Journal: BMC Bioinformatics

Volume 19-S, Issue 8

0 -- 0Shashank Gupta 0001, Sachin Pawar, Nitin Ramrakhiyani, Girish Keshav Palshikar, Vasudeva Varma. Semi-Supervised Recurrent Neural Network for Adverse Drug Reaction mention extraction
9 -- 18Ingoo Lee, Hojung Nam. Identification of drug-target interaction by a random walk with restart method on an interactome network
19 -- 28Yousang Jo, SangHyeon Kim, Doheon Lee. Identification of common coexpression modules based on quantitative network comparison
29 -- 37Myeong-Sang Yu, Hyang-Mi Lee, Aaron Park, Chungoo Park, Hyithaek Ceong, Ki-Hyeong Rhee, Dokyun Na. In silico prediction of potential chemical reactions mediated by human enzymes
39 -- 47Víctor Suárez-Paniagua, Isabel Segura-Bedmar. Evaluation of pooling operations in convolutional architectures for drug-drug interaction extraction
49 -- 55Kyungrin Noh, Sunyong Yoo, Doheon Lee. A systematic approach to identify therapeutic effects of natural products based on human metabolite information
57 -- 66Reilly Grant, David Kucher, Ana M. Leon, Jonathan Gemmell, Daniela Stan Raicu, Samah J. Fodeh. Automatic extraction of informal topics from online suicidal ideation
67 -- 74Keyuan Jiang, Shichao Feng, Qunhao Song, Ricardo A. Calix, Matrika Gupta, Gordon R. Bernard. Identifying tweets of personal health experience through word embedding and LSTM neural network
75 -- 84Munui Kim, Seung Han Baek, Min Song. Relation extraction for biological pathway construction using node2vec

Volume 19-S, Issue 7

0 -- 0Claudia Angelini, Andrea Bracciali, David Gilbert, Riccardo Rizzo. Preface to the BMC-CIBB 2015-16 special issue
3 -- 12Krishna Kanhaiya, Vladimir Rogojin, Keivan Kazemi, Eugen Czeizler, Ion Petre. NetControl4BioMed: a pipeline for biomedical data acquisition and analysis of network controllability
13 -- 22Susana Conde, Xiaoguang Xu, Hui Guo, Markus Perola, Teresa Fazia, Luisa Bernardinelli, Carlo Berzuini. Mendelian randomisation analysis of clustered causal effects of body mass on cardiometabolic biomarkers
23 -- 29Marco Fornili, Patrizia Boracchi, Federico Ambrogi, Elia Biganzoli. Modeling the covariates effects on the hazard function by piecewise exponential artificial neural networks: an application to a controlled clinical trial on renal carcinoma
31 -- 44Chiara Gigliarano, Alessandro Nonis, Alberto Briganti, Marco Bonetti, Clelia Di Serio. Effect of the number of removed lymph nodes on prostate cancer recurrence and survival: evidence from an observational study
45 -- 59Riccardo Colombo, Chiara Damiani, David R. Gilbert, Monika Heiner, Giancarlo Mauri, Dario Pescini. Emerging ensembles of kinetic parameters to characterize observed metabolic phenotypes
61 -- 76Antonino Fiannaca, Laura La Paglia, Massimo La Rosa, Giosuè Lo Bosco, Giovanni Renda, Riccardo Rizzo, Salvatore Gaglio, Alfonso Urso. Deep learning models for bacteria taxonomic classification of metagenomic data
77 -- 88Davide S. Sardina, Giovanni Micale, Alfredo Ferro, Alfredo Pulvirenti, Rosalba Giugno. INBIA: a boosting methodology for proteomic network inference
89 -- 107Régis Garnier, Christophe Guyeux, Jean-François Couchot, Michel Salomon, Bashar Al-Nuaimi, Bassam AlKindy. Comparison of metaheuristics to measure gene effects on phylogenetic supports and topologies
109 -- 126Kirsty L. Hassall, Andrew Mead. Beyond the one-way ANOVA for 'omics data
127 -- 137Igor Saggese, Elisa Bona, Maxwell Conway, Francesco Favero, Marco Ladetto, Pietro Liò, Giovanni Manzini, Flavio Mignone. STAble: a novel approach to de novo assembly of RNA-seq data and its application in a metabolic model network based metatranscriptomic workflow
139 -- 154Francesco Bardozzo, Pietro Liò, Roberto Tagliaferri. A study on multi-omic oscillations in Escherichia coli metabolic networks

Volume 19-S, Issue 5

0 -- 0Yang Guo, Shuhui Liu, Zhanhuai Li, Xuequn Shang. BCDForest: a boosting cascade deep forest model towards the classification of cancer subtypes based on gene expression data
15 -- 22Zhenxing Wang, Xiaoliang Wu, Yadong Wang. A framework for analyzing DNA methylation data from Illumina Infinium HumanMethylation450 BeadChip
23 -- 35Xiaotian Hao, Jianye Hao, Wang Li, Hanxu Hou. Effective norm emergence in cell systems under limited communication
37 -- 46Yang Hu, Tianyi Zhao, Ningyi Zhang, Tianyi Zang, Jun Zhang, Liang Cheng. Identifying diseases-related metabolites using random walk
47 -- 54Shiquan Sun, Xifang Sun, Yan Zheng. Higher-order partial least squares for predicting gene expression levels from chromatin states
55 -- 63Huaixiao Tou, Lu Yao, Zhongyu Wei, Xiahai Zhuang, Bo Zhang. Automatic infection detection based on electronic medical records
65 -- 77Jiajie Peng, Weiwei Hui, Xuequn Shang. Measuring phenotype-phenotype similarity through the interactome
79 -- 87Yan-Shuo Chu, Mingxiang Teng, Yadong Wang. Modeling and correct the GC bias of tumor and normal WGS data for SCNA based tumor subclonal population inferring

Volume 19-S, Issue 3

0 -- 0Byung-Jun Yoon, Xiaoning Qian, Tamer Kahveci, Ranadip Pal. Selected research articles from the 2017 International Workshop on Computational Network Biology: Modeling, Analysis, and Control (CNB-MAC)
5 -- 19Ali Foroughi Pour, Lori A. Dalton. Heuristic algorithms for feature selection under Bayesian models with block-diagonal covariance structure
21 -- 33Kevin Matlock, Carlos De Niz, Raziur Rahman, Souparno Ghosh, Ranadip Pal. Investigation of model stacking for drug sensitivity prediction
35 -- 44Ahmad Al Kawam, Mustafa Alshawaqfeh, James Cai, Erchin Serpedin, Aniruddha Datta. Simulating variance heterogeneity in quantitative genome wide association studies
45 -- 58Ashish Katiyar, Anwoy Kumar Mohanty, Jianping Hua, Chao Sima, Rosana Lopes, Aniruddha Datta, Michael L. Bittner. A Bayesian approach to determine the composition of heterogeneous cancer tissue
59 -- 69Yang Ni, Peter Müller 0003, Lin Wei, Yuan Ji. Bayesian graphical models for computational network biology

Volume 19-S, Issue 21

0 -- 0Sanjoy Dey, Heng Luo, Achille Fokoue, Jianying Hu, Ping Zhang. Predicting adverse drug reactions through interpretable deep learning framework

Volume 19-S, Issue 20

0 -- 0Yongping Du, Yunpeng Pan, Chencheng Wang, Junzhong Ji. Biomedical semantic indexing by deep neural network with multi-task learning
13 -- 23Guifeng Tang, Jingwen Shi, Wenjian Wu, Xiang Yue, Wen Zhang 0008. Sequence-based bacterial small RNAs prediction using ensemble learning strategies
25 -- 36Nhat Tran, Vinay Abhyankar, Kytai Nguyen, Jon Weidanz, Jean Gao. MicroRNA dysregulational synergistic network: discovering microRNA dysregulatory modules across subtypes in non-small cell lung cancers
37 -- 48Xianchao Zhu, Xianjun Shen, Xingpeng Jiang, Kaiping Wei, Tingting He, Yuanyuan Ma, Jiaqi Liu, Xiaohua Hu. Nonlinear expression and visualization of nonmetric relationships in genetic diseases and microbiome data
49 -- 57Rosario I. Corona, Sanjana Sudarshan, Srinivas Aluru, Jun-tao Guo. An SVM-based method for assessment of transcription factor-DNA complex models
59 -- 66Yan Wang, Jian Wang, Hongfei Lin, Xiwei Tang, ShaoWu Zhang, Lishuang Li. Bidirectional long short-term memory with CRF for detecting biomedical event trigger in FastText semantic space
67 -- 77Zachary Stephens, Chen Wang 0001, Ravishankar K. Iyer, Jean-Pierre A. Kocher. Detection and visualization of complex structural variants from long reads
79 -- 93Timothy Chappell, Shlomo Geva, James M. Hogan, Flavia Huygens, Irani U. Rathnayake, Stephen Rudd, Wayne Kelly, Dimitri Perrin. Rapid analysis of metagenomic data using signature-based clustering

Volume 19-S, Issue 2

0 -- 0Diego Fioravanti, Ylenia Giarratano, Valerio Maggio, Claudio Agostinelli, Marco Chierici, Giuseppe Jurman, Cesare Furlanello. Phylogenetic convolutional neural networks in metagenomics
15 -- 26Lokmane Chebouba, Bertrand Miannay, Dalila Boughaci, Carito Guziolowski. Discriminate the response of Acute Myeloid Leukemia patients to treatment by using proteomics data and Answer Set Programming
27 -- 40Kumar Parijat Tripathi, Marina Piccirillo, Mario Rosario Guarracino. An integrated approach to infer cross-talks between intracellular protein transport and signaling pathways
41 -- 54Maurizio Giordano, Kumar Parijat Tripathi, Mario Rosario Guarracino. Ensemble of rankers for efficient gene signature extraction in smoke exposure classification

Volume 19-S, Issue 19

0 -- 0Yiqian Zhang, Michiaki Hamada. DeepM6ASeq: prediction and characterization of m6A-containing sequences using deep learning
13 -- 24Zhoujian Xiao, Yuwei Zhang, Runsheng Yu, Yin Chen, Xiaosen Jiang, Ziwei Wang, Shuaicheng Li. In silico design of MHC class I high binding affinity peptides through motifs activation map
25 -- 35Yuanlin Ma, Zuguo Yu, Guo-Sheng Han, Jinyan Li, Vo Anh. Identification of pre-microRNAs by characterizing their sequence order evolution information and secondary structure graphs
37 -- 48Lichun Ma, Jie Zheng. Single-cell gene expression analysis reveals β-cell dysfunction and deficit mechanisms in type 2 diabetes
49 -- 59Yi Zheng, Hui Peng, Xiaocai Zhang, Zhixun Zhao, Jie Yin, Jinyan Li. Predicting adverse drug reactions of combined medication from heterogeneous pharmacologic databases
61 -- 72Weijia Zhang, Thuc Duy Le, Lin Liu 0003, Jiuyong Li. Estimating heterogeneous treatment effect by balancing heterogeneity and fitness
73 -- 81Cheng Yan, Jianxin Wang, Fang-Xiang Wu. DWNN-RLS: regularized least squares method for predicting circRNA-disease associations
83 -- 94Maya Hirohara, Yutaka Saito, Yuki Koda, Kengo Sato, Yasubumi Sakakibara. Convolutional neural network based on SMILES representation of compounds for detecting chemical motif
95 -- 104Yingying Wang, Hongyan Wu, Yunpeng Cai. A benchmark study of sequence alignment methods for protein clustering
105 -- 124Long Zhang, Guoxian Yu, Maozu Guo, Jun Wang 0035. Predicting protein-protein interactions using high-quality non-interacting pairs
125 -- 134Xi Yang, Zhuo Song, Chengkun Wu, Wei Wang, Gen Li, Wei Zhang, Lingqian Wu, Kai Lu. Constructing a database for the relations between CNV and human genetic diseases via systematic text mining
135 -- 145Lei Deng, Juan Pan, Xiaojie Xu, Wenyi Yang, Chuyao Liu, Hui Liu. PDRLGB: precise DNA-binding residue prediction using a light gradient boosting machine
147 -- 155Shengbing Pei, Jihong Guan, Shuigeng Zhou. Classifying early and late mild cognitive impairment stages of Alzheimer's disease by fusing default mode networks extracted with multiple seeds
157 -- 170Takashi Tajimi, Naoki Wakui, Keisuke Yanagisawa, Yasushi Yoshikawa, Masahito Ohue, Yutaka Akiyama. Computational prediction of plasma protein binding of cyclic peptides from small molecule experimental data using sparse modeling techniques
171 -- 177Ko Abe, Masaaki Hirayama, Kinji Ohno, Teppei Shimamura. A latent allocation model for the analysis of microbial composition and disease
179 -- 188Taosheng Xu, Ning Su, Lin Liu 0003, Junpeng Zhang, Hongqiang Wang, Weijia Zhang, Jie Gui, Kui Yu, Jiuyong Li, Thuc Duy Le. miRBaseConverter: an R/Bioconductor package for converting and retrieving miRNA name, accession, sequence and family information in different versions of miRBase

Volume 19-S, Issue 18

0 -- 0Sunita Chandrasekaran, Eric Stahlberg. Computational approaches for Cancer 2017 workshop overview
3 -- 8Nicolas W. Hengartner, Leticia Cuellar, Xiao-Cheng Wu, Georgia D. Tourassi, John X. Qiu, J. Blair Christian, Tanmoy Bhattacharya. CAT: computer aided triage improving upon the Bayes risk through ε-refusal triage rules
9 -- 17Will Fischer, Sanketh S. Moudgalya, Judith D. Cohn, Nga T. T. Nguyen, Garrett T. Kenyon. Sparse coding of pathology slides compared to transfer learning with deep neural networks
19 -- 31Ahmed Sanaullah, Chen Yang, Yuri Alexeev, Kazutomo Yoshii, Martin C. Herbordt. Real-time data analysis for medical diagnosis using FPGA-accelerated neural networks
33 -- 45Jumana Dakka, Matteo Turilli, David W. Wright, Stefan J. Zasada, Vivek Balasubramanian, Shunzhou Wan, Peter V. Coveney, Shantenu Jha. High-throughput binding affinity calculations at extreme scales
47 -- 58Debsindhu Bhowmik, Shang Gao, Michael T. Young, Arvind Ramanathan. Deep clustering of protein folding simulations
59 -- 69Justin M. Wozniak, Rajeev Jain, Prasanna Balaprakash, Jonathan Ozik, Nicholson T. Collier, John Bauer, Fangfang Xia, Thomas S. Brettin, Rick Stevens, Jamaludin Mohd-Yusof, Cristina Garcia-Cardona, Brian Van Essen, Matthew Baughman. CANDLE/Supervisor: a workflow framework for machine learning applied to cancer research
71 -- 79Fangfang Xia, Maulik Shukla, Thomas S. Brettin, Cristina Garcia-Cardona, Judith Cohn, Jonathan E. Allen, Sergei Maslov, Susan L. Holbeck, James H. Doroshow, Yvonne A. Evrard, Eric A. Stahlberg, Rick L. Stevens. Predicting tumor cell line response to drug pairs with deep learning
81 -- 97Jonathan Ozik, Nicholson T. Collier, Justin M. Wozniak, Charles M. Macal, Chase Cockrell, Samuel H. Friedman, Ahmadreza Ghaffarizadeh, Randy Heiland, Gary An, Paul Macklin. High-throughput cancer hypothesis testing with an integrated PhysiCell-EMEWS workflow
99 -- 110John X. Qiu, Hong-Jun Yoon, Kshitij Srivastava, Thomas P. Watson, J. Blair Christian, Arvind Ramanathan, Xiao C. Wu, Paul A. Fearn, Georgia D. Tourassi. Scalable deep text comprehension for Cancer surveillance on high-performance computing

Volume 19-S, Issue 17

0 -- 0Xiaoming Liu, Lei Xie, Zhijin Wu, Kai Wang, Zhongming Zhao, Jianhua Ruan, Degui Zhi. The International Conference on Intelligent Biology and Medicine (ICIBM) 2018: bioinformatics towards translational applications
5 -- 19Yong He, Jiadong Ji, Lei Xie, Xinsheng Zhang, Fuzhong Xue. A new insight into underlying disease mechanism through semi-parametric latent differential network model
21 -- 28Ziwei Li, Bo He, Qiang Kou, Zhe Wang, Si Wu, Yunlong Liu, Weixing Feng, Xiaowen Liu. Evaluation of top-down mass spectral identification with homologous protein sequences
29 -- 37Junhui Shen, Suhas Vasaikar, Bing Zhang 0003. DLAD4U: deriving and prioritizing disease lists from PubMed literature
39 -- 50Tong Liu, Zheng Wang. Reconstructing high-resolution chromosome three-dimensional structures by Hi-C complex networks
51 -- 63Saugato Rahman Dhruba, Raziur Rahman, Kevin Matlock, Souparno Ghosh, Ranadip Pal. Application of transfer learning for cancer drug sensitivity prediction
65 -- 74Zexian Zeng, Sasa Espino, Ankita Roy, Xiaoyu Li, Seema Khan, Susan Clare, Xia Jiang, Richard E. Neapolitan, Yuan Luo. Using natural language processing and machine learning to identify breast cancer local recurrence
75 -- 84Shanta Chowdhury, Xishuang Dong, Lijun Qian, Xiangfang Li, Yi Guan, Jinfeng Yang, Qiubin Yu. A multitask bi-directional RNN model for named entity recognition on Chinese electronic medical records
85 -- 93Chunlei Zheng, Rong Xu. Large-scale mining disease comorbidity relationships from post-market drug adverse events surveillance data
95 -- 107Atlas Khan, Qian Liu, Kai Wang. iMEGES: integrated mental-disorder GEnome score by deep neural network for prioritizing the susceptibility genes for mental disorders in personal genomes

Volume 19-S, Issue 14

0 -- 0Guillaume Devailly, Anagha Joshi. Insights into mammalian transcription control by systematic analysis of ChIP sequencing data
13 -- 25Yixun Li, Mina Maleki, Nicholas J. Carruthers, Paul M. Stemmer, Alioune Ngom, Luis Rueda. The predictive performance of short-linear motif features in the prediction of calmodulin-binding proteins
27 -- 37Jian-Yu Shi, Hua Huang, Jia-Xin Li, Peng Lei, Yan-ning Zhang, Kai Dong, Siu-Ming Yiu. TMFUF: a triple matrix factorization-based unified framework for predicting comprehensive drug-drug interactions of new drugs
39 -- 51V. Bleu Knight, Elba E. Serrano. Expression analysis of RNA sequencing data from human neural and glial cell lines depends on technical replication and normalization methods
53 -- 66Seyed Ziaeddin Alborzi, David W. Ritchie, Marie-Dominique Devignes. Computational discovery of direct associations between GO terms and protein domains
67 -- 81Eleftheria Polychronidou, Ilias Kalamaras, Andreas Agathangelidis, Lesley Ann Sutton, Xiao-Jie Yan, Vasilis Bikos, Anna Vardi, Konstantinos Mochament, Nicholas Chiorazzi, Chrysoula Belessi, Richard Rosenquist, Paolo Ghia, Kostas Stamatopoulos, Panayiotis Vlamos, Anna Chailyan, Nanna Overby, Paolo Marcatili, Anastasia Hatzidimitriou, Dimitrios Tzovaras. Automated shape-based clustering of 3D immunoglobulin protein structures in chronic lymphocytic leukemia
83 -- 96Elisabeth Yaneske, Claudio Angione. The poly-omics of ageing through individual-based metabolic modelling
97 -- 114Pedro Seoane, Marina Espigares, Rosario Carmona, Álvaro Polonio, Julia Quintana, Enrico Cretazzo, Josefina Bota, Alejandro Pérez-García, Juan de Dios Alché, Luis Gómez, M. Gonzalo Claros. TransFlow: a modular framework for assembling and assessing accurate de novo transcriptomes in non-model organisms
115 -- 126Paolo Boldi, Marco Frasca 0001, Dario Malchiodi. Evaluating the impact of topological protein features on the negative examples selection
127 -- 135Mattia Antonino Di Gangi, Giosuè Lo Bosco, Riccardo Rizzo. Deep learning architectures for prediction of nucleosome positioning from sequences data
137 -- 149Mochammad Arfin Fardiansyah Nasution, Erwin Prasetya Toepak, Ahmad Husein Alkaff, Usman Sumo Friend Tambunan. Flexible docking-based molecular dynamics simulation of natural product compounds and Ebola virus Nucleocapsid (EBOV NP): a computational approach to discover new drug for combating Ebola
151 -- 159Diogo Manuel Carvalho Leite, Xavier Brochet, Grégory Resch, Yok-Ai Que, Aitana Neves, Carlos Peña-Reyes. Computational prediction of inter-species relationships through omics data analysis and machine learning
161 -- 176Jesús Pérez Serrano, Edans F. de O. Sandes, Alba Cristina Magalhaes Alves de Melo, Manuel Ujaldón. DNA sequences alignment in multi-GPUs: acceleration and energy payoff

Volume 19-S, Issue 12

0 -- 0Mehedi Hassan, Aishwarya Alex Namasivayam, Dan F. DeBlasio, Nazeefa Fatima, Benjamin Siranosian, R. Gonzalo Parra, Bart Cuypers, Sayane Shome, Alexander Miguel Monzon, Julien Fumey, Farzana Rahman. Reflections on a journey: a retrospective of the ISCB Student Council symposium series

Volume 19-S, Issue 11

0 -- 0Viachaslau Tsyvina, David S. Campo, Seth Sims, Alex Zelikovsky, Yury Khudyakov, Pavel Skums. Fast estimation of genetic relatedness between members of heterogeneous populations of closely related genomic variants
0 -- 0Seth Sims, Atkinson G. Longmire, David S. Campo, Sumathi Ramachandran, Magdalena Medrzycki, Lilia Ganova-Raeva, Yulin Lin, Amanda Sue, Hong Thai, Alexander Zelikovsky, Yury Khudyakov. Automated quality control for a molecular surveillance system
0 -- 0Blake Camp, Jaya Krishna Mandivarapu, Nagashayana Ramamurthy, James Wingo, Anu G. Bourgeois, Xiaojun Cao, Rajshekhar Sunderraman. A new cross-platform architecture for epi-info software suite
0 -- 0Shrikant D. Pawar, Christopher Freas, Irene T. Weber, Robert W. Harrison. Analysis of drug resistance in HIV protease
0 -- 0Fatima Zare, Abdelrahman Hosny, Sheida Nabavi. Noise cancellation using total variation for copy number variation detection
0 -- 0Finlay Campbell, Xavier Didelot, Rich Fitzjohn, Neil M. Ferguson, Anne Cori, Thibaut Jombart. outbreaker2: a modular platform for outbreak reconstruction
0 -- 0Kun Zhao, Elizabeth Henderson, Kelley Bullard, M. Steven Oberste, Cara Burns, Jaume Jorba. PoSE: visualization of patterns of sequence evolution using PAML and MATLAB

Volume 19-S, Issue 10

207 -- 210Giuliano Armano, Giorgio Fotia, Andrea Manconi. BITS 2017: the annual meeting of the Italian Society of Bioinformatics
211 -- 219Neha Kulkarni, Luca Alessandrì, Riccardo Panero, Maddalena Arigoni, Martina Olivero, Giulio Ferrero, Francesca Cordero, Marco Beccuti, Raffaele Calogero. Reproducible bioinformatics project: a community for reproducible bioinformatics analysis pipelines
221 -- 230Vincenzo Bonnici, Federico Busato, Stefano Aldegheri, Murodzhon Akhmedov, Luciano Cascione, Alberto Arribas Carmena, Francesco Bertoni, Nicola Bombieri, Ivo Kwee, Rosalba Giugno. cuRnet: an R package for graph traversing on GPU
231 -- 244Vincenzo Bonnici, Giorgio De Caro, Giorgio Constantino, Sabino Liuni, Domenica D'Elia, Nicola Bombieri, Flavio Licciulli, Rosalba Giugno. Arena-Idb: a platform to build human non-coding RNA interaction networks
245 -- 256Emanuel Weitschek, Silvia Di Lauro, Eleonora Cappelli, Paola Bertolazzi, Giovanni Felici. CamurWeb: a classification software and a large knowledge base for gene expression data of cancer
257 -- 267Marco Moscatelli, Andrea Manconi, Mauro Pessina, Giovanni Fellegara, Stefano Rampoldi, Luciano Milanesi, Andrea Casasco, Matteo Gnocchi. An infrastructure for precision medicine through analysis of big data
269 -- 280Marco Frasca 0001, Giuliano Grossi, Jessica Gliozzo, Marco Mesiti, Marco Notaro, Paolo Perlasca, Alessandro Petrini, Giorgio Valentini. A GPU-based algorithm for fast node label learning in large and unbalanced biomolecular networks
281 -- 297Elena Casiraghi, Veronica Huber, Marco Frasca 0001, Mara Cossa, Matteo Tozzi, Licia Rivoltini, Biagio Eugenio Leone, Antonello Villa, Barbara Vergani. A novel computational method for automatic segmentation, quantification and comparative analysis of immunohistochemically labeled tissue sections
299 -- 306A. Merlotti, Ìtalo Faria do Valle, Gastone C. Castellani, Daniel Remondini. Statistical modelling of CG interdistance across multiple organisms

Volume 19-S, Issue 1

0 -- 0In Seok Yang, Sangwoo Kim. Isoform specific gene expression analysis of KRAS in the prognosis of lung adenocarcinoma patients
11 -- 21Maryam Etemadi, Mehri Bagherian, Zhi-Zhong Chen, Lusheng Wang. Better ILP models for haplotype assembly
23 -- 31Seowon Choi, Jin-Wu Nam. TERIUS: accurate prediction of lncRNA via high-throughput sequencing data representing RNA-binding protein association
33 -- 47Hajime Suzuki, Masahiro Kasahara. Introducing difference recurrence relations for faster semi-global alignment of long sequences
49 -- 61Taehoon Lee, Sungmin Lee, Woo Young Sim, Yu Mi Jung, Sunmi Han, Joong-Ho Won, Hyeyoung Min, Sungroh Yoon. HiComet: a high-throughput comet analysis tool for large-scale DNA damage assessment
63 -- 72Inyoung Kim, Saemi Choi, Sun Kim. BRCA-Pathway: a structural integration and visualization system of TCGA breast cancer data on KEGG pathways
73 -- 84Peiying Ruan, Morihiro Hayashida, Tatsuya Akutsu, Jean-Philippe Vert. Improving prediction of heterodimeric protein complexes using combination with pairwise kernel
85 -- 95Taichi Hagio, Shun Sakuraba, Junichi Iwakiri, Ryota Mori, Kiyoshi Asai. Capturing alternative secondary structures of RNA by decomposition of base-pairing probabilities
97 -- 104Gunhwan Ko, Pan-Gyu Kim, Jongcheol Yoon, Gukhee Han, Seong-Jin Park, Wangho Song, Byungwook Lee. Closha: bioinformatics workflow system for the analysis of massive sequencing data