple negative breast cancer. 89 export record
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Hynek Bachratý Katarína Bachratá Michal Chovanec Iveta Jancigová Monika Smiesková Kristína Kovalcíková Applications of machine learning for simulations of red blood cells in microfluidic devices. 90 export record
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Annarita Fanizzi Teresa M. A. Basile Liliana Losurdo Roberto Bellotti Ubaldo Bottigli Rosalba Dentamaro Vittorio Didonna Alfonso Fausto Raffaella Massafra Marco Moschetta Ondina Popescu Pasquale Tamborra Sabina Tangaro Daniele La Forgia A machine learning approach on multiscale texture analysis for breast microcalcification diagnosis. 91 export record
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Cristina Soguero-Ruíz Inmaculada Mora-Jiménez Miguel A. Mohedano-Munoz Manuel Rubio-Sánchez Pablo de Miguel-Bohoyo Alberto Sánchez Visually guided classification trees for analyzing chronic patients. 92 share record
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Ping Luo Li-Ping Tian Bolin Chen Qianghua Xiao Fang-Xiang Wu Ensemble disease gene prediction by clinical sample-based networks. 79 Volume 21-S, Number 3, April 2020 export record
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Munira Alballa Gregory Butler TooT-T: discrimination of transport proteins from non-transport proteins. 25 export record
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Niraj Thapa Meenal Chaudhari Sean McManus Kaushik Roy Robert H. Newman Hiroto Saigo Dukka B. KC DeepSuccinylSite: a deep learning based approach for protein succinylation site prediction. 63 export record
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Shonosuke Harada Hirotaka Akita Masashi Tsubaki Yukino Baba Ichigaku Takigawa Yoshihiro Yamanishi Hisashi Kashima Dual graph convolutional neural network for predicting chemical networks. 94 export record
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Yao-zhong Zhang Arda Akdemir Georg Tremmel Seiya Imoto Satoru Miyano Tetsuo Shibuya Rui Yamaguchi Nanopore basecalling from a perspective of instance segmentation. 136 Volume 21-S, Number 4, July 2020 Proceedings of the 16th Annual MCBIOS Conference:bioinformatics
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Tong Liu Zheng Wang MASS: predict the global qualities of individual protein models using random forests and novel statistical potentials. 246 export record
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Yongsheng Bai Steve Baker Kevin Exoo Xingqin Dai Lizhong Ding Naureen Aslam Khattak Hongtao Li Hannah Liu Xiaoming Liu MMiRNA-Viewer2 , a bioinformatics tool for visualizing functional annotation for MiRNA and MRNA pairs in a network. 247 export record
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Hafez Eslami Manoochehri Mehrdad Nourani Drug-target interaction prediction using semi-bipartite graph model and deep learning. 248 export record
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Adam Thrash Federico Hoffmann Andy D. Perkins Toward a more holistic method of genome assembly assessment. 249 export record
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Jonathan D. Wren Yongsheng Bai Zhaohui S. Qin Da Yan Ramin Homayouni Proceedings of the 2019 MidSouth Computational Biology and Bioinformatics Society (MCBIOS) Conference. 254 export record
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Mahmut Karakaya Recep E. Hacisoftaoglu Comparison of smartphone-based retinal imaging systems for diabetic retinopathy detection using deep learning. 259 Volume 21-S, Number 5, October 2020 Proceedings of the 13th International Workshop on Data and Text Mining in Biomedical Informatics (DTMBIO 2019)
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Myeong-Sang Yu Jingyu Lee Yongmin Lee Dokyun Na 2-D chemical structure image-based in silico model to predict agonist activity for androgen receptor. 245 share record
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Jaehyun Lee Doheon Lee Kwang Hyung Lee Literature mining for context-specific molecular relations using multimodal representations (COMMODAR). 250 share record
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Qing Xie Kyoung Min Yang Go Eun Heo Min Song Literature based discovery of alternative TCM medicine for adverse reactions to depression drugs. 405 export record
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Hyoung-Kyu Song Ebrahim Al Alkeem Jaewoong Yun Tae-Ho Kim Hyerin Yoo Dasom Heo Myungsu Chae Chan Yeob Yeun Correction to: Deep user identification model with multiple biometric data. 421 Volume 21-S, Number 6, November 2020 Selected articles from the 15th International Symposium on Bioinformatics Research and Applications (ISBRA-19):bioinformatics
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Jin Liu Guanxin Tan Wei Lan Jianxin Wang Identification of early mild cognitive impairment using multi-modal data and graph convolutional networks. 123 export record
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Jianqiang Li Guanghui Fu Yueda Chen Pengzhi Li Bo Liu Yan Pei Hui Feng A multi-label classification model for full slice brain computerised tomography image. 200 share record
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Lun Li Renmin Han Zhaotian Zhang Tiande Guo Zhiyong Liu Fa Zhang Compressed sensing improved iterative reconstruction-reprojection algorithm for electron tomography. 202 export record
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journals/bmcbi/ElhefnawyLWL20 share record
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Wessam Elhefnawy Min Li Jianxin Wang Yaohang Li DeepFrag-k: a fragment-based deep learning approach for protein fold recognition. 203 share record
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Yuanyuan Ma Junmin Zhao Yingjun Ma MHSNMF: multi-view hessian regularization based symmetric nonnegative matrix factorization for microbiome data analysis. 234 export record
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journals/bmcbi/AlexeevISKS20 share record
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Nikita Alexeev Javlon E. Isomurodov Vladimir Sukhov Gennady Korotkevich Alexey A. Sergushichev Markov chain Monte Carlo for active module identification problem. 261 export record
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Adrià Alcalà Ricardo Alberich Mercè Llabrés Francesc Rosselló Gabriel Valiente AligNet: alignment of protein-protein interaction networks. 265 share record
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Yi-Wei Liu Tz-Wei Hsu Che-Yu Chang Wen-Hung Liao Jia-Ming Chang GODoc: high-throughput protein function prediction using novel k-nearest-neighbor and voting algorithms. 276 share record
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Xinyu Hu Li Tang Linconghua Wang Fang-Xiang Wu Min Li MADA: a web service for analysing DNA methylation array data. 403 export record
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Sriram P. Chockalingam Jodh Pannu Sahar Hooshmand Sharma V. Thankachan Srinivas Aluru An alignment-free heuristic for fast sequence comparisons with applications to phylogeny reconstruction. 404 export record
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Mercè Llabrés Gabriel Riera Francesc Rosselló Gabriel Valiente Alignment of biological networks by integer linear programming: virus-host protein-protein interaction networks. 434 Volume 21-S, Number 7, May 2020 Volume 21-S, Number 8, September 2020 Italian Society of Bioinformatics (BITS):Annual Meeting 2019
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Antonino Fiannaca Laura La Paglia Massimo La Rosa Riccardo Rizzo Alfonso Urso miRTissuece : extending miRTissue web service with the analysis of ceRNA-ceRNA interactions. 199 export record
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journals/bmcbi/BertolazziBTC20 share record
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Giorgio Bertolazzi Panayiotis V. Benos Michele Tumminello Claudia Coronnello An improvement of ComiR algorithm for microRNA target prediction by exploiting coding region sequences of mRNAs. 201 export record
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Nicola Prezza Nadia Pisanti Marinella Sciortino Giovanna Rosone Variable-order reference-free variant discovery with the Burrows-Wheeler Transform. 260 export record
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journals/bmcbi/Barradas-Bautista20 share record
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Didier Barradas-Bautista Zhen Cao Luigi Cavallo Romina Oliva The CASP13-CAPRI targets as case studies to illustrate a novel scoring pipeline integrating CONSRANK with clustering and interface analyses. 262 export record
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Castrense Savojardo Pier Luigi Martelli Giacomo Tartari Rita Casadio Large-scale prediction and analysis of protein sub-mitochondrial localization with DeepMito. 266 export record
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Veronica Guerrini Felipe A. Louza Giovanna Rosone Metagenomic analysis through the extended Burrows-Wheeler transform. 299 export record
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Isabella Mendolia Salvatore Contino Ugo Perricone Edoardo Ardizzone Roberto Pirrone Convolutional architectures for virtual screening. 310 export record
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Alessandro Stefano Albert Comelli Valentina Bravatà Stefano Barone Igor Daskalovski Gaetano Savoca Maria Gabriella Sabini Massimo Ippolito Giorgio Russo A preliminary PET radiomics study of brain metastases using a fully automatic segmentation method. 325 share record
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Domenico Amato Giosuè Lo Bosco Riccardo Rizzo CORENup: a combination of convolutional and recurrent deep neural networks for nucleosome positioning identification. 326 export record
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journals/bmcbi/CastagnoPGPPPBS20 share record
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Paolo Castagno Simone Pernice Gianni Ghetti Massimiliano Povero Lorenzo Pradelli Daniela Paolotti Gianfranco Balbo Matteo Sereno Marco Beccuti A computational framework for modeling and studying pertussis epidemiology and vaccination. 344 export record
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Alfonso Urso Antonino Fiannaca Massimo La Rosa Laura La Paglia Giosuè Lo Bosco Riccardo Rizzo BITS2019: the sixteenth annual meeting of the Italian society of bioinformatics. 363 Volume 21-S, Number 9, December 2020 Selected Articles from the 20th International Conference on Bioinformatics & Computational Biology (BIOCOMP 2019)
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Casey A. Cole Caleb Parks Julian Rachele Homayoun Valafar Increased usability, algorithmic improvements and incorporation of data mining for structure calculation of proteins with REDCRAFT software package. 204 share record
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Qingyang Zhang Thy Dao A distance based multisample test for high-dimensional compositional data with applications to the human microbiome. 205 export record
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journals/bmcbi/MaharjanTCDM20 share record
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Mona Maharjan Raihanul Bari Tanvir Kamal Chowdhury Wenrui Duan Ananda Mohan Mondal Computational identification of biomarker genes for lung cancer considering treatment and non-treatment studies. 218 share record
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Zongtao Yu Yuanyuan Fu Junmei Ai Jicai Zhang Gang Huang Youping Deng Development of predicitve models to distinguish metals from non-metal toxicants, and individual metal from one another. 239 export record
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journals/bmcbi/RodriguezKMHD20 share record
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Rebecca M. Rodriguez Vedbar S. Khadka Mark Menor Brenda Y. Hernandez Youping Deng Tissue-associated microbial detection in cancer using human sequencing data. 523 share record
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Yuanyuan Fu Zhougui Ling Hamid R. Arabnia Youping Deng Current trend and development in bioinformatics research. 538 export record
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Fan Zhang Chris K. Deng Mu Wang Bin Deng Robert Barber Gang Huang Identification of novel alternative splicing biomarkers for breast cancer with LC/MS/MS and RNA-Seq. 541 Volume 21-S, Number 10, August 2020 Proceedings from the 13th Bioinformatics and Computational Biology International Conference - BBCC2018
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journals/bmcbi/ManciniVMPLPM20 share record
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Alessio Mancini Leonardo Vito Elisa Marcelli Marco Piangerelli Renato De Leone Sandra Pucciarelli Emanuela Merelli Machine learning models predicting multidrug resistant urinary tract infections using "DsaaS". 347 export record
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Ludovica Liguori Maria Monticelli Mariateresa Allocca Maria Vittoria Cubellis Bruno Hay Mele Bioinformatics tools for marine biotechnology: a practical tutorial with a metagenomic approach. 348 export record
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Ichcha Manipur Ilaria Granata Lucia Maddalena Mario R. Guarracino Clustering analysis of tumor metabolic networks. 349 export record
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Angelo Ciaramella Davide Nardone Antonino Staiano Data integration by fuzzy similarity-based hierarchical clustering. 350 export record
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Luisa Cutillo Alexis Boukouvalas Elli Marinopoulou Nancy Papalopulu Magnus Rattray OscoNet: inferring oscillatory gene networks. 351 export record
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Tiziana Castrignanò Silvia Gioiosa Tiziano Flati Mirko Cestari Ernesto Picardi Matteo Chiara Maddalena Fratelli Stefano Amente Marco Cirilli Marco Antonio Tangaro Giovanni Chillemi Graziano Pesole Federico Zambelli ELIXIR-IT HPC@CINECA: high performance computing resources for the bioinformatics community. 352 export record
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Tiziano Flati Silvia Gioiosa Nicola Spallanzani Ilario Tagliaferri Maria Angela Diroma Graziano Pesole Giovanni Chillemi Ernesto Picardi Tiziana Castrignanò HPC-REDItools: a novel HPC-aware tool for improved large scale RNA-editing analysis. 353 export record
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Irene Righetto Francesco Filippini Normal modes analysis and surface electrostatics of haemagglutinin proteins as fingerprints for high pathogenic type A influenza viruses. 354 Volume 21-S, Number 11, September 2020 Selected Topics in "Systems Biology and Bioinformatics" - 2019:bioinformatics
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Timofey V. Ivanisenko Olga V. Saik Pavel S. Demenkov Nikita V. Ivanisenko Alexander N. Savostyanov Vladimir A. Ivanisenko ANDDigest: a new web-based module of ANDSystem for the search of knowledge in the scientific literature. 228 export record
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Vitali A. Likhoshvai Vladimir P. Golubyatnikov Tamara M. Khlebodarova Limit cycles in models of circular gene networks regulated by negative feedback loops. 255 export record
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Tamara M. Khlebodarova Vladislav V. Kogai Vitali A. Likhoshvai On the dynamical aspects of local translation at the activated synapse. 258 export record
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Mila Efimenko Alexander Ignatev Konstantin Koshechkin Review of medical image recognition technologies to detect melanomas using neural networks. 270 export record
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Anastasia A. Anashkina Yuri M. Poluektov Vladimir A. Dmitriev Eugene N. Kuznetsov Vladimir A. Mitkevich Alexander A. Makarov Irina Yu. Petrushanko A novel approach for predicting protein S-glutathionylation. 282 export record
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Valery Polyanovsky Alexander Lifanov Natalia G. Esipova Vladimir G. Tumanyan The ranging of amino acids substitution matrices of various types in accordance with the alignment accuracy criterion. 294 share record
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Yuriy L. Orlov Elvira R. Galieva Tatiana V. Tatarinova Bioinformatics research at SBB-2019. 366 Volume 21-S, Number 12, July 2020 Selected abstracts and papers of Bioinformatics:from Algorithms to Applications 2019 conference
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Andrey D. Prjibelski Giuseppe D. Puglia Dmitry Antipov Elena Bushmanova Daniela Giordano Alla Mikheenko Domenico Vitale Alla L. Lapidus Extending rnaSPAdes functionality for hybrid transcriptome assembly. 302 export record
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Yulia Kondratenko Anton I. Korobeynikov Alla L. Lapidus CDSnake: Snakemake pipeline for retrieval of annotated OTUs from paired-end reads using CD-HIT utilities. 303 export record
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Gennady V. Khvorykh Andrey V. Khrunin imputeqc: an R package for assessing imputation quality of genotypes and optimizing imputation parameters. 304 export record
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Maria A. Daugavet Sergey V. Shabelnikov Olga I. Podgornaya Amino acid sequence associated with bacteriophage recombination site helps to reveal genes potentially acquired through horizontal gene transfer. 305 export record
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Tatiana Dvorkina Dmitry Antipov Anton I. Korobeynikov Sergey Nurk SPAligner: alignment of long diverged molecular sequences to assembly graphs. 306 Volume 21-S, Number 13, September 2020 Selected articles from the 18th Asia Pacific Bioinformatics Conference (APBC 2020):bioinformatics
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Jinling Liu Xiaojun Ma Gregory F. Cooper Xinghua Lu Explicit representation of protein activity states significantly improves causal discovery of protein phosphorylation networks. 379 export record
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Jian Wang Mengying Li Qishuai Diao Hongfei Lin Zhihao Yang Yi-Jia Zhang Biomedical document triage using a hierarchical attention-based capsule network. 380 share record
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Ke Li Sijia Zhang Di Yan Yannan Bin Junfeng Xia Prediction of hot spots in protein-DNA binding interfaces based on supervised isometric feature mapping and extreme gradient boosting. 381 export record
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Sangwoo Lee Eun Kyung Choe So Yeon Kim Hua Sun Kim Kyu Joo Park Dokyoon Kim Liver imaging features by convolutional neural network to predict the metachronous liver metastasis in stage I-III colorectal cancer patients based on preoperative abdominal CT scan. 382 export record
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Yujie You Xufang Ru Wanjing Lei Tingting Li Ming Xiao Huiru Zheng Yujie Chen Le Zhang Developing the novel bioinformatics algorithms to systematically investigate the connections among survival time, key genes and proteins for Glioblastoma multiforme. 383 share record
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Yuliang Pan Shuigeng Zhou Jihong Guan Computationally identifying hot spots in protein-DNA binding interfaces using an ensemble approach. 384 export record
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Yuanke Zhong Jing Li Junhao He Yiqun Gao Jie Liu Jingru Wang Xuequn Shang Jialu Hu Twadn: an efficient alignment algorithm based on time warping for pairwise dynamic networks. 385 export record
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Sudipta Acharya Laizhong Cui Yi Pan A consensus multi-view multi-objective gene selection approach for improved sample classification. 386 export record
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Renyi Zhou Zhangli Lu Huimin Luo Ju Xiang Min Zeng Min Li NEDD: a network embedding based method for predicting drug-disease associations. 387 export record
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Nauman Ahmed Tong Dong Qiu Koen Bertels Zaid Al-Ars GPU acceleration of Darwin read overlapper for de novo assembly of long DNA reads. 388 export record
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Yang-Chi-Dung Lin Hsi-Yuan Huang Sirjana Shrestha Chih-Hung Chou Yen-Hua Chen Chi-Ru Chen Hsiao-Chin Hong Jing Li Yi-An Chang Men-Yee Chiew Ya-Rong Huang Siang-Jyun Tu Ting-Hsuan Sun Shun-Long Weng Ching-Ping Tseng Hsien-Da Huang Multi-omics profiling reveals microRNA-mediated insulin signaling networks. 389 export record
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Benjamin Albrecht Caner Bagci Daniel H. Huson MAIRA- real-time taxonomic and functional analysis of long reads on a laptop. 390 export record
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Yongchun Lü Xiangrui Zeng Xinhui Tian Xiao Shi Hui Wang Xiaohui Zheng Xiaodong Liu Xiaofang Zhao Xin Gao Min Xu Spark-based parallel calculation of 3D fourier shell correlation for macromolecule structure local resolution estimation. 391 share record
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Xiaoyang Chen Shengquan Chen Rui Jiang EnClaSC: a novel ensemble approach for accurate and robust cell-type classification of single-cell transcriptomes. 392 share record
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Ko Abe Kodai Minoura Yuka Maeda Hiroyoshi Nishikawa Teppei Shimamura Model-based clustering for flow and mass cytometry data with clinical information. 393 share record
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Jiajie Peng Jingyi Li Xuequn Shang A learning-based method for drug-target interaction prediction based on feature representation learning and deep neural network. 394 Volume 21-S, Number 14, September 2020 Selected original articles from the Sixth International Workshop on Computational Network Biology:Modeling, Analysis, and Control (CNB-MAC 2019):bioinformatics
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Nahim Adnan Chengwei Lei Jianhua Ruan Robust edge-based biomarker discovery improves prediction of breast cancer metastasis. 359 export record
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Evan A. Clayton Toyya A. Pujol John F. McDonald Peng Qiu Leveraging TCGA gene expression data to build predictive models for cancer drug response. 364 share record
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Md. Abid Hasan Stefano Lonardi DeeplyEssential: a deep neural network for predicting essential genes in microbes. 367 share record
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Qian Liu Yao Tong Kai Wang Genome-wide detection of short tandem repeat expansions by long-read sequencing. 542 export record
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Laurence de Torrenté Samuel E. Zimmerman Masako Suzuki Maximilian Christopeit John M. Greally Jessica Cara Mar The shape of gene expression distributions matter: how incorporating distribution shape improves the interpretation of cancer transcriptomic data. 562 export record
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Yan Guo Li Shen Xinghua Shi Kai Wang Yulin Dai Zhongming Zhao Accelerating bioinformatics research with International Conference on Intelligent Biology and Medicine 2020. 563 export record
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Min Jin Ha Junghi Kim Jessica Galloway-Pena Kim-Anh Do Christine B. Peterson Compositional zero-inflated network estimation for microbiome data. 581 Volume 21-S, Number 23, December 2020 Recent Progresses with BioNLP Open Shared Tasks - Part 1
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