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Briefings in Bioinformatics, Volume 21
Volume 21, Number 1, January 2020
- Quan Zou
, Gang Lin, Xingpeng Jiang, Xiangrong Liu, Xiangxiang Zeng
Sequence clustering in bioinformatics: an empirical study. 1-10 - Xiaoli Qiang, Chen Zhou, Xiucai Ye, Pufeng Du, Ran Su
CPPred-FL: a sequence-based predictor for large-scale identification of cell-penetrating peptides by feature representation learning. 11-23 - Mark N. Read
Strategies for calibrating models of biology. 24-35 - Sangsoo Lim, Sangseon Lee
Comprehensive and critical evaluation of individualized pathway activity measurement tools on pan-cancer data. 36-46 - Xing Chen
MicroRNA-small molecule association identification: from experimental results to computational models. 47-61 - Martin Siebenhaller, Sune S. Nielsen, Fintan McGee
Human-like layout algorithms for signalling hypergraphs: outlining requirements. 62-72 - Liu Qin
The landscape of miRNA-related ceRNA networks for marking different renal cell carcinoma subtypes. 73-84 - Hong Wang
Landscape of SNPs-mediated lncRNA structural variations and their implication in human complex diseases. 85-95 - Jamie J. Alnasir
The application of Hadoop in structural bioinformatics. 96-105 - Leyi Wei
Comparative analysis and prediction of quorum-sensing peptides using feature representation learning and machine learning algorithms. 106-119 - Tianlei Xu
A comprehensive review of computational prediction of genome-wide features. 120-134 - Qinjie Chu, Panpan Bai, Xintian Zhu, Xingchen Zhang, Lingfeng Mao, Qian-Hao Zhu
Characteristics of plant circular RNAs. 135-143 - Emile R. Chimusa
Dating admixture events is unsolved problem in multi-way admixed populations. 144-155 - Haitao Yang, Hongyan Cao, Tao He, Tong Wang
Multilevel heterogeneous omics data integration with kernel fusion. 156-170 - Chuan Dong, Yan-Ting Jin, Hong-Li Hua, Qing-Feng Wen, Sen Luo, Wen-Xin Zheng, Feng-Biao Guo:
Comprehensive review of the identification of essential genes using computational methods: focusing on feature implementation and assessment. 171-181 - Chang Su
Network embedding in biomedical data science. 182-197 - Fei Liu
Fuzzy Petri nets for modelling of uncertain biological systems. 198-210 - ZiaurRehman Tanoli
Interactive visual analysis of drug-target interaction networks using Drug Target Profiler, with applications to precision medicine and drug repurposing. 211-220 - Jifan Shi
Quantifying Waddington's epigenetic landscape: a comparison of single-cell potency measures. 248-261 - Michiel Stock, Tapio Pahikkala
Algebraic shortcuts for leave-one-out cross-validation in supervised network inference. 262-271 - Adriana Pitea, Ivan Kondofersky, Steffen Sass, Fabian J. Theis, Nikola S. Müller, Kristian Unger:
Copy number aberrations from Affymetrix SNP 6.0 genotyping data - how accurate are commonly used prediction approaches? 272-281 - Chao Shen, Zhe Wang
Comprehensive assessment of nine docking programs on type II kinase inhibitors: prediction accuracy of sampling power, scoring power and screening power. 282-297 - Bin Liu, Shuangyan Jiang, Quan Zou
HITS-PR-HHblits: protein remote homology detection by combining PageRank and Hyperlink-Induced Topic Search. 298-308 - Zhenyu Yue
dbCPM: a manually curated database for exploring the cancer passenger mutations. 309-317 - Feng-Xu Wu
AIMMS suite: a web server dedicated for prediction of drug resistance on protein mutation. 318-328 - Dan Yao, Hainan Wu, Yuhua Chen, Wenguo Yang, Hua Gao
gmRAD: an integrated SNP calling pipeline for genetic mapping with RADseq across a hybrid population. 329-337 - Quanhu Sheng
Cancer-specific expression quantitative loci are affected by expression dysregulation. 338-347 - Sameer Salunkhe, Naren Chandran
CytoPred: 7-gene pair metric for AML cytogenetic risk prediction. 348-354 - Eugenio Del Prete
Bioinformatics methodologies for coeliac disease and its comorbidities. 355-367
Volume 21, Number 2, March 2020
- Saurav Mallik
Graph- and rule-based learning algorithms: a comprehensive review of their applications for cancer type classification and prognosis using genomic data. 368-394 - Tony C. Y. Kuo, Masaomi Hatakeyama, Toshiaki Tameshige, Kentaro K. Shimizu, Jun Sese:
Homeolog expression quantification methods for allopolyploids. 395-407 - Ran Su, Jie Hu, Quan Zou
Empirical comparison and analysis of web-based cell-penetrating peptide prediction tools. 408-420 - Alex Alves Freitas
Investigating the role of Simpson's paradox in the analysis of top-ranked features in high-dimensional bioinformatics datasets. 421-428 - Basant K. Tiwary
Computational medicine: quantitative modeling of complex diseases. 429-440 - Xin Qi, Yuxin Lin
Decoding competing endogenous RNA networks for cancer biomarker discovery. 441-457 - Pablo Mier
Disentangling the complexity of low complexity proteins. 458-472 - Manuel Franco
Evaluation of ontology structural metrics based on public repository data. 473-485 - Xiangrong Liu, Zengyan Hong, Juan Liu, Yuan Lin
Computational methods for identifying the critical nodes in biological networks. 486-497 - Xu Zhou
In silico drug repositioning based on drug-miRNA associations. 498-510 - Abukari Mohammed Yakubu
Ensuring privacy and security of genomic data and functionalities. 511-526 - Giulia Simoni, Vo Hong Thanh
A comparison of deterministic and stochastic approaches for sensitivity analysis in computational systems biology. 527-540 - Cecile Chauvel, Alexei Novoloaca
Evaluation of integrative clustering methods for the analysis of multi-omics data. 541-552 - John J. Dziak
Sensitivity and specificity of information criteria. 553-565 - Xingyi Li, Wenkai Li, Min Zeng
Network-based methods for predicting essential genes or proteins: a survey. 566-583 - Martin Ayling, Matthew D. Clark, Richard M. Leggett
New approaches for metagenome assembly with short reads. 584-594
- Man Cao, Guodong Chen, Jialin Yu, Shaoping Shi:
Computational prediction and analysis of species-specific fungi phosphorylation via feature optimization strategy. 595-608
- Hui-Fang Liu, Rong Liu:
Structure-based prediction of post-translational modification cross-talk within proteins using complementary residue- and residue pair-based features. 609-620
- Jing Tang
ANPELA: analysis and performance assessment of the label-free quantification workflow for metaproteomic studies. 621-636 - Aritro Nath
Long non-coding RNA transcriptome of uncharacterized samples can be accurately imputed using protein-coding genes. 637-648 - Ying Hong Li
Clinical trials, progression-speed differentiating features and swiftness rule of the innovative targets of first-in-class drugs. 649-662 - Hyung-Yong Kim, Hee-Joo Choi
Cancer Target Gene Screening: a web application for breast cancer target gene screening using multi-omics data analysis. 663-675 - Siyuan Chen, Chengzhi Ren, Jingjing Zhai
CAFU: a Galaxy framework for exploring unmapped RNA-Seq data. 676-686 - Ran Su
MinE-RFE: determine the optimal subset from RFE by minimizing the subset-accuracy-defined energy. 687-698
- Cong Pian
miR+Pathway: the integration and visualization of miRNA and KEGG pathways. 699-708
- Yunxia An, Nan Wei, Xiangsong Cheng, Ying Li, Haiyang Liu, Jia Wang, Zhiwei Xu, Zhifu Sun, Xiaoju Zhang:
MCAM abnormal expression and clinical outcome associations are highly cancer dependent as revealed through pan-cancer analysis. 709-718
- Azza E. Ahmed
Delivering blended bioinformatics training in resource-limited settings: a case study on the University of Khartoum H3ABioNet node. 719-728 - Helena Cirenajwis, Martin Lauss, Maria Planck, Johan Vallon-Christersson
Performance of gene expression-based single sample predictors for assessment of clinicopathological subgroups and molecular subtypes in cancers: a case comparison study in non-small cell lung cancer. 729-740 - Zhi Ruan
The global dissemination of bacterial infections necessitates the study of reverse genomic epidemiology. 741-750
- Corrigendum to: Dating admixture events is unsolved problem in multi-way admixed populations. 751
- Corrigendum to: gm RAD: an integrated SNP calling pipeline for genetic mapping with RADseq across a hybrid population. 752
Volume 21, Number 3, May 2020
- Regina Brinster
Optimal selection of genetic variants for adjustment of population stratification in European association studies. 753-761 - Yu Ding, Hong Wang
Evaluation of drug efficacy based on the spatial position comparison of drug-target interaction centers. 762-776 - Ziye Wang, Ying Wang, Jed A. Fuhrman, Fengzhu Sun, Shanfeng Zhu
Assessment of metagenomic assemblers based on hybrid reads of real and simulated metagenomic sequences. 777-790 - Neann Mathai
Validation strategies for target prediction methods. 791-802 - Fabio Fabris, Daniel Palmer
Comparing enrichment analysis and machine learning for identifying gene properties that discriminate between gene classes. 803-814 - Zhongjie Liang, Gennady M. Verkhivker
Integration of network models and evolutionary analysis into high-throughput modeling of protein dynamics and allosteric regulation: theory, tools and applications. 815-835 - Edwin Yu-Kiu Ho, Qin Cao
Shaping the nebulous enhancer in the era of high-throughput assays and genome editing. 836-850 - Charalampos Papachristou, Swati Biswas:
Comparison of haplotype-based tests for detecting gene-environment interactions with rare variants. 851-862 - Jianjian Wang, Yuze Cao, Xiaoyu Lu, Tianfeng Wang, Shuang Li, Xiaotong Kong, Chunrui Bo
MicroRNAs and nervous system diseases: network insights and computational challenges. 863-875 - Ansuman Chattopadhyay
Molecular Biology Information Service: an innovative medical library-based bioinformatics support service for biomedical researchers. 876-884 - Saman Zeeshan
100 Years of evolving gene-disease complexities and scientific debutants. 885-905 - Jimmy Omony
DNA methylation analysis in plants: review of computational tools and future perspectives. 906-918 - Mengying Sun, Sendong Zhao, Coryandar Gilvary, Olivier Elemento, Jiayu Zhou, Fei Wang:
Graph convolutional networks for computational drug development and discovery. 919-935 - Charles Vesteghem
Implementing the FAIR Data Principles in precision oncology: review of supporting initiatives. 936-945 - Zijie Shen
Transcription factors-DNA interactions in rice: identification and verification. 946-956 - Feng Li, Tan Wu, Yanjun Xu
A comprehensive overview of oncogenic pathways in human cancer. 957-969 - Na Cheng, Menglu Li, Le Zhao, Bo Zhang, Yuhua Yang, Chun-Hou Zheng, Junfeng Xia:
Comparison and integration of computational methods for deleterious synonymous mutation prediction. 970-981 - Hao Lv
Evaluation of different computational methods on 5-methylcytosine sites identification. 982-995
- Ran Su
Meta-GDBP: a high-level stacked regression model to improve anticancer drug response prediction. 996-1005 - Yadong Yang, Tao Zhang, Rudan Xiao, Xiaopeng Hao, Huiqiang Zhang, Hongzhu Qu, Bingbing Xie, Tao Wang, Xiangdong Fang:
Platform-independent approach for cancer detection from gene expression profiles of peripheral blood cells. 1006-1015 - Shiqiang Cheng, Bei Han
Identifying psychiatric disorder-associated gut microbiota using microbiota-related gene set enrichment analysis. 1016-1022 - Zhijie Han
Genome-wide identification and analysis of the eQTL lncRNAs in multiple sclerosis based on RNA-seq data. 1023-1037 - Sijia Zhang, Le Zhao, Chun-Hou Zheng, Junfeng Xia:
A feature-based approach to predict hot spots in protein-DNA binding interfaces. 1038-1046 - Zhen Chen
iLearn : an integrated platform and meta-learner for feature engineering, machine-learning analysis and modeling of DNA, RNA and protein sequence data. 1047-1057 - Qingxia Yang, Bo Li, Jing Tang, Xuejiao Cui, Yunxia Wang
Consistent gene signature of schizophrenia identified by a novel feature selection strategy from comprehensive sets of transcriptomic data. 1058-1068 - Fuyi Li
PRISMOID: a comprehensive 3D structure database for post-translational modifications and mutations with functional impact. 1069-1079 - Ji Zhang, Meige Guan, Qianliang Wang, Jiajun Zhang
Single-cell transcriptome-based multilayer network biomarker for predicting prognosis and therapeutic response of gliomas. 1080-1097
- Chia-Ru Chung
Characterization and identification of antimicrobial peptides with different functional activities. 1098-1114
- Meik Kunz, Julian Jeromin, Maximilian Fuchs
In silico signaling modeling to understand cancer pathways and treatment responses. 1115-1117
- Corrigendum to: Comprehensive and critical evaluation of individualized pathway activity measurement tools on pan-cancer data. 1118
Volume 21, Number 4, July 2020
- Shutao Mei, Fuyi Li
A comprehensive review and performance evaluation of bioinformatics tools for HLA class I peptide-binding prediction. 1119-1135 - Vincent Briane, Myriam Vimond, Charles Kervrann:
An overview of diffusion models for intracellular dynamics analysis. 1136-1150 - Asmita Gupta
RNA-mediated translation regulation in viral genomes: computational advances in the recognition of sequences and structures. 1151-1163 - Leandro Lima, Camille Marchet, Ségolène Caboche, Corinne Da Silva, Benjamin Istace, Jean-Marc Aury
Comparative assessment of long-read error correction software applied to Nanopore RNA-sequencing data. 1164-1181 - Andrew C. Liu
Sepsis in the era of data-driven medicine: personalizing risks, diagnoses, treatments and prognoses. 1182-1195 - Ren Qi, Anjun Ma
Clustering and classification methods for single-cell RNA-sequencing data. 1196-1208 - Raphael Petegrosso, Zhuliu Li, Rui Kuang:
Machine learning and statistical methods for clustering single-cell RNA-sequencing data. 1209-1223 - Dimitri Guala
Genome-wide functional association networks: background, data & state-of-the-art resources. 1224-1237 - Fu Chen, Le Yuan
Data-driven rational biosynthesis design: from molecules to cell factories. 1238-1248 - David Hoksza
Closing the gap between formats for storing layout information in systems biology. 1249-1260 - Moliang Chen, Guoli Ji, Hongjuan Fu, Qianmin Lin, Congting Ye
A survey on identification and quantification of alternative polyadenylation sites from RNA-seq data. 1261-1276 - Sean D. McCabe, Dan-Yu Lin, Michael I. Love:
Consistency and overfitting of multi-omics methods on experimental data. 1277-1284 - Jianwen Fang:
A critical review of five machine learning-based algorithms for predicting protein stability changes upon mutation. 1285-1292 - Hewei Zheng, Xueying Zhao, Hong Wang
Location deviations of DNA functional elements affected SNP mapping in the published databases and references. 1293-1301 - Mitra Ebrahimpoor, Pietro Spitali
Simultaneous Enrichment Analysis of all Possible Gene-sets: Unifying Self-Contained and Competitive Methods. 1302-1312 - Juan Cui, Jiang Shu:
Circulating microRNA trafficking and regulation: computational principles and practice. 1313-1326 - Pingjian Ding
Heterogeneous information network and its application to human health and disease. 1327-1346 - Chaodong Zhang, Yingjiao Ju
Systematic analysis of supervised machine learning as an effective approach to predicate β-lactam resistance phenotype in Streptococcus pneumoniae. 1347-1355 - Hang Wei
iCircDA-MF: identification of circRNA-disease associations based on matrix factorization. 1356-1367 - Dan Wang, Hai Xiang, Chao Ning, Hao Liu
Mitochondrial DNA enrichment reduced NUMT contamination in porcine NGS analyses. 1368-1377 - Jing Tang
A critical assessment of the feature selection methods used for biomarker discovery in current metaproteomics studies. 1378-1390 - Meik Kunz, Beat Wolf
A comprehensive method protocol for annotation and integrated functional understanding of lncRNAs. 1391-1396 - Hebing Chen
New insights on human essential genes based on integrated analysis and the construction of the HEGIAP web-based platform. 1397-1410 - Meng Li, Jianmei Zhao, Xuecang Li, Yang Chen, Chenchen Feng, Fengcui Qian, Yuejuan Liu, Jian Zhang, Jianzhong He, Bo Ai, Ziyu Ning, Wei Liu, Xuefeng Bai, Xiaole Han, Zhiyong Wu, Xiue Xu, Zhidong Tang, Qi Pan, Liyan Xu, Chunquan Li
HiFreSP: A novel high-frequency sub-pathway mining approach to identify robust prognostic gene signatures. 1411-1424 - Xiangxiang Zeng
Predicting disease-associated circular RNAs using deep forests combined with positive-unlabeled learning methods. 1425-1436 - Jiajun Hong, Yongchao Luo
Protein functional annotation of simultaneously improved stability, accuracy and false discovery rate achieved by a sequence-based deep learning. 1437-1447 - Yuli Gao, Guohui Chuai, Weichuan Yu, Shen Qu, Qi Liu:
Data imbalance in CRISPR off-target prediction. 1448-1454 - Juncai Pu, Yue Yu, Yiyun Liu, Lu Tian, Siwen Gui, Xiaogang Zhong, Chu Fan, Shaohua Xu, Xuemian Song, Lanxiang Liu, Lining Yang, Peng Zheng, Jianjun Chen
MENDA: a comprehensive curated resource of metabolic characterization in depression. 1455-1464 - Aimin Li
Critical microRNAs and regulatory motifs in cleft palate identified by a conserved miRNA-TF-gene network approach in humans and mice. 1465-1478 - Jie Ping
MutEx: a multifaceted gateway for exploring integrative pan-cancer genomic data. 1479-1486 - José A. Ferreira, Susana Fuentes:
Some comments on certain statistical aspects of the study of the microbiome. 1487-1494
Volume 21, Number 5, September 2020
- Antonio Mora
Gene set analysis methods for the functional interpretation of non-mRNA data - Genomic range and ncRNA data. 1495-1508 - Akila Katuwawala, Christopher J. Oldfield, Lukasz A. Kurgan
Accuracy of protein-level disorder predictions. 1509-1522 - Stefania Salvatore, Knut Dagestad Rand, Ivar Grytten, Egil Ferkingstad
Beware the Jaccard: the choice of similarity measure is important and non-trivial in genomic colocalisation analysis. 1523-1530 - Zhourun Wu, Qing Liao, Bin Liu:
A comprehensive review and evaluation of computational methods for identifying protein complexes from protein-protein interaction networks. 1531-1548 - Richard A. Norman, Francesco Ambrosetti, Alexandre M. J. J. Bonvin
Computational approaches to therapeutic antibody design: established methods and emerging trends. 1549-1567 - Hui Yang, Wuritu Yang, Fu-Ying Dao
A comparison and assessment of computational method for identifying recombination hotspots in Saccharomyces cerevisiae. 1568-1580 - Xinlei Zhao, Shuang Wu, Nan Fang, Xiao Sun, Jue Fan
Evaluation of single-cell classifiers for single-cell RNA sequencing data sets. 1581-1595 - Robert Rentzsch
Predicting bacterial virulence factors - evaluation of machine learning and negative data strategies. 1596-1608 - Tianlin Zhang
Deep learning for drug-drug interaction extraction from the literature: a review. 1609-1627 - Yinan Shen, Yijie Ding
Critical evaluation of web-based prediction tools for human protein subcellular localization. 1628-1640 - Weifeng Guo
Network control principles for identifying personalized driver genes in cancer. 1641-1662 - Francis E. Agamah
Computational/in silico methods in drug target and lead prediction. 1663-1675 - Zhen Chen
Comprehensive review and assessment of computational methods for predicting RNA post-transcriptional modification sites from RNA sequences. 1676-1696 - Jon C. Ison
Community curation of bioinformatics software and data resources. 1697-1705 - Yanfang Zhang, Xiujia Yang
Tools for fundamental analysis functions of TCR repertoires: a systematic comparison. 1706-1716 - Xu Chi, Maureen A. Sartor, Sanghoon Lee, Meenakshi Anurag, Snehal Patil, Pelle Hall, Matthew Wexler, Xiao-Song Wang:
Universal concept signature analysis: genome-wide quantification of new biological and pathological functions of genes and pathways. 1717-1732 - Bin Liu, Chen-Chen Li, Ke Yan:
DeepSVM-fold: protein fold recognition by combining support vector machines and pairwise sequence similarity scores generated by deep learning networks. 1733-1741 - Siqi Bao, Hengqiang Zhao
Computational identification of mutator-derived lncRNA signatures of genome instability for improving the clinical outcome of cancers: a case study in breast cancer. 1742-1755 - Bo Sun
Quantile regression for challenging cases of eQTL mapping. 1756-1765 - Marco Cacciabue
A beginner's guide for FMDV quasispecies analysis: sub-consensus variant detection and haplotype reconstruction using next-generation sequencing. 1766-1775 - Bin Tang, Bin Li
Optimization of in silico tools for predicting genetic variants: individualizing for genes with molecular sub-regional stratification. 1776-1786 - Chenyang Hong
Flexible k-mers with variable-length indels for identifying binding sequences of protein dimers. 1787-1797 - Kai Yu
Deep learning based prediction of reversible HAT/HDAC-specific lysine acetylation. 1798-1805 - Wei-Yang Bai, Xiao-Wei Zhu, Pei-Kuan Cong
Genotype imputation and reference panel: a systematic evaluation on haplotype size and diversity. 1806-1817 - Qi Zhao
CrossICC: iterative consensus clustering of cross-platform gene expression data without adjusting batch effect. 1818-1824 - Jiajun Hong, Yongchao Luo
Convolutional neural network-based annotation of bacterial type IV secretion system effectors with enhanced accuracy and reduced false discovery. 1825-1836 - Ephifania Geza
FRANC: a unified framework for multi-way local ancestry deconvolution with high density SNP data. 1837-1845 - Bing Rao, Chen Zhou, Guoying Zhang, Ran Su
ACPred-Fuse: fusing multi-view information improves the prediction of anticancer peptides. 1846-1855 - Jian Zhang, Zhiqiang Ma, Lukasz A. Kurgan
Corrigendum to: Comprehensive review and empirical analysis of hallmarks of DNA-, RNA- and protein-binding residues in protein chains. 1856
Volume 21, Number 6, December 2020
- Xiaoxia Ma, Yijun Meng, Pu Wang, Zhonghai Tang, Huizhong Wang, Tian Xie:
Bioinformatics-assisted, integrated omics studies on medicinal plants. 1857-1874 - Ehsan Ullah, Mona Yosafshahi, Soha Hassoun:
Towards scaling elementary flux mode computation. 1875-1885 - Hongcheng Yao, Qian Liang, Xinyi Qian, Junwen Wang
Methods and resources to access mutation-dependent effects on cancer drug treatment. 1886-1903 - Riccardo De Bin
Combining clinical and molecular data in regression prediction models: insights from a simulation study. 1904-1919 - Anita Sathyanarayanan, Rohit Gupta, Erik W. Thompson
A comparative study of multi-omics integration tools for cancer driver gene identification and tumour subtyping. 1920-1936 - Jussi Paananen
An omics perspective on drug target discovery platforms. 1937-1953 - Yiwen Wang, Kim-Anh Lê Cao
Managing batch effects in microbiome data. 1954-1970 - Matteo Chiara
Critical assessment of bioinformatics methods for the characterization of pathological repeat expansions with single-molecule sequencing data. 1971-1986 - Sebastiano Di Bella
A benchmarking of pipelines for detecting ncRNAs from RNA-Seq data. 1987-1998 - Fabian Kern, Christina Backes, Pascal Hirsch
What's the target: understanding two decades of in silico microRNA-target prediction. 1999-2010 - Morgane Pierre-Jean
Clustering and variable selection evaluation of 13 unsupervised methods for multi-omics data integration. 2011-2030 - Bohdan B. Khomtchouk, Diem-Trang T. Tran
Cardioinformatics: the nexus of bioinformatics and precision cardiology. 2031-2051 - Arfa Mehmood, Asta Laiho, Mikko S. Venäläinen
Systematic evaluation of differential splicing tools for RNA-seq studies. 2052-2065 - Yu-Chiao Chiu
Deep learning of pharmacogenomics resources: moving towards precision oncology. 2066-2083 - Jun Sun
Decoding the similarities and specific differences between latent and active tuberculosis infections based on consistently differential expression networks. 2084-2098 - Xuan Lin
A novel molecular representation with BiGRU neural networks for learning atom. 2099-2111 - Süleyman Selim Çinaroglu
Comprehensive evaluation of the MM-GBSA method on bromodomain-inhibitor sets. 2112-2125 - Xiao Ding
FluReassort: a database for the study of genomic reassortments among influenza viruses. 2126-2132 - Chen-Chen Li, Bin Liu:
MotifCNN-fold: protein fold recognition based on fold-specific features extracted by motif-based convolutional neural networks. 2133-2141 - Qingxia Yang, Jiajun Hong, Yi Li, Weiwei Xue, Song Li
A novel bioinformatics approach to identify the consistently well-performing normalization strategy for current metabolomic studies. 2142-2152 - Yanjun Xu
Identification and comprehensive characterization of lncRNAs with copy number variations and their driving transcriptional perturbed subpathways reveal functional significance for cancer. 2153-2166 - Qun Dong, Feng Li, Yanjun Xu
RNAactDrug: a comprehensive database of RNAs associated with drug sensitivity from multi-omics data. 2167-2174 - Yao Lv, Sheng-Yan Lin, Fei-Fei Hu, Zheng Ye, Qiong Zhang
Landscape of cancer diagnostic biomarkers from specifically expressed genes. 2175-2184 - Bin Liu, Yulin Zhu, Ke Yan:
Fold-LTR-TCP: protein fold recognition based on triadic closure principle. 2185-2193 - Kequan Lin, Lu Li, Yifei Dai
A comprehensive evaluation of connectivity methods for L1000 data. 2194-2205 - Jing-Fang Yang, Fan Wang, Yuzong Chen, Ge-Fei Hao
LARMD: integration of bioinformatic resources to profile ligand-driven protein dynamics with a case on the activation of estrogen receptor. 2206-2218 - Ming-Siang Huang
Biomedical named entity recognition and linking datasets: survey and our recent development. 2219-2238
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