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ORCIDBriefings in Bioinformatics, Volume 19
Volume 19, Number 1, January 2018
- Tommi Välikangas, Tomi Suomi
, Laura L. Elo:
A systematic evaluation of normalization methods in quantitative label-free proteomics. 1-11 - Abdul Arif Khan, Zakir Khan, Mohd Abul Kalam, Azmat Ali Khan:
Inter-kingdom prediction certainty evaluation of protein subcellular localization tools: microbial pathogenesis approach for deciphering host microbe interaction. 12-22 - Jang-il Sohn, Jin-Wu Nam:
The present and future of de novo whole-genome assembly. 23-40 - James M. Brown, Neil R. Horner, Thomas N. Lawson, Tanja Fiegel, Simon Greenaway, Hugh Morgan, Natalie Ring, Luis A. Santos, Duncan J. Sneddon, Lydia Teboul, Jennifer Vibert, Gagarine Yaikhom, Henrik Westerberg, Ann-Marie Mallon:
A bioimage informatics platform for high-throughput embryo phenotyping. 41-51 - Juan Xu, Zishan Wang, Shengli Li, Juan Chen, Jinwen Zhang, Chunjie Jiang, Zheng Zhao, Jing Li, Yongsheng Li, Xia Li:
Combinatorial epigenetic regulation of non-coding RNAs has profound effects on oncogenic pathways in breast cancer subtypes. 52-64 - Guillem Rigaill, Sandrine Balzergue, Véronique Brunaud, Eddy Blondet, Andrea Rau, Odile Rogier, José Caius, Cathy Maugis-Rabusseau, Ludivine Taconnat, Sébastien Aubourg, Claire Lurin, Marie-Laure Martin-Magniette, Etienne Delannoy:
Synthetic data sets for the identification of key ingredients for RNA-seq differential analysis. 65-76 - Ron Henkel, Robert Hoehndorf, Tim Kacprowski, Christian Knüpfer, Wolfram Liebermeister, Dagmar Waltemath:
Notions of similarity for systems biology models. 77-88 - Linna Zhao, Di Liu, Jing Xu, Zhaoyang Wang, Yang Chen, Changgui Lei, Ying Li, Guiyou Liu, Yongshuai Jiang:
The framework for population epigenetic study. 89-100 - Yongchang Zheng, Qianqian Huang, Zijian Ding, Tingting Liu, Chenghai Xue, Xinting Sang, Jin Gu:
Genome-wide DNA methylation analysis identifies candidate epigenetic markers and drivers of hepatocellular carcinoma. 101-108 - Maoqi Xu, Liang Chen:
An empirical likelihood ratio test robust to individual heterogeneity for differential expression analysis of RNA-seq. 109-117 - The Computational Pan-Genomics Consortium:
Computational pan-genomics: status, promises and challenges. 118-135 - Paola G. Ferrario, Inke R. König:
Transferring entropy to the realm of GxG interactions. 136-147 - Yi An, Jiawei Wang, Chen Li, André Leier, Tatiana T. Marquez-Lago, Jonathan Wilksch, Yang Zhang, Geoffrey I. Webb, Jiangning Song, Trevor Lithgow:
Comprehensive assessment and performance improvement of effector protein predictors for bacterial secretion systems III, IV and VI. 148-161 - Felicia S. L. Ng, David Ruau, Lorenz Wernisch, Berthold Göttgens:
A graphical model approach visualizes regulatory relationships between genome-wide transcription factor binding profiles. 162-173 - Adam S. Brown, Chirag J. Patel:
A review of validation strategies for computational drug repositioning. 174-177
Volume 19, Number 2, March 2018
- Denis C. Bauer, Armella Zadoorian, Laurence O. W. Wilson, Melbourne Genomics Health Alliance, Natalie P. Thorne:
Evaluation of computational programs to predict HLA genotypes from genomic sequencing data. 179-187 - Sisi Guo, Yuan Zhou, Pan Zeng, Guoheng Xu, Guoqing Wang, Qinghua Cui:
Identification and analysis of the human sex-biased genes. 188-198 - Tyler Weirick, Giuseppe Militello, Yuliya Ponomareva, David John, Claudia Döring, Stefanie Dimmeler, Shizuka Uchida:
Logic programming to infer complex RNA expression patterns from RNA-seq data. 199-209 - Yassene Mohammed, Magnus Palmblad:
Visualizing and comparing results of different peptide identification methods. 210-218 - Qiqige Wuyun, Wei Zheng, Zhenling Peng, Jianyi Yang:
A large-scale comparative assessment of methods for residue-residue contact prediction. 219-230 - Junjie Chen, Mingyue Guo, Xiaolong Wang, Bin Liu:
A comprehensive review and comparison of different computational methods for protein remote homology detection. 231-244 - Li Guo, Tingming Liang:
MicroRNAs and their variants in an RNA world: implications for complex interactions and diverse roles in an RNA regulatory network. 245-253 - Seyed Hamid Aghaee-Bakhtiari, Ehsan Arefian, Pierre Lau:
miRandb: a resource of online services for miRNA research. 254-262 - Seyed Ali Madani Tonekaboni, Laleh Soltan Ghoraie, Venkata Satya Kumar Manem, Benjamin Haibe-Kains:
Predictive approaches for drug combination discovery in cancer. 263-276 - Shardul Paricharak, Oscar Méndez-Lucio, Aakash Chavan Ravindranath, Andreas Bender, Adriaan P. IJzerman, Gerard J. P. van Westen:
Data-driven approaches used for compound library design, hit triage and bioactivity modeling in high-throughput screening. 277-285 - Claudia Manzoni, Demis A. Kia, Jana Vandrovcova, John Hardy, Nicholas W. Wood, Patrick A. Lewis, Raffaele Ferrari:
Genome, transcriptome and proteome: the rise of omics data and their integration in biomedical sciences. 286-302 - Mark Mc Auley, Kathleen M. Mooney, J. Enrique Salcedo-Sora:
Computational modelling folate metabolism and DNA methylation: implications for understanding health and ageing. 303-317 - Francesco Pappalardo, Abdul Mateen Rajput, Santo Motta:
Computational modeling of brain pathologies: the case of multiple sclerosis. 318-324 - Yifeng Li, Fang-Xiang Wu, Alioune Ngom:
A review on machine learning principles for multi-view biological data integration. 325-340 - Rok Blagus, Jelle J. Goeman:
What (not) to expect when classifying rare events. 341-349
- Alexander Churkin, Matan Drory Retwitzer, Vladimir Reinharz, Yann Ponty, Jérôme Waldispühl, Danny Barash:
Design of RNAs: comparing programs for inverse RNA folding. 350-358
- Celia W. G. van Gelder, Rob W. W. Hooft, Merlijn N. van Rijswijk, Linda van den Berg, Ruben G. Kok, Marcel J. T. Reinders, Barend Mons, Jaap Heringa:
Bioinformatics in the Netherlands: the value of a nationwide community. 359 - Sheng-Yong Niu, Jinyu Yang, Adam McDermaid, Jing Zhao, Yu Kang, Qin Ma:
Bioinformatics tools for quantitative and functional metagenome and metatranscriptome data analysis in microbes. 360
Volume 19, Number 3, May 2018
- Qi Dai, Chaohui Bao, Yabing Hai Hai, Sheng Ma, Tao Zhou, Cong Wang, Yunfei Wang, Wenwen Huo, Xiaoqing Liu, Yuhua Yao, Zhenyu Xuan, Min Chen, Michael Q. Zhang:
MTGIpick allows robust identification of genomic islands from a single genome. 361-373 - Yun Zhang, Saurabh Baheti, Zhifu Sun:
Statistical method evaluation for differentially methylated CpGs in base resolution next-generation DNA sequencing data. 374-386 - Ehsan Motazedi, Richard Finkers, Chris Maliepaard, Dick de Ridder:
Exploiting next-generation sequencing to solve the haplotyping puzzle in polyploids: a simulation study. 387-403 - Anna Kuosmanen, Tuukka Norri, Veli Mäkinen:
Evaluating approaches to find exon chains based on long reads. 404-414 - Hanyuan Zhang, Bruno Vieira Resende e Silva, Juan Cui:
miRDis: a Web tool for endogenous and exogenous microRNA discovery based on deep-sequencing data analysis. 415-424 - Andrea Rau, Cathy Maugis-Rabusseau:
Transformation and model choice for RNA-seq co-expression analysis. 425-436 - Marie E. Bolger, Borjana Arsova, Björn Usadel:
Plant genome and transcriptome annotations: from misconceptions to simple solutions. 437-449 - Pora Kim, Peilin Jia, Zhongming Zhao:
Kinase impact assessment in the landscape of fusion genes that retain kinase domains: a pan-cancer study. 450-460 - Guifang Fu, Mian Huang, Wenhao Bo, Han Hao, Rongling Wu:
Mapping morphological shape as a high-dimensional functional curve. 461-471 - Pietro Hiram Guzzi, Tijana Milenkovic:
Survey of local and global biological network alignment: the need to reconcile the two sides of the same coin. 472-481 - Yuedong Yang, Jianzhao Gao, Jihua Wang, Rhys Heffernan, Jack Hanson, Kuldip K. Paliwal, Yaoqi Zhou:
Sixty-five years of the long march in protein secondary structure prediction: the final stretch? 482-494 - Valentina Galata, Christina Backes, Cedric Christian Laczny, Georg Hemmrich-Stanisak, Howard Li, Laura Smoot, Andreas E. Posch, Susanne Schmolke, Markus Bischoff, Lutz von Müller, Achim Plum, Andre Franke, Andreas Keller:
Comparing genome versus proteome-based identification of clinical bacterial isolates. 495-505 - Aliyu Musa, Laleh Soltan Ghoraie, Shu-Dong Zhang, Galina V. Glazko, Olli Yli-Harja, Matthias Dehmer, Benjamin Haibe-Kains, Frank Emmert-Streib:
A review of connectivity map and computational approaches in pharmacogenomics. 506-523 - Ping Zhang, Constantinos A. Georgiou, Vladimir Brusic:
Elemental metabolomics. 524-536
- Bohdan B. Khomtchouk, Edmund Weitz, Peter D. Karp, Claes Wahlestedt:
How the strengths of Lisp-family languages facilitate building complex and flexible bioinformatics applications. 537-543
Volume 19, Number 4, July 2018
- Feng Bao, Yue Deng, Mulong Du, Zhiquan Ren, Qingzhao Zhang, Yanyu Zhao, Jin-Li Suo, Zhengdong Zhang, Meilin Wang, Qionghai Dai:
Probabilistic natural mapping of gene-level tests for genome-wide association studies. 545-553 - James M. Heather, Mazlina Ismail, Theres Oakes, Benny Chain:
High-throughput sequencing of the T-cell receptor repertoire: pitfalls and opportunities. 554-565 - Jun Li, Cui Tai, Zixin Deng, Weihong Zhong, Yongqun He, Hong-Yu Ou:
VRprofile: gene-cluster-detection-based profiling of virulence and antibiotic resistance traits encoded within genome sequences of pathogenic bacteria. 566-574 - Sipko van Dam, Urmo Võsa, Adriaan van der Graaf, Lude Franke, João Pedro de Magalhães:
Gene co-expression analysis for functional classification and gene-disease predictions. 575-592 - Liyong Fu, Lidan Sun, Han Hao, Libo Jiang, Sheng Zhu, Meixia Ye, Shouzheng Tang, Minren Huang, Rongling Wu:
How trees allocate carbon for optimal growth: insight from a game-theoretic model. 593-602 - Lidan Sun, Jing Wang, Xuli Zhu, Libo Jiang, Kirk Gosik, Mengmeng Sang, Fengsuo Sun, Tangren Cheng, Qixiang Zhang, Rongling Wu:
HpQTL: a geometric morphometric platform to compute the genetic architecture of heterophylly. 603-612 - Guini Hong, Hongdong Li, Mengyao Li, Weicheng Zheng, Jing Li, Meirong Chi, Jun Cheng, Zheng Guo:
A simple way to detect disease-associated cellular molecular alterations from mixed-cell blood samples. 613-621 - Dapeng Wang:
hppRNA - a Snakemake-based handy parameter-free pipeline for RNA-Seq analysis of numerous samples. 622-626 - Lijun Lei, Siyu Xia, Dan Liu, Xiaoqing Li, Jing Feng, Yaqi Zhu, Jun Hu, Linjian Xia, Lieping Guo, Fei Chen, Hui Cheng, Ke Chen, Hanyang Hu, Xiaohua Chen, Feng Li, Shan Zhong, Nupur Mittal, Guohua Yang, Zhijian Qian, Leng Han, Chunjiang He:
Genome-wide characterization of lncRNAs in acute myeloid leukemia. 627-635 - Yajing Hao, Lili Zhang, Yiwei Niu, Tanxi Cai, Jianjun Luo, Shunmin He, Bao Zhang, Dejiu Zhang, Yan Qin, Fuquan Yang, Runsheng Chen:
SmProt: a database of small proteins encoded by annotated coding and non-coding RNA loci. 636-643 - Yunyan Gu, Ruiping Wang, Yue Han, Wenbin Zhou, Zhangxiang Zhao, Tingting Chen, Yuanyuan Zhang, Fuduan Peng, Haihai Liang, Lishuang Qi, Wenyuan Zhao, Da Yang, Zheng Guo:
A landscape of synthetic viable interactions in cancer. 644-655 - Khader Shameer, Benjamin S. Glicksberg, Rachel Hodos, Kipp W. Johnson, Marcus A. Badgeley, Ben Readhead, Max S. Tomlinson, Timothy O'Connor, Riccardo Miotto, Brian A. Kidd, Rong Chen, Avi Ma'ayan, Joel T. Dudley:
Systematic analyses of drugs and disease indications in RepurposeDB reveal pharmacological, biological and epidemiological factors influencing drug repositioning. 656-678 - Francesca Finotello, Eleonora Mastrorilli, Barbara Di Camillo:
Measuring the diversity of the human microbiota with targeted next-generation sequencing. 679-692 - Mehran Karimzadeh, Michael M. Hoffman:
Top considerations for creating bioinformatics software documentation. 693-699
- Yang-Jun Wen, Hanwen Zhang, Yuan-Li Ni, Bo Huang, Jin Zhang, Jian-Ying Feng, Shi-Bo Wang, Jim M. Dunwell, Yuan-Ming Zhang, Rongling Wu:
Methodological implementation of mixed linear models in multi-locus genome-wide association studies. 700-712 - Alicia Poplawski, Harald Binder:
Feasibility of sample size calculation for RNA-seq studies. 713-720
- Jifang Yan, Guohui Chuai, Chi Zhou, Chen-Yu Zhu, Jing Yang, Chao Zhang, Feng Gu, Han Xu, Jia Wei, Qi Liu:
Benchmarking CRISPR on-target sgRNA design. 721-724
Volume 19, Number 5, September 2018
- Qianrui Fan, Feng Zhang, Wenyu Wang, Jiawen Xu, Jingcan Hao, Awen He, Yan Wen, Ping Li, Xiao Liang, Yanan Du, Li Liu, Cuiyan Wu, Sen Wang, Xi Wang, Yujie Ning, Xiong Guo:
GWAS summary-based pathway analysis correcting for the genetic confounding impact of environmental exposures. 725-730 - Xuefeng Wang, Hao Chen, Nancy Ruonan Zhang:
DNA copy number profiling using single-cell sequencing. 731-736 - Adib Shafi, Cristina Mitrea, Tin Chi Nguyen, Sorin Draghici:
A survey of the approaches for identifying differential methylation using bisulfite sequencing data. 737-753 - Shengli Li, Jiwei Zhang, Shenglin Huang, Xianghuo He:
Genome-wide analysis reveals that exon methylation facilitates its selective usage in the human transcriptome. 754-764 - Shilin Zhao, Jing Wang, David C. Samuels, Quanghu Sheng, Yu Shyr, Yan Guo:
Strategies for processing and quality control of Illumina genotyping arrays. 765-775 - Ciaran Evans, Johanna Hardin, Daniel M. Stoebel:
Selecting between-sample RNA-Seq normalization methods from the perspective of their assumptions. 776-792 - Haidan Yan, Hao Cai, Qingzhou Guan, Jun He, Juan Zhang, You Guo, Haiyan Huang, Xiangyu Li, Yawei Li, Yunyan Gu, Lishuang Qi, Zheng Guo:
Individualized analysis of differentially expressed miRNAs with application to the identification of miRNAs deregulated commonly in lung cancer tissues. 793-802 - Yuan Gao, Jinyang Zhang, Fangqing Zhao:
Circular RNA identification based on multiple seed matching. 803-810 - Di Liu, Linna Zhao, Yang Chen, Zhaoyang Wang, Jing Xu, Ying Li, Changgui Lei, Simeng Hu, Miaomiao Niu, Yongshuai Jiang:
Comparison of the general co-expression landscapes between human and mouse. 811-820 - Jian Zhang, Lukasz A. Kurgan:
Review and comparative assessment of sequence-based predictors of protein-binding residues. 821-837 - Huilin Wang, Liubin Feng, Geoffrey I. Webb, Lukasz A. Kurgan, Jiangning Song, Donghai Lin:
Critical evaluation of bioinformatics tools for the prediction of protein crystallization propensity. 838-852 - Tommaso Biagini, Giovanni Chillemi, Gianluigi Mazzoccoli, Alessandro Grottesi, Caterina Fusilli, Daniele Capocefalo, Stefano Castellana, Angelo L. Vescovi, Tommaso Mazza:
Molecular dynamics recipes for genome research. 853-862 - Santiago Vilar, Carol Friedman, George Hripcsak:
Detection of drug-drug interactions through data mining studies using clinical sources, scientific literature and social media. 863-877 - Maryam Lotfi Shahreza, Nasser Ghadiri, Sayed Rasoul Mousavi, Jaleh Varshosaz, James R. Green:
A review of network-based approaches to drug repositioning. 878-892 - Shulan Tian, Huihuang Yan, Eric W. Klee, Michael Kalmbach, Susan L. Slager:
Comparative analysis of de novo assemblers for variation discovery in personal genomes. 893-904 - Wenwu Wu, Jie Zong, Ning Wei, Jian Cheng, Xuexia Zhou, Yuanming Cheng, Dai Chen, Qinghua Guo, Bo Zhang, Ying Feng:
CASH: a constructing comprehensive splice site method for detecting alternative splicing events. 905-917 - Diana Tichy, Julia Maria Anna Pickl, Axel Benner, Holger Sültmann:
Experimental design and data analysis of Ago-RIP-Seq experiments for the identification of microRNA targets. 918-929 - Yuwei Zhang, Yang Tao, Qi Liao:
Long noncoding RNA: a crosslink in biological regulatory network. 930-945 - Jonathon J. O'Brien, Harsha P. Gunawardena, Bahjat F. Qaqish:
Row versus column correlations: avoiding the ecological fallacy in RNA/protein expression studies. 946-953 - Thilo Muth, Bernhard Y. Renard:
Evaluating de novo sequencing in proteomics: already an accurate alternative to database-driven peptide identification? 954-970 - Michiel P. van Ooijen, Victor L. Jong, Marinus J. C. Eijkemans, Albert J. R. Heck, Arno C. Andeweg, Nadine A. Binai, Henk-Jan van den Ham:
Identification of differentially expressed peptides in high-throughput proteomics data. 971-981 - Sheng-You Huang:
Comprehensive assessment of flexible-ligand docking algorithms: current effectiveness and challenges. 982-994 - Maria Pamela Dobay, Silke Stertz, Mauro Delorenzi:
Context-based retrieval of functional modules in protein-protein interaction networks. 995-1007 - Georgios V. Gkoutos, Paul N. Schofield, Robert Hoehndorf:
The anatomy of phenotype ontologies: principles, properties and applications. 1008-1021 - Arvind K. Chavali, Seung Y. Rhee:
Bioinformatics tools for the identification of gene clusters that biosynthesize specialized metabolites. 1022-1034 - Md. Rezaul Karim, Audrey M. Michel, Achille Zappa, Pavel V. Baranov, Ratnesh Sahay, Dietrich Rebholz-Schuhmann:
Improving data workflow systems with cloud services and use of open data for bioinformatics research. 1035-1050 - Yulan Liang, Arpad Kelemen:
Dynamic modeling and network approaches for omics time course data: overview of computational approaches and applications. 1051-1068
- Bingqiang Liu, Jinyu Yang, Yang Li, Adam McDermaid, Qin Ma:
An algorithmic perspective of de novo cis-regulatory motif finding based on ChIP-seq data. 1069-1081
- Christian T. K.-H. Stadtländer:
Next-generation sequencing data analysis. 1082-1083
Volume 19, Number 6, November 2018
- Igor B. Rogozin, Youri I. Pavlov, Alexander Goncearenco, Subhajyoti De, Artem G. Lada, Eugenia Poliakov, Anna R. Panchenko, David N. Cooper:
Mutational signatures and mutable motifs in cancer genomes. 1085-1101 - Shun-Long Weng, Kai-Yao Huang, Julia Tzu-Ya Weng, Fang-Yu Hung, Tzu-Hao Chang, Tzong-Yi Lee:
Genome-wide discovery of viral microRNAs based on phylogenetic analysis and structural evolution of various human papillomavirus subtypes. 1102-1114 - James W. Marsh, Regan J. Hayward, Amol Carl Shetty, Anup Mahurkar, Michael S. Humphrys, Garry S. A. Myers:
Bioinformatic analysis of bacteria and host cell dual RNA-sequencing experiments. 1115-1129 - Xiaolin Wu, Qinbin Zhang, Zhaokun Wu, Fuju Tai, Wei Wang:
Subcellular locations of potential cell wall proteins in plants: predictors, databases and cross-referencing. 1130-1140 - Gaston K. Mazandu, Emile R. Chimusa, Kayleigh Rutherford, Elsa-Gayle Zekeng, Zoe Z. Gebremariam, Maryam Y. Onifade, Nicola J. Mulder:
Large-scale data-driven integrative framework for extracting essential targets and processes from disease-associated gene data sets. 1141-1152 - Jiansong Fang, Chuang Liu, Qi Wang, Ping Lin, Feixiong Cheng:
In silico polypharmacology of natural products. 1153-1171 - Zhen Sheng, Yi Sun, Zuojing Yin, Kailin Tang, Zhiwei Cao:
Advances in computational approaches in identifying synergistic drug combinations. 1172-1182 - Claudio Durán, Simone Daminelli, Josephine Maria Thomas, V. Joachim Haupt, Michael Schroeder, Carlo Vittorio Cannistraci:
Pioneering topological methods for network-based drug-target prediction by exploiting a brain-network self-organization theory. 1183-1202 - Jocelyn Gal, Gérard Milano, Jean-Marc Ferrero, Esma Saâda-Bouzid, Julien Viotti, Sylvie Chabaud, Paul Gougis, Christophe Le Tourneau, Renaud Schiappa, Agnes Paquet, Emmanuel Chamorey:
Optimizing drug development in oncology by clinical trial simulation: Why and how? 1203-1217 - Supreeta Vijayakumar, Maxwell Conway, Pietro Lió, Claudio Angione:
Seeing the wood for the trees: a forest of methods for optimization and omic-network integration in metabolic modelling. 1218-1235 - Riccardo Miotto, Fei Wang, Shuang Wang, Xiaoqian Jiang, Joel T. Dudley:
Deep learning for healthcare: review, opportunities and challenges. 1236-1246 - Chung-I Li, David C. Samuels, Ying-Yong Zhao, Yu Shyr, Yan Guo:
Power and sample size calculations for high-throughput sequencing-based experiments. 1247-1255 - Alberto Magi, Roberto Semeraro, Alessandra Mingrino, Betti Giusti, Romina D'Aurizio:
Nanopore sequencing data analysis: state of the art, applications and challenges. 1256-1272 - Alexandre Rossi Paschoal, Irma Lozada-Chávez, Douglas Silva Domingues, Peter F. Stadler:
ceRNAs in plants: computational approaches and associated challenges for target mimic research. 1273-1289 - Silvia Bottini, David Pratella, Valerie Grandjean, Emanuela Repetto, Michele Trabucchi:
Recent computational developments on CLIP-seq data analysis and microRNA targeting implications. 1290-1301 - Ya Cui, Xiaowei Chen, Yiwei Niu, Dongpeng Wang, Huaxia Luo, Zhen Fan, Dan Wang, Wei Wu, XueYi Teng, Shunmin He, Jianjun Luo, Runsheng Chen:
Dynamic-BM: multispecies Dynamic BodyMap database from temporal RNA-seq data. 1302-1309 - Dongliang Yu, Zhonghai Tang, Chaogang Shao, Xiaoxia Ma, Taihe Xiang, Zhihong Fan, Huizhong Wang, Yijun Meng:
Investigating microRNA-mediated regulation of the nascent nuclear transcripts in plants: a bioinformatics workflow. 1317-1324 - Qiong Zhang, Wei Liu, Chun-Jie Liu, Sheng-Yan Lin, An-Yuan Guo:
SEGtool: a specifically expressed gene detection tool and applications in human tissue and single-cell sequencing data. 1325-1336 - Han Zhang, William Wheeler, Lei Song, Kai Yu:
Proper joint analysis of summary association statistics requires the adjustment of heterogeneity in SNP coverage pattern. 1337-1343 - Tommi Välikangas, Tomi Suomi, Laura L. Elo:
A comprehensive evaluation of popular proteomics software workflows for label-free proteome quantification and imputation. 1344-1355 - Imene Garali, Isaac M. Adanyeguh, Farid Ichou, Vincent Perlbarg, Alexandre Seyer, Benoit Colsch, Ivan Moszer, Vincent Guillemot, Alexandra Durr, Fanny Mochel, Arthur Tenenhaus:
A strategy for multimodal data integration: application to biomarkers identification in spinocerebellar ataxia. 1356-1369 - Jingwen Yan, Shannon L. Risacher, Li Shen, Andrew J. Saykin:
Network approaches to systems biology analysis of complex disease: integrative methods for multi-omics data. 1370-1381 - Xiaoqiang Sun, Bin Hu:
Mathematical modeling and computational prediction of cancer drug resistance. 1382-1399 - Halil Kilicoglu:
Biomedical text mining for research rigor and integrity: tasks, challenges, directions. 1400-1414
- Sheng-Yong Niu, Jinyu Yang, Adam McDermaid, Jing Zhao, Yu Kang, Qin Ma:
Bioinformatics tools for quantitative and functional metagenome and metatranscriptome data analysis in microbes. 1415-1429
- Lidan Sun, Mengmeng Sang, Chenfei Zheng, Dongyang Wang, Hexin Shi, Kaiyue Liu, Yanfang Guo, Tangren Cheng, Qixiang Zhang, Rongling Wu:
The genetic architecture of heterochrony as a quantitative trait: lessons from a computational model. 1430-1439
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