default search action
BMC Bioinformatics, Volume 20
Volume 20, Number 1, December 2019
- Jun Ruan
, Zhen Liu, Ming Sun, Yue Wang, Junqiu Yue, Guoqiang Yu:
DBS: a fast and informative segmentation algorithm for DNA copy number analysis. 1:1-1:14 - Sarah Machado, Vincent Mercier
LimeSeg: a coarse-grained lipid membrane simulation for 3D image segmentation. 2:1-2:12 - Chia-Ying Chen, Trees-Juen Chuang
NCLcomparator: systematically post-screening non-co-linear transcripts (circular, trans-spliced, or fusion RNAs) identified from various detectors. 3:1-3:11 - Marco Seeland
Image-based classification of plant genus and family for trained and untrained plant species. 4:1-4:13 - Hezha Hassan
GOTrapper: a tool to navigate through branches of gene ontology hierarchy. 20:1-20:6 - Harald Marx, Joshua J. Coon:
MS-Helios: a Circos wrapper to visualize multi-omic datasets. 21:1-21:4 - Toomas Haller
Manhattan Harvester and Cropper: a system for GWAS peak detection. 22:1-22:8 - Lixin Cheng
Exploiting locational and topological overlap model to identify modules in protein interaction networks. 23:1-23:9 - Valentin Iglesias
AMYCO: evaluation of mutational impact on prion-like proteins aggregation propensity. 24:1-24:5 - Robin Wellmann
Optimum contribution selection for animal breeding and conservation: the R package optiSel. 25:1-25:13 - Apostolos Dimitromanolakis, Jingxiong Xu, Agnieszka Król, Laurent Briollais
sim1000G: a user-friendly genetic variant simulator in R for unrelated individuals and family-based designs. 26:1-26:9 - Ine Melckenbeeck
Optimising orbit counting of arbitrary order by equation selection. 27:1-27:13 - Meng Wang
pblat: a multithread blat algorithm speeding up aligning sequences to genomes. 28:1-28:4 - Lech Nieroda, Lukas Maas, Scott Thiebes, Ulrich Lang, Ali Sunyaev, Viktor Achter
iRODS metadata management for a cancer genome analysis workflow. 29:1-29:8 - Maarten W. Paul
SMoLR: visualization and analysis of single-molecule localization microscopy data in R. 30:1-30:7 - Charlotte Debus
MITK-ModelFit: A generic open-source framework for model fits and their exploration in medical imaging - design, implementation and application on the example of DCE-MRI. 31:1-31:18 - Akshay Tambe, Lior Pachter
Barcode identification for single cell genomics. 32:1-32:9 - Mischa Schwendy, Ronald E. Unger, Mischa Bonn, Sapun H. Parekh
Automated cell segmentation in FIJI® using the DRAQ5 nuclear dye. 39:1-39:9 - Tianyu Wang, Boyang Li, Craig E. Nelson, Sheida Nabavi
Comparative analysis of differential gene expression analysis tools for single-cell RNA sequencing data. 40:1-40:16 - Jingrong Zhang, Zihao Wang, Yu Chen, Renmin Han
PIXER: an automated particle-selection method based on segmentation using a deep neural network. 41:1-41:14 - Christine P'ng, Jeffrey Green, Lauren C. Chong, Daryl Waggott, Stephenie D. Prokopec, Mehrdad Shamsi, Francis Nguyen, Denise Y. F. Mak, Felix Lam, Marco A. Albuquerque, Ying Wu, Esther H. Jung, Maud H. W. Starmans, Michelle A. Chan-Seng-Yue
BPG: Seamless, automated and interactive visualization of scientific data. 42:1-42:5 - Sunita Chandrasekaran, Eric Stahlberg:
Correction to: Computational approaches for cancer 2017 workshop overview. 43:1 - Dong Wei, Chuanying Liu, Xiaoqi Zheng, Yushuang Li
Comprehensive anticancer drug response prediction based on a simple cell line-drug complex network model. 44:1-44:15 - Aleksandr Igorevich Zhernakov
s-dePooler: determination of polymorphism carriers from overlapping DNA pools. 45:1-45:6 - Xinyuan Zhang, Anna Okula Basile, Sarah A. Pendergrass
Real world scenarios in rare variant association analysis: the impact of imbalance and sample size on the power in silico. 46:1-46:10 - Qiangwei Zhou
An integrated package for bisulfite DNA methylation data analysis with Indel-sensitive mapping. 47:1-47:11 - Qiu Xiao, Jiawei Luo, Cheng Liang, Jie Cai, Guanghui Li, Buwen Cao:
CeModule: an integrative framework for discovering regulatory patterns from genomic data in cancer. 67:1-67:13 - Tra-My Ngo, Yik-Ying Teo
Genomic prediction of tuberculosis drug-resistance: benchmarking existing databases and prediction algorithms. 68:1-68:9 - Jin Yao
Predicting clinically promising therapeutic hypotheses using tensor factorization. 69:1-69:12 - Amira Al-Aamri
Analyzing a co-occurrence gene-interaction network to identify disease-gene association. 70:1-70:15 - Kamal Taha
Predicting protein functions by applying predicate logic to biomedical literature. 71:1-71:15 - Dat Quoc Nguyen
From POS tagging to dependency parsing for biomedical event extraction. 72:1-72:13 - Minoo Ashtiani
IMMAN: an R/Bioconductor package for Interolog protein network reconstruction, mapping and mining analysis. 73:1-73:4 - Sunjoo Bang, Sangjoon Son, Sooyoung Kim
Disease Pathway Cut for Multi-Target drugs. 74:1-74:12 - Yongzhi Yang, Ying Li, Qiao Chen, Yongshuai Sun
WGDdetector: a pipeline for detecting whole genome duplication events using the genome or transcriptome annotations. 75:1-75:6 - Anghong Xiao, Zongze Wu, Shoubin Dong:
ADS-HCSpark: A scalable HaplotypeCaller leveraging adaptive data segmentation to accelerate variant calling on Spark. 76:1-76:13 - Hyrum D. Carroll
MultiDomainBenchmark: a multi-domain query and subject database suite. 77:1-77:9 - Jimmy F. Zhang, Alex R. Paciorkowski, Paul A. Craig
BioVR: a platform for virtual reality assisted biological data integration and visualization. 78:1-78:10 - Giovanni Scala
FunMappOne: a tool to hierarchically organize and visually navigate functional gene annotations in multiple experiments. 79:1-79:7 - Kaisa Liimatainen
Iterative unsupervised domain adaptation for generalized cell detection from brightfield z-stacks. 80:1-80:10 - Joshua Williams, Ruoting Yang
Functional Heatmap: an automated and interactive pattern recognition tool to integrate time with multi-omics assays. 81:1-81:6 - Jake Alan Pitt
Parameter estimation in models of biological oscillators: an automated regularised estimation approach. 82:1-82:17 - Arnaud Amzallag
Statistical assessment and visualization of synergies for large-scale sparse drug combination datasets. 83:1-83:15 - Irina Kuznetsova
CirGO: an alternative circular way of visualising gene ontology terms. 84:1-84:7 - Xionghui Zhou
Identifying cancer prognostic modules by module network analysis. 85:1-85:11 - Hongli Fu, Yingxi Yang
DeepUbi: a deep learning framework for prediction of ubiquitination sites in proteins. 86:1-86:10 - Xiao-Nan Fan, Shao-Wu Zhang
Prediction of lncRNA-disease associations by integrating diverse heterogeneous information sources with RWR algorithm and positive pointwise mutual information. 87:1-87:12 - Yoann Dufresne
SLIM: a flexible web application for the reproducible processing of environmental DNA metabarcoding data. 88:1-88:6 - Di Du
ElemCor: accurate data analysis and enrichment calculation for high-resolution LC-MS stable isotope labeling experiments. 89:1-89:9 - Taewoon Joo, Ji-Hye Choi
SEQprocess: a modularized and customizable pipeline framework for NGS processing in R package. 90:1-90:7 - Fatemeh Mansoori
FoPA: identifying perturbed signaling pathways in clinical conditions using formal methods. 92:1-92:21 - Yifeng Cui, Qiwen Dong, Daocheng Hong, Xikun Wang:
Predicting protein-ligand binding residues with deep convolutional neural networks. 93:1-93:12 - Zaixiang Tang, Shufeng Lei, Xinyan Zhang
Gsslasso Cox: a Bayesian hierarchical model for predicting survival and detecting associated genes by incorporating pathway information. 94:1-94:15 - Svetlana Vinogradova
MaGIC: a machine learning tool set and web application for monoallelic gene inference from chromatin. 106:1-106:5 - Noemi Di Nanni
isma: an R package for the integrative analysis of mutations detected by multiple pipelines. 107:1-107:9 - Arthur T. O. Melo, Iago Hale
'apparent': a simple and flexible R package for accurate SNP-based parentage analysis in the absence of guiding information. 108:1-108:10 - Bing Zhang, Huihui Ren
Predicting blood pressure from physiological index data using the SVR algorithm. 109:1-109:15 - Adam Price
DEvis: an R package for aggregation and visualization of differential expression data. 110:1-110:7 - Leijie Li, Dongxue Che, Xiaodan Wang, Peng Zhang, Siddiq Ur Rahman, Jianbang Zhao, Jiantao Yu, Shiheng Tao, Hui Lu
CellSim: a novel software to calculate cell similarity and identify their co-regulation networks. 111:1-111:9 - Fuyi Li
Positive-unlabelled learning of glycosylation sites in the human proteome. 112:1-112:17 - Artyom A. Egorov
svist4get: a simple visualization tool for genomic tracks from sequencing experiments. 113:1-113:6 - Pawel Blazej
The influence of different types of translational inaccuracies on the genetic code structure. 114:1-114:14 - Karl Stamm, Aoy Tomita-Mitchell, Serdar Bozdag
GSEPD: a Bioconductor package for RNA-seq gene set enrichment and projection display. 115:1-115:6 - Héléna A. Gaspar
Probabilistic ancestry maps: a method to assess and visualize population substructures in genetics. 116:1-116:11 - Marco Di Salvo, Simone Puccio
RhoTermPredict: an algorithm for predicting Rho-dependent transcription terminators based on Escherichia coli, Bacillus subtilis and Salmonella enterica databases. 117:1-117:11 - Burçak Otlu
JOA: Joint Overlap Analysis of multiple genomic interval sets. 121:1-121:14 - Brian B. Merritt, Lily S. Cheung
GRIBCG: a software for selection of sgRNAs in the design of balancer chromosomes. 122:1-122:7 - Matt Ravenhall
SV-Pop: population-based structural variant analysis and visualization. 136:1-136:4 - Qingchen Zhang, Lu Zhang, Chen Zhou, Yiyan Yang, Zuojing Yin, Dingfeng Wu, Kailin Tang
DSab-origin: a novel IGHD sensitive VDJ mapping method and its application on antibody response after influenza vaccination. 137:1-137:9 - Bastien Kovac, Jérôme Fehrenbach
FitEllipsoid: a fast supervised ellipsoid segmentation plugin. 142:1-142:8 - Vu Viet Hoang Pham
Identifying miRNA-mRNA regulatory relationships in breast cancer with invariant causal prediction. 143:1-143:12 - Christine Winter, Robin Kosch, Martin Ludlow, Albert Osterhaus, Klaus Jung
Network meta-analysis correlates with analysis of merged independent transcriptome expression data. 144:1-144:10 - Khong-Loon Tiong
MGSEA - a multivariate Gene set enrichment analysis. 145:1-145:22 - Pengfei Wang, Wensheng Zhu:
Replicability analysis in genome-wide association studies via Cartesian hidden Markov models. 146:1-146:12 - Daehong Kwon, Jongin Lee, Jaebum Kim
GMASS: a novel measure for genome assembly structural similarity. 147:1-147:9 - Konrad Zych, Gerrit Gort, Chris A. Maliepaard, Ritsert C. Jansen, Roeland E. Voorrips
FitTetra 2.0 - improved genotype calling for tetraploids with multiple population and parental data support. 148:1-148:8 - Ronald Smith, Taliesin J. Kinser, Gregory D. Conradi Smith
A likelihood ratio test for changes in homeolog expression bias. 149:1-149:11 - Maria Beatriz Walter Costa, Christian Höner zu Siederdissen
SSS-test: a novel test for detecting positive selection on RNA secondary structure. 151:1-151:19 - Yu Xu, Zhe Lin, Chong Tang, Yujing Tang, Yue Cai, Hongbin Zhong, Xuebin Wang
A new massively parallel nanoball sequencing platform for whole exome research. 153:1-153:9 - Refael Kohen, Jonathan Barlev, Gil Hornung, Gil Stelzer, Ester Feldmesser, Kiril Kogan, Marilyn Safran, Dena Leshkowitz
UTAP: User-friendly Transcriptome Analysis Pipeline. 154:1-154:7 - Meng Liu, Paul D. Thomas
GO functional similarity clustering depends on similarity measure, clustering method, and annotation completeness. 155:1-155:15 - Ilknur Karadeniz
Linking entities through an ontology using word embeddings and syntactic re-ranking. 156:1-156:12 - Tobias Zehnder
Predicting enhancers in mammalian genomes using supervised hidden Markov models. 157:1-157:12 - Lei Cui, Jun Feng
High throughput automatic muscle image segmentation using parallel framework. 158:1-158:9 - Daniel Perez-Gil, Francisco J. Lopez, Joaquín Dopazo, Pablo Marín-García
PyCellBase, an efficient python package for easy retrieval of biological data from heterogeneous sources. 159:1-159:5 - Divy Kangeyan, Andrew J. Dunford, Sowmya Iyer, Chip Stewart, Megan Hanna, Gad Getz, Martin J. Aryee
A (fire)cloud-based DNA methylation data preprocessing and quality control platform. 160:1-160:5 - Guangsheng Wu, Juan Liu, Xiang Yue
Prediction of drug-disease associations based on ensemble meta paths and singular value decomposition. 134:1-134:13 - Yan Zhou, Jiadi Zhu, Tiejun Tong
A statistical normalization method and differential expression analysis for RNA-seq data between different species. 163:1-163:10 - Wei Gu
Data and knowledge management in translational research: implementation of the eTRIKS platform for the IMI OncoTrack consortium. 164:1-164:11 - Miriam Gjerdevik
Haplin power analysis: a software module for power and sample size calculations in genetic association analyses of family triads and unrelated controls. 165:1-165:11 - Daphne Ezer
NITPicker: selecting time points for follow-up experiments. 166:1-166:10 - Patrik Waldmann
AUTALASSO: an automatic adaptive LASSO for genome-wide prediction. 167:1-167:10 - Wei Li Wang, Zhou Yu, Luis R. Castillo-Menendez, Joseph Sodroski, Youdong Mao
Robustness of signal detection in cryo-electron microscopy via a bi-objective-function approach. 169:1-169:17 - Yosef Masoudi-Sobhanzadeh
FeatureSelect: a software for feature selection based on machine learning approaches. 170:1-170:17 - Matthew McCoy
SNP2SIM: a modular workflow for standardizing molecular simulation and functional analysis of protein variants. 171:1-171:8 - W. Garrett Jenkinson, Jordi Abante
Ranking genomic features using an information-theoretic measure of epigenetic discordance. 175:1-175:17 - Jianfeng Cao
3DMMS: robust 3D Membrane Morphological Segmentation of C. elegans embryo. 176:1-176:13 - Suyan Tian
Identification of monotonically differentially expressed genes for non-small cell lung cancer. 177:1-177:9 - Kathrin Blagec
Neural sentence embedding models for semantic similarity estimation in the biomedical domain. 178:1-178:10 - Ousmane H. Cissé
FGMP: assessing fungal genome completeness. 184:1-184:9 - Yun Zhang
Highly efficient hypothesis testing methods for regression-type tests with correlated observations and heterogeneous variance structure. 185:1-185:14 - Ana M. Untaroiu, Maureen A. Carey
Leveraging the effects of chloroquine on resistant malaria parasites for combination therapies. 186:1-186:9 - Hsiang-Yun Wu
Metabopolis: scalable network layout for biological pathway diagrams in urban map style. 187:1-187:20 - Nhan Thi Ho, Fan Li, Shuang Wang, Louise Kuhn:
metamicrobiomeR: an R package for analysis of microbiome relative abundance data using zero-inflated beta GAMLSS and meta-analysis across studies using random effects models. 188:1-188:15 - Julián Candia
eNetXplorer: an R package for the quantitative exploration of elastic net families for generalized linear models. 189:1-189:11 - Thomas Gatter
Ryūtō: network-flow based transcriptome reconstruction. 190:1-190:14 - Lubna Pinky
Effect of stochasticity on coinfection dynamics of respiratory viruses. 191:1-191:12 - Maria Littmann
Detailed prediction of protein sub-nuclear localization. 205:1-205:15 - Jolanda H. M. van Bilsen
A network-based approach for identifying suitable biomarkers for oral immunotherapy of food allergy. 206:1-206:11 - Bastian Pfeifer
Estimates of introgression as a function of pairwise distances. 207:1-207:11 - Marek Palkowski
Tiling Nussinov's RNA folding loop nest with a space-time approach. 208:1-208:11 - Stefan Hammer
Fixed-parameter tractable sampling for RNA design with multiple target structures. 209:1-209:13 - Daniele Ramazzotti
Learning mutational graphs of individual tumour evolution from single-cell and multi-region sequencing data. 210:1-210:13 - Ahmed Bin Zaman, Amarda Shehu:
Balancing multiple objectives in conformation sampling to control decoy diversity in template-free protein structure prediction. 211:1-211:17 - Sara Rahiminejad, Mano Ram Maurya, Shankar Subramaniam:
Topological and functional comparison of community detection algorithms in biological networks. 212:1-212:25 - Alfredo Iacoangeli
DNAscan: personal computer compatible NGS analysis, annotation and visualisation. 213:1-213:10 - Thomas Hiscock:
Adapting machine-learning algorithms to design gene circuits. 214:1-214:13 - Lang Yang, Xia Zhang, Yuqi Liu, Hao Li, Shaofu Qiu, Peng Li
CSESA: an R package to predict Salmonella enterica serotype based on newly incorporated spacer pairs of CRISPR. 215:1-215:6 - Mohamed Reda Bouadjenek
Automated assessment of biological database assertions using the scientific literature. 216:1-216:22 - Jeremy P. Koelmel, Jason A. Cochran, Candice Z. Ulmer
Software tool for internal standard based normalization of lipids, and effect of data-processing strategies on resulting values. 217:1-217:13 - Stefan Graw
pwrEWAS: a user-friendly tool for comprehensive power estimation for epigenome wide association studies (EWAS). 218:1-218:11 - Xin Li
Reliable heritability estimation using sparse regularization in ultrahigh dimensional genome-wide association studies. 219:1-219:11 - Arnaud Bonnaffoux
WASABI: a dynamic iterative framework for gene regulatory network inference. 220:1-220:19 - Lea M. Urpa
Focused multidimensional scaling: interactive visualization for exploration of high-dimensional data. 221:1-221:8 - Zhe Wang
scruff: an R/Bioconductor package for preprocessing single-cell RNA-sequencing data. 222:1-222:9 - Xiangyu Wu, Zhen Wei, Kunqi Chen, Qing Zhang, Jionglong Su, Hui Liu, Lin Zhang, Jia Meng
m6Acomet: large-scale functional prediction of individual m6A RNA methylation sites from an RNA co-methylation network. 223:1-223:12 - Chen Wang
Efficient proximal gradient algorithm for inference of differential gene networks. 224:1-224:15 - Lifan Liang, Vicky Chen, Kunju Zhu
Integrating data and knowledge to identify functional modules of genes: a multilayer approach. 225:1-225:15 - Paula Pérez-Rubio, Claudio Lottaz, Julia C. Engelmann
FastqPuri: high-performance preprocessing of RNA-seq data. 226:1-226:11 - Qiang Yan
Metabolic characterization of the chitinolytic bacterium Serratia marcescens using a genome-scale metabolic model. 227:1-227:13 - Davide Heller, Damian Szklarczyk, Christian von Mering
Tree reconciliation combined with subsampling improves large scale inference of orthologous group hierarchies. 228:1-228:12 - Sahil D. Shah
GeneSurrounder: network-based identification of disease genes in expression data. 229:1-229:12 - Debangana Chakravorty
In silico modeling of phosphorylation dependent and independent c-Myc degradation. 230:1-230:11 - Nathan Ungerleider, Erik K. Flemington:
SpliceV: analysis and publication quality printing of linear and circular RNA splicing, expression and regulation. 231:1-231:7 - Philipp Bongartz
Resolving repeat families with long reads. 232:1-232:11 - Ali Navid
System-level analysis of metabolic trade-offs during anaerobic photoheterotrophic growth in Rhodopseudomonas palustris. 233:1-233:16 - Héctor Rodríguez-Pérez, Tamara Hernández-Beeftink
NanoDJ: a Dockerized Jupyter notebook for interactive Oxford Nanopore MinION sequence manipulation and genome assembly. 234:1-234:4 - Junpeng Zhang
miRspongeR: an R/Bioconductor package for the identification and analysis of miRNA sponge interaction networks and modules. 235:1-235:12 - Xiaolong Zhang, Yanyan Shao, Jichao Tian, Yuwei Liao, Peiying Li, Yu Zhang, Jun Chen
pTrimmer: An efficient tool to trim primers of multiplex deep sequencing data. 236:1-236:6 - Najaf A. Shah, Casim A. Sarkar
Variable cellular decision-making behavior in a constant synthetic network topology. 237:1-237:12 - Junrong Song, Wei Peng
A random walk-based method to identify driver genes by integrating the subcellular localization and variation frequency into bipartite graph. 238:1-238:17 - Ti-Tai Wang, Chien-Yueh Lee, Liang-Chuan Lai
anamiR: integrated analysis of MicroRNA and gene expression profiling. 239:1-239:7 - Jaume Bonet
rstoolbox - a Python library for large-scale analysis of computational protein design data and structural bioinformatics. 240:1-240:13 - Neerja Thakkar, Chris Bailey-Kellogg
Balancing sensitivity and specificity in distinguishing TCR groups by CDR sequence similarity. 241:1-241:14 - Alokendra Ghosh, Ravi Radhakrishnan
Time-dependent antagonist-agonist switching in receptor tyrosine kinase-mediated signaling. 242:1-242:14 - Daniel Domingo-Fernández
PathMe: merging and exploring mechanistic pathway knowledge. 243:1-243:12 - Bohu Pan, Rebecca Kusko, Wenming Xiao, Yuanting Zheng, Zhichao Liu, Chunlin Xiao, Sugunadevi Sakkiah, Wenjing Guo, Ping Gong, Chaoyang Zhang, Weigong Ge, Leming Shi, Weida Tong, Huixiao Hong:
Correction to: Similarities and differences between variants called with human reference genome HG19 or HG38. 252:1 - Akanksha Srivastava, Yuliya V. Karpievitch, Steven R. Eichten, Justin O. Borevitz
HOME: a histogram based machine learning approach for effective identification of differentially methylated regions. 253:1-253:15 - Enrico Mossotto
GenePy - a score for estimating gene pathogenicity in individuals using next-generation sequencing data. 254:1-254:15 - Tobias Neumann
Quantification of experimentally induced nucleotide conversions in high-throughput sequencing datasets. 258:1-258:16 - Juhyeon Kim, Insung Ahn:
Weekly ILI patient ratio change prediction using news articles with support vector machine. 259:1-259:16 - Huiwei Zhou
Knowledge-guided convolutional networks for chemical-disease relation extraction. 260:1-260:13 - Arash Bayat
Pairwise alignment of nucleotide sequences using maximal exact matches. 261:1-261:15 - Andreas Hofmann
DRfit: a Java tool for the analysis of discrete data from multi-well plate assays. 262:1-262:6 - Vivekanand Sharma, Maria Isabel Restrepo, Indra Neil Sarkar
Solr-Plant: efficient extraction of plant names from text. 263:1-263:4 - Ryan O. Schenck
NeoPredPipe: high-throughput neoantigen prediction and recognition potential pipeline. 264:1-264:6 - Alexandra R. Buckley, Trey Ideker
Rare variant phasing using paired tumor: normal sequence data. 265:1-265:11 - Wiktor Kusmirek
Comparison of kNN and k-means optimization methods of reference set selection for improved CNV callers performance. 266:1-266:10 - Hiroki Konishi, Daisuke Komura
Capturing the differences between humoral immunity in the normal and tumor environments from repertoire-seq of B-cell receptors using supervised machine learning. 267:1-267:11 - Judith Somekh
Batch correction evaluation framework using a-priori gene-gene associations: applied to the GTEx dataset. 268:1-268:10 - Zhiguo Li
Efficient estimation of grouped survival models. 269:1-269:11 - Poomarin Phloyphisut, Natapol Pornputtapong
MHCSeqNet: a deep neural network model for universal MHC binding prediction. 270:1-270:10 - Wei Zheng, Dingjie Wang, Xiufen Zou:
Control of multilayer biological networks and applied to target identification of complex diseases. 271:1-271:12 - Lars Feuerbach
TelomereHunter - in silico estimation of telomere content and composition from cancer genomes. 272:1-272:11 - Heinrich Roder, Carlos Oliveira, Lelia Net, Benjamin Linstid, Maxim Tsypin, Joanna Roder
Robust identification of molecular phenotypes using semi-supervised learning. 273:1-273:25 - Bruno M. S. Wanderley
flowDiv: a new pipeline for analyzing flow cytometric diversity. 274:1-274:10 - Denise Thiel
Identifying lncRNA-mediated regulatory modules via ChIA-PET network analysis. 292:1-292:16 - Serge Léger, Maria Beatriz Walter Costa, Dan Tulpan
Pairwise visual comparison of small RNA secondary structures with base pair probabilities. 293:1-293:12 - Maryam Masnadi-Shirazi, Mano Ram Maurya, Gerald M. Pao, Eugene Ke, Inder M. Verma, Shankar Subramaniam:
Time varying causal network reconstruction of a mouse cell cycle. 294:1-294:22 - Yulia Panina, Arno Germond
Pairwise efficiency: a new mathematical approach to qPCR data analysis increases the precision of the calibration curve assay. 295:1-295:12 - Dace Ruklisa
Dynamics of gene regulatory networks and their dependence on network topology and quantitative parameters - the case of phage λ. 296:1-296:14 - Emily E. Ackerman
A dual controllability analysis of influenza virus-host protein-protein interaction networks for antiviral drug target discovery. 297:1-297:13 - Mahdi Heydari, Giles Miclotte
Illumina error correction near highly repetitive DNA regions improves de novo genome assembly. 298:1-298:13 - Zhongwang Yu, Yuangen Yao, Haiyou Deng
ANDIS: an atomic angle- and distance-dependent statistical potential for protein structure quality assessment. 299:1-299:11 - Thorsten Will
Differential analysis of combinatorial protein complexes with CompleXChange. 300:1-300:14 - Pascal Costanza, Charlotte Herzeel
A comparison of three programming languages for a full-fledged next-generation sequencing tool. 301:1-301:10 - Karsten Wüllems
Detection and visualization of communities in mass spectrometry imaging data. 303:1-303:12 - Efthymia Chantzi
COMBImage2: a parallel computational framework for higher-order drug combination analysis that includes automated plate design, matched filter based object counting and temporal data mining. 304:1-304:20 - Jiao Chen, Jiating Huang
TAR-VIR: a pipeline for TARgeted VIRal strain reconstruction from metagenomic data. 305:1-305:14 - Zheng Gao, Gang Fu, Chunping Ouyang, Satoshi Tsutsui, Xiaozhong Liu, Jeremy J. Yang, Christopher Gessner, Brian Foote, David J. Wild, Ying Ding, Qi Yu
edge2vec: Representation learning using edge semantics for biomedical knowledge discovery. 306:1-306:15 - Beatriz Peñalver Bernabé, Ines Thiele
Dynamic genome-scale cell-specific metabolic models reveal novel inter-cellular and intra-cellular metabolic communications during ovarian follicle development. 307:1-307:16 - Kuan-Hsi Chen, Tsai-Feng Wang, Yuh-Jyh Hu
Protein-protein interaction prediction using a hybrid feature representation and a stacked generalization scheme. 308:1-308:17 - Yannick Martin, Michel Page, Christophe Blanchet, Hidde de Jong
WellInverter: a web application for the analysis of fluorescent reporter gene data. 309:1-309:18 - Chung-Yen Chen, Sen-Lin Tang, Seng-Cho Timothy Chou
Taxonomy based performance metrics for evaluating taxonomic assignment methods. 310:1-310:11 - Mohammed AlQuraishi
ProteinNet: a standardized data set for machine learning of protein structure. 311:1-311:10 - Bui Thi Mai Anh, Nick Papoulias
The Kendrick modelling platform: language abstractions and tools for epidemiology. 312:1-312:13 - Ángela Casado
CLoDSA: a tool for augmentation in classification, localization, detection, semantic segmentation and instance segmentation tasks. 323:1-323:14 - N. Ozlem Ozcan, Arzucan Özgür
Statistical representation models for mutation information within genomic data. 324:1-324:13 - Joanna Roder
A dropout-regularized classifier development approach optimized for precision medicine test discovery from omics data. 325:1-325:14 - Adil Al-Azzawi
AutoCryoPicker: an unsupervised learning approach for fully automated single particle picking in Cryo-EM images. 326:1-326:26 - Asif Zubair
Bayesian model selection for the Drosophila gap gene network. 327:1-327:12 - Eun-Youn Kim, Daniel A. Ashlock, Sung Ho Yoon
Identification of critical connectors in the directed reaction-centric graphs of microbial metabolic networks. 328:1-328:13 - Hokuto Hirano, Kazuhiro Takemoto
Difficulty in inferring microbial community structure based on co-occurrence network approaches. 329:1-329:14 - Ying Shen
Enhancing ontology-driven diagnostic reasoning with a symptom-dependency-aware Naïve Bayes classifier. 330:1-330:14 - Federico Marini
pcaExplorer: an R/Bioconductor package for interacting with RNA-seq principal components. 331:1-331:8 - Jiesi Luo
Prediction of activity and specificity of CRISPR-Cpf1 using convolutional deep learning neural networks. 332:1-332:10 - Jiaxing Lin, Alexander B. Sibley, Ivo D. Shterev, Andrew Nixon, Federico Innocenti, Cliburn Chan, Kouros Owzar
fastJT: An R package for robust and efficient feature selection for machine learning and genome-wide association studies. 333:1-333:11 - Courtney Schiffman
Filtering procedures for untargeted LC-MS metabolomics data. 334:1-334:10 - Daniel G. Piqué, Grasiella A. Andriani, Elaine Maggi, Samuel E. Zimmerman, John M. Greally, Cristina Montagna, Jessica Cara Mar:
Aneuvis: web-based exploration of numerical chromosomal variation in single cells. 336:1-336:10 - Stefano Teso
Combining learning and constraints for genome-wide protein annotation. 338:1-338:14 - Michael C. Rendleman
Machine learning with the TCGA-HNSC dataset: improving usability by addressing inconsistency, sparsity, and high-dimensionality. 339:1-339:9 - Tongle Ma, Yongzhen Pei
Periodicity and dosage optimization of an RNAi model in eukaryotes cells. 340:1-340:10 - Yanbu Guo
DeepACLSTM: deep asymmetric convolutional long short-term memory neural models for protein secondary structure prediction. 341:1-341:12 - Manojkumar Kumaran
Performance assessment of variant calling pipelines using human whole exome sequencing and simulated data. 342:1-342:11 - Mi-Youn K. Brusniak
Laboratory information management software for engineered mini-protein therapeutic workflow. 343:1-343:10 - Xiaoshuang Liu, Zhenhe Yan, Chao Wu, Yang Yang, Xiaomin Li, Guangxin Zhang
FastProNGS: fast preprocessing of next-generation sequencing reads. 345:1-345:6 - Qiao Ning, Miao Yu, Jinchao Ji, Zhiqiang Ma, Xiaowei Zhao
Analysis and prediction of human acetylation using a cascade classifier based on support vector machine. 346:1-346:15 - Licheng Wang
DDmap: a MATLAB package for the double digest problem using multiple genetic operators. 348:1-348:12 - Wei Chen, Toby Kenney, Joseph P. Bielawski, Hong Gu
Testing adequacy for DNA substitution models. 349:1-349:16 - Vítor Vieira
Comparison of pathway analysis and constraint-based methods for cell factory design. 350:1-350:15 - Zengchao Mu, Ting Yu, Enfeng Qi, Juntao Liu, Guojun Li:
DCGR: feature extractions from protein sequences based on CGR via remodeling multiple information. 351:1-351:10 - Wenmin Zhang, Ben Jia, Chaochun Wei
PaSS: a sequencing simulator for PacBio sequencing. 352:1-352:7 - Ying-Lian Gao, Zhen Cui, Jin-Xing Liu
NPCMF: Nearest Profile-based Collaborative Matrix Factorization method for predicting miRNA-disease associations. 353:1-353:10 - Kaining Hu
Helitron distribution in Brassicaceae and whole Genome Helitron density as a character for distinguishing plant species. 354:1-354:20 - Bihai Zhao, Yulin Zhao, Xiaoxia Zhang, Zhihong Zhang, Fan Zhang, Lei Wang
An iteration method for identifying yeast essential proteins from heterogeneous network. 355:1-355:13 - Marta B. Lopes
Twiner: correlation-based regularization for identifying common cancer gene signatures. 356:1-356:15 - Marta B. Lopes
Twiner: correlation-based regularization for identifying common cancer gene signatures. 356:1-356:15 - Rahul Shaw
A mass and charge balanced metabolic model of Setaria viridis revealed mechanisms of proton balancing in C4 plants. 357:1-357:11 - Roman Hornung
Block Forests: random forests for blocks of clinical and omics covariate data. 358:1-358:17 - Matthew L. Hale, Ishwor Thapa, Dario Ghersi
FunSet: an open-source software and web server for performing and displaying Gene Ontology enrichment analysis. 359:1-359:8 - Tomás Vicar
Cell segmentation methods for label-free contrast microscopy: review and comprehensive comparison. 360:1-360:25 - Leandro Gabriel Roser
FastqCleaner: an interactive Bioconductor application for quality-control, filtering and trimming of FASTQ files. 361:1-361:7 - Akio Miyao
Polymorphic edge detection (PED): two efficient methods of polymorphism detection from next-generation sequencing data. 362:1-362:12 - Lennon Meléndez-Aranda
In silico analysis of missense mutations in exons 1-5 of the F9 gene that cause hemophilia B. 363:1-363:13 - Ryan J. Eller
Odyssey: a semi-automated pipeline for phasing, imputation, and analysis of genome-wide genetic data. 364:1-364:8 - Yi Li, Yanan Liu, Yiming Wu, Xudong Zhao
JCD-DEA: a joint covariate detection tool for differential expression analysis on tumor expression profiles. 365:1-365:13 - Ruochen Yang
MassComp, a lossless compressor for mass spectrometry data. 368:1-368:10 - Sergii Domanskyi
Polled Digital Cell Sorter (p-DCS): Automatic identification of hematological cell types from single cell RNA-sequencing clusters. 369:1-369:16 - Marina Esteban-Medina
Exploring the druggable space around the Fanconi anemia pathway using machine learning and mechanistic models. 370:1-370:15 - Thomas W. McCarthy
SRAssembler: Selective Recursive local Assembly of homologous genomic regions. 371:1-371:13 - Ya-Chi Lin
Analysis of common targets for circular RNAs. 372:1-372:6 - Congzhe Su, Jeffery D. Weir, Fei Zhang, Hao Yan, Teresa Wu:
ENTRNA: a framework to predict RNA foldability. 373:1-373:11 - Teresia M. Buza
iMAP: an integrated bioinformatics and visualization pipeline for microbiome data analysis. 374:1-374:18 - Aditya Sai
Exploring the information transmission properties of noise-induced dynamics: application to glioma differentiation. 375:1-375:11 - Christoph Ruttkies
Improving MetFrag with statistical learning of fragment annotations. 376:1-376:14 - Nguyen-Quoc-Khanh Le
ET-GRU: using multi-layer gated recurrent units to identify electron transport proteins. 377:1-377:12 - Bie M. P. Verbist, Eva Adriaensen, Vikki Keersmaekers, Dea Putri, Marjolein Crabbe, Maarten Derks, Rytis Bagdziunas, Griet Laenen, Hans De Wolf:
Analyzing magnetic bead QuantiGene® Plex 2.0 gene expression data in high throughput mode using QGprofiler. 378:1-378:10 - Savvas Kinalis
Deconvolution of autoencoders to learn biological regulatory modules from single cell mRNA sequencing data. 379:1-379:9 - Ryohei Eguchi, Naoaki Ono
Classification of alkaloids according to the starting substances of their biosynthetic pathways using graph convolutional neural networks. 380:1-380:13 - Fortunato Bianconi
CRA toolbox: software package for conditional robustness analysis of cancer systems biology models in MATLAB. 385:1-385:19 - Han Yu, Rachael Hageman Blair:
Integration of probabilistic regulatory networks into constraint-based models of metabolism with applications to Alzheimer's disease. 386:1-386:12 - Vincent Demolombe, Alexandre G. de Brevern
PEPOP 2.0: new approaches to mimic non-continuous epitopes. 387:1-387:14 - Sam Tracy
RESCUE: imputing dropout events in single-cell RNA-sequencing data. 388:1-388:11 - Eric T. Dawson, Sarah Wagner, David Roberson, Meredith Yeager, Joseph Boland, Erik Garrison, Stephen J. Chanock, Mark Schiffman, Tina Raine-Bennett, Thomas Lorey, Phillip E. Castle, Lisa Mirabello, Richard Durbin
Viral coinfection analysis using a MinHash toolkit. 389:1-389:10 - Ruijie Song, Murat Acar:
Stochastic modeling of aging cells reveals how damage accumulation, repair, and cell-division asymmetry affect clonal senescence and population fitness. 391:1-391:14 - Bruno Thiago de Lima Nichio
RAFTS3G: an efficient and versatile clustering software to analyses in large protein datasets. 392:1-392:7 - Emmy Borgmästars
miRFA: an automated pipeline for microRNA functional analysis with correlation support from TCGA and TCPA expression data in pancreatic cancer. 393:1-393:17 - Anjali Silva
A multivariate Poisson-log normal mixture model for clustering transcriptome sequencing data. 394:1-394:11 - Pascal Dolejsch
Extensions of ℓ 1 regularization increase detection specificity for cell-type specific parameters in dynamic models. 395:1-395:13 - Jingwen Yu, Zhanwei Xuan, Xiang Feng, Quan Zou, Lei Wang
A novel collaborative filtering model for LncRNA-disease association prediction based on the Naïve Bayesian classifier. 396:1-396:13 - Chuang Li, Kenli Li
MCtandem: an efficient tool for large-scale peptide identification on many integrated core (MIC) architecture. 397:1-397:13 - Éva Csosz
Analysis of networks of host proteins in the early time points following HIV transduction. 398:1-398:18 - Suzanne M. Paley
The MultiOmics Explainer: explaining omics results in the context of a pathway/genome database. 399:1-399:13 - Linus Scheibenreif
FunFam protein families improve residue level molecular function prediction. 400:1-400:9 - Ge Liu, Haoyang Zeng, David K. Gifford
Visualizing complex feature interactions and feature sharing in genomic deep neural networks. 401:1-401:14 - Ben C. Stöver
JPhyloIO: a Java library for event-based reading and writing of different phylogenetic file formats through a common interface. 402:1-402:15 - Jinghang Gu
Chemical-induced disease relation extraction via attention-based distant supervision. 403:1-403:14 - Hailin Chen
Prediction and interpretation of miRNA-disease associations based on miRNA target genes using canonical correlation analysis. 404:1-404:8 - Grzegorz M. Boratyn, Jean Thierry-Mieg
Magic-BLAST, an accurate RNA-seq aligner for long and short reads. 405:1-405:19 - Rebecca C. Jackson
ROBOT: A Tool for Automating Ontology Workflows. 407:1-407:10 - Pengfei Liu
Improving prediction of phenotypic drug response on cancer cell lines using deep convolutional network. 408:1-408:14 - Junhui Wang, Michael Gribskov
IRESpy: an XGBoost model for prediction of internal ribosome entry sites. 409:1-409:15 - Elies Ramon
HIV drug resistance prediction with weighted categorical kernel functions. 410:1-410:13 - Richard Border
Stochastic Lanczos estimation of genomic variance components for linear mixed-effects models. 411:1-411:16 - Wei Zhou, Xiaojuan He, Ziyi Chen, Danping Fan, Yonghua Wang, Hui Feng, Ge Zhang, Aiping Lu, Lianbo Xiao:
LncRNA HOTAIR-mediated Wnt/β-catenin network modeling to predict and validate therapeutic targets for cartilage damage. 412:1-412:13 - Marco Russo
DROPA: DRIP-seq optimized peak annotator. 414:1-414:7 - Geonhee Lee, Chihyun Park, Jaegyoon Ahn
Novel deep learning model for more accurate prediction of drug-drug interaction effects. 415:1-415:8 - T. J. M. Kuijpers
DynOVis: a web tool to study dynamic perturbations for capturing dose-over-time effects in biological networks. 417:1-417:10 - Shintaro Katayama
Guide for library design and bias correction for large-scale transcriptome studies using highly multiplexed RNAseq methods. 418:1-418:9 - Mindaugas Margelevicius
Estimating statistical significance of local protein profile-profile alignments. 419:1-419:13 - Carlos J. Rivera-Rivera
LSX: automated reduction of gene-specific lineage evolutionary rate heterogeneity for multi-gene phylogeny inference. 420:1-420:4 - Mohamed K. Gunady
Yanagi: Fast and interpretable segment-based alternative splicing and gene expression analysis. 421:1-421:19 - Paolo Perlasca, Marco Frasca
UNIPred-Web: a web tool for the integration and visualization of biomolecular networks for protein function prediction. 422:1-422:19 - Xinxing Yang
Additional Neural Matrix Factorization model for computational drug repositioning. 423:1-423:11 - Sree K. Chanumolu, Mustafa Albahrani, Hasan H. Otu
FQStat: a parallel architecture for very high-speed assessment of sequencing quality metrics. 424:1-424:10 - Sam Henry, Bridget T. McInnes:
Indirect association and ranking hypotheses for literature based discovery. 425:1-425:19 - Christopher M. Wilson, Kaiqiao Li
Multiple-kernel learning for genomic data mining and prediction. 426:1-426:7 - Xi Wang, Jiagao Lyu, Li Dong, Ke Xu:
Multitask learning for biomedical named entity recognition with cross-sharing structure. 427:1-427:13 - Pascal David Johann, Natalie Jäger, Stefan M. Pfister
RF_Purify: a novel tool for comprehensive analysis of tumor-purity in methylation array data based on random forest regression. 428:1-428:9 - Jurica Seva, David Luis Wiegandt, Julian Goetze, Mario Lamping, Damian Rieke, Reinhold Schaefer
VIST - a Variant-Information Search Tool for precision oncology. 429:1-429:11 - Yipei Wang, Xingyu Fan, Luoxin Chen, Eric I-Chao Chang, Sophia Ananiadou, Junichi Tsujii, Yan Xu
Mapping anatomical related entities to human body parts based on wikipedia in discharge summaries. 430:1-430:11 - Blythe S. Moreland, Kenji M. Oman
A model of pulldown alignments from SssI-treated DNA improves DNA methylation prediction. 431:1-431:15 - Janet C. Siebert
VOLARE: visual analysis of disease-associated microbiome-immune system interplay. 432:1-432:13 - Arezo Torang
An elastic-net logistic regression approach to generate classifiers and gene signatures for types of immune cells and T helper cell subsets. 433:1-433:15 - Claus Weinholdt
Prediction of regulatory targets of alternative isoforms of the epidermal growth factor receptor in a glioblastoma cell line. 434:1-434:14 - Joëlle Barido-Sottani, Samuel D. Chapman, Evsey Kosman
Measuring similarity between gene interaction profiles. 435:1-435:13 - Hamid Bagheri
Shared data science infrastructure for genomics data. 436:1-436:13 - Wei Zhou
Influence of batch effect correction methods on drug induced differential gene expression profiles. 437:1-437:14 - Hyunwoo Kim
Target-small decoy search strategy for false discovery rate estimation. 438:1-438:6 - Bui Thi Mai Anh, Nick Papoulias, Serge Stinckwich, Mikal Ziane, Benjamin Roche
Correction to: The Kendrick modelling platform: language abstractions and tools for epidemiology. 439:1-439:2 - Zebulun Arendsee, Jing Li, Urminder Singh, Priyanka Bhandary, Arun S. Seetharam
fagin: synteny-based phylostratigraphy and finer classification of young genes. 440:1-440:14 - Alex Sánchez-Pla
An equivalence approach to the integrative analysis of feature lists. 441:1-441:13 - Markos Antonopoulos
Three-dimensional tumor growth in time-varying chemical fields: a modeling framework and theoretical study. 442:1-442:36 - Yongchun Lü, Xiangrui Zeng, Xiaofang Zhao, Shirui Li, Hua Li, Xin Gao, Min Xu:
Fine-grained alignment of cryo-electron subtomograms based on MPI parallel optimization. 443:1-443:13 - Yang Guo
Epi-GTBN: an approach of epistasis mining based on genetic Tabu algorithm and Bayesian network. 444:1-444:18 - Yuexiang Li, Xinpeng Xie, Linlin Shen
Reverse active learning based atrous DenseNet for pathological image classification. 445:1-445:15 - Lyuba V. Bozhilova
Measuring rank robustness in scored protein interaction networks. 446:1-446:14 - Tobias B. Alter
Determination of growth-coupling strategies and their underlying principles. 447:1-447:17 - Eric Czech
Cytokit: a single-cell analysis toolkit for high dimensional fluorescent microscopy imaging. 448:1-448:13 - Huimin Lei
Analyzing the regulation of miRNAs on protein-protein interaction network in Hodgkin lymphoma. 449:1-449:13 - Franziska Schumann, Eric Blanc, Clemens Messerschmidt
SigsPack, a package for cancer mutational signatures. 450:1-450:9 - Christian Carsten Sachs
mycelyso - high-throughput analysis of Streptomyces mycelium live cell imaging data. 452:1-452:7 - Emiliano Pereira-Flores
Fast and accurate average genome size and 16S rRNA gene average copy number computation in metagenomic data. 453:1-453:13 - Fernando Cruz
SamPler - a novel method for selecting parameters for gene functional annotation routines. 454:1-454:11 - Ngaam J. Cheung, Wookyung Yu
Sibe: a computation tool to apply protein sequence statistics to predict folding and design in silico. 455:1-455:11 - Chuanyan Wu, Rui Gao, Yusen Zhang
PTPD: predicting therapeutic peptides by deep learning and word2vec. 456:1-456:8 - Dewan M. Sarwar
Model annotation and discovery with the Physiome Model Repository. 457:1-457:10 - Lindsay Rutter
Visualization methods for differential expression analysis. 458:1-458:31 - Yifei Chen
Multiple-level biomedical event trigger recognition with transfer learning. 459:1-459:15 - Yuexi Gu, Jian Zu
A novel evolutionary model for constructing gene coexpression networks with comprehensive features. 460:1-460:20 - Leanne S. Whitmore
RetSynth: determining all optimal and sub-optimal synthetic pathways that facilitate synthesis of target compounds in chassis organisms. 461:1-461:14 - Mohan Timilsina
Predicting links between tumor samples and genes using 2-Layered graph based diffusion approach. 462:1-462:20 - Anh Nhat Tran
HPAanalyze: an R package that facilitates the retrieval and analysis of the Human Protein Atlas data. 463:1-463:11 - Aljaz Gaber
Proper evaluation of chemical cross-linking-based spatial restraints improves the precision of modeling homo-oligomeric protein complexes. 464:1-464:12 - Paul Müller
nanite: using machine learning to assess the quality of atomic force microscopy-enabled nano-indentation data. 465:1-465:9 - Patrick M. Staunton, Aleksandra A. Miranda-CasoLuengo, Brendan J. Loftus, Isobel Claire Gormley
BINDER: computationally inferring a gene regulatory network for Mycobacterium abscessus. 466:1-466:21 - Janet Wang, Thomas LaFramboise
CytoConverter: a web-based tool to convert karyotypes to genomic coordinates. 467:1-467:6 - Yuchong Gong, Yanqing Niu, Wen Zhang
A network embedding-based multiple information integration method for the MiRNA-disease association prediction. 468:1-468:13 - Jianghui Wen, Yeshu Liu, Yu Shi
A classification model for lncRNA and mRNA based on k-mers and a convolutional neural network. 469:1-469:14 - Marie Postel
A multiscale mathematical model of cell dynamics during neurogenesis in the mouse cerebral cortex. 470:1-470:24 - Rongquan Wang
Identifying protein complexes based on an edge weight algorithm and core-attachment structure. 471:1-471:20 - Fuyong Xing
Towards pixel-to-pixel deep nucleus detection in microscopy images. 472:1-472:16 - Martin Steinegger
HH-suite3 for fast remote homology detection and deep protein annotation. 473:1-473:15 - Andrea Degl'Innocenti
A purely bioinformatic pipeline for the prediction of mammalian odorant receptor gene enhancers. 474:1-474:16 - Mingjian Jiang, Zhen Li, Yujie Bian, Zhiqiang Wei:
A novel protein descriptor for the prediction of drug binding sites. 478:1-478:13 - Tongxuan Zhang, Hongfei Lin
Adverse drug reaction detection via a multihop self-attention mechanism. 479:1-479:11 - Alejandro Lopez Rincon
Automatic discovery of 100-miRNA signature for cancer classification using ensemble feature selection. 480:1-480:17 - Felipe Kenji Nakano, Mathias Lietaert, Celine Vens:
Machine learning for discovering missing or wrong protein function annotations - A comparison using updated benchmark datasets. 485:1-485:32 - Bruce D. Parrello, Rory Butler
A machine learning-based service for estimating quality of genomes using PATRIC. 486:1-486:9 - Malte Thodberg
CAGEfightR: analysis of 5′-end data using R/Bioconductor. 487:1-487:13 - Chih-Hao Fang, Nawanol Theera-Ampornpunt, Michael A. Roth, Ananth Grama, Somali Chaterji
AIKYATAN: mapping distal regulatory elements using convolutional learning on GPU. 488:1-488:17 - Swapnil Mahajan
Benchmark datasets of immune receptor-epitope structural complexes. 490:1-490:7 - Josefa Díaz Álvarez
An application of machine learning with feature selection to improve diagnosis and classification of neurodegenerative disorders. 491:1-491:12 - Marietta Kokla
Random forest-based imputation outperforms other methods for imputing LC-MS metabolomics data: a comparative study. 492:1-492:11 - Michael D. Linderman
DECA: scalable XHMM exome copy-number variant calling with ADAM and Apache Spark. 493:1-493:8 - Reagon Karki, Alpha Tom Kodamullil
Quantifying mechanisms in neurodegenerative diseases (NDDs) using candidate mechanism perturbation amplitude (CMPA) algorithm. 494:1-494:8 - James M. Holt
VarSight: prioritizing clinically reported variants with binary classification algorithms. 496:1-496:10 - Yiren Jian, Xiaonan Wang, Jaidi Qiu, Huiwen Wang, Zhichao Liu
DIRECT: RNA contact predictions by integrating structural patterns. 497:1-497:12 - Daniel Svensson, Rickard Sjögren, David Sundell, Andreas Sjödin, Johan Trygg
doepipeline: a systematic approach to optimizing multi-level and multi-step data processing workflows. 498:1-498:13 - Adèle Weber Zendrera, Nataliya Sokolovska
Robust structure measures of metabolic networks that predict prokaryotic optimal growth temperature. 499:1-499:13 - Markos Antonopoulos
Publisher Correction to: Three-dimensional tumor growth in time-varying chemical fields: a modeling framework and theoretical study. 500:1-500:2 - Yuntong Li, Teresa W.-M. Fan, Andrew N. Lane, Woo-Young Kang
SDA: a semi-parametric differential abundance analysis method for metabolomics and proteomics data. 501:1-501:10 - Fuyong Xing, Yuanpu Xie, Xiaoshuang Shi, Pingjun Chen, Zizhao Zhang, Lin Yang:
Correction to: Towards pixel-to-pixel deep nucleus detection in microscopy images. 509:1 - Kipoong Kim, Hokeun Sun
Incorporating genetic networks into case-control association studies with high-dimensional DNA methylation data. 510:1-510:15 - Asma Ben Abacha
A question-entailment approach to question answering. 511:1-511:23 - Marcin Magnus
RNA 3D structure prediction guided by independent folding of homologous sequences. 512:1-512:15 - Thomas Lemmin
Glycosylator: a Python framework for the rapid modeling of glycans. 513:1-513:7 - David F. Nettleton
Predicting rice blast disease: machine learning versus process-based models. 514:1-514:16 - Lei Wang, Juhua Zhang
Prediction of sgRNA on-target activity in bacteria by deep learning. 517:1-517:14 - Jon Mitchell Ambler
GenGraph: a python module for the simple generation and manipulation of genome graphs. 519:1-519:8 - Nauman Ahmed, Jonathan Levy, Shanshan Ren, Hamid Mushtaq, Koen Bertels, Zaid Al-Ars:
GASAL2: a GPU accelerated sequence alignment library for high-throughput NGS data. 520:1-520:20 - Sunyoung Kwon
Comprehensive ensemble in QSAR prediction for drug discovery. 521:1-521:12 - Fan Yang
MIC_Locator: a novel image-based protein subcellular location multi-label prediction model based on multi-scale monogenic signal representation and intensity encoding strategy. 522:1-522:21 - Emma Persson
Domainoid: domain-oriented orthology inference. 523:1-523:12 - Huan Jin
Moiety modeling framework for deriving moiety abundances from mass spectrometry measured isotopologues. 524:1-524:12 - Konstantinos Pliakos
Network inference with ensembles of bi-clustering trees. 525:1-525:12 - Alan R. Rogers
Legofit: estimating population history from genetic data. 526:1-526:10 - Jing Xu, Peng Wu
A hierarchical integration deep flexible neural forest framework for cancer subtype classification by integrating multi-omics data. 527:1-527:11 - Rodolfo S. Allendes Osorio
CLINE: a web-tool for the comparison of biological dendrogram structures. 528:1-528:12 - Hao He, Jiaxiang Zhao
Computational prediction of MoRFs based on protein sequences and minimax probability machine. 529:1-529:11 - Jing Xie, Tieming Ji
Modeling allele-specific expression at the gene and SNP levels simultaneously by a Bayesian logistic mixed regression model. 530:1-530:13 - Alejandro Saettone, Marcelo Ponce, Syed Nabeel-Shah
RACS: rapid analysis of ChIP-Seq data for contig based genomes. 533:1-533:17 - Andre Lamurias
PPR-SSM: personalized PageRank and semantic similarity measures for entity linking. 534:1-534:12 - Gregory M. Parkes
Uncovering extensive post-translation regulation during human cell cycle progression by integrative multi-'omics analysis. 536:1-536:13 - Haicang Zhang, Qi Zhang, Fusong Ju, Jianwei Zhu, Yujuan Gao, Ziwei Xie, Minghua Deng, Shiwei Sun, Wei-Mou Zheng, Dongbo Bu
Predicting protein inter-residue contacts using composite likelihood maximization and deep learning. 537:1-537:11 - Junwei Luo, Mengna Lyu, Ranran Chen, Xiaohong Zhang, Huimin Luo, Chaokun Yan:
SLR: a scaffolding algorithm based on long reads and contig classification. 539:1-539:11 - Ziad Al Bkhetan
Exploring effective approaches for haplotype block phasing. 540:1-540:14 - Yahui Long
WMGHMDA: a novel weighted meta-graph-based model for predicting human microbe-disease association on heterogeneous information network. 541:1-541:18 - Elmar Bucher
Annot: a Django-based sample, reagent, and experiment metadata tracking system. 542:1-542:6 - Marcelo P. Segura-Lepe, Hector C. Keun, Timothy M. D. Ebbels
Predictive modelling using pathway scores: robustness and significance of pathway collections. 543:1-543:11 - Jiao Chen, Jiayu Shang
A binning tool to reconstruct viral haplotypes from assembled contigs. 544:1-544:13 - Valerio Licursi
MIENTURNET: an interactive web tool for microRNA-target enrichment and network-based analysis. 545:1-545:10 - Jing Ma
A comparative study of topology-based pathway enrichment analysis methods. 546:1-546:14 - Toshiyuki T. Yokoyama, Yoshitaka Sakamoto, Masahide Seki, Yutaka Suzuki, Masahiro Kasahara
MoMI-G: modular multi-scale integrated genome graph browser. 548:1-548:14 - Tianjun Li
Quality control of imbalanced mass spectra from isotopic labeling experiments. 549:1-549:12 - Maryam Nazarieh
Topology Consistency of Disease-specific Differential Co-regulatory Networks. 550:1-550:10 - Simonas Marcisauskas, Boyang Ji
Reconstruction and analysis of a Kluyveromyces marxianus genome-scale metabolic model. 551:1-551:9 - Nathan LaPierre, Rob Egan, Wei Wang
De novo Nanopore read quality improvement using deep learning. 552:1-552:9 - Fang-Dong Li, Wei Tong, En-Hua Xia
Optimized sequencing depth and de novo assembler for deeply reconstructing the transcriptome of the tea plant, an economically important plant species. 553:1-553:11 - Danze Chen, Fan Zhang, Qianqian Zhao, Jianzhen Xu
OmicsARules: a R package for integration of multi-omics datasets via association rules mining. 554:1-554:8 - Audrey Mauguen
An EM algorithm to improve the estimation of the probability of clonal relatedness of pairs of tumors in cancer patients. 555:1-555:8 - Yifan Jiang, Yao Jiang, Sheng Wang, Qin Zhang, Xiangdong Ding:
Optimal sequencing depth design for whole genome re-sequencing in pigs. 556:1-556:12 - Jacob R Heldenbrand, Saurabh Baheti, Matthew A. Bockol, Travis M. Drucker, Steven N. Hart, Matthew E. Hudson
Recommendations for performance optimizations when using GATK3.8 and GATK4. 557:1-557:9 - Mario Stanke
VARUS: sampling complementary RNA reads from the sequence read archive. 558:1-558:7 - Mengmeng Zhu, Michael Gribskov
MiPepid: MicroPeptide identification tool using machine learning. 559:1-559:11 - Luca Nanni
PyGMQL: scalable data extraction and analysis for heterogeneous genomic datasets. 560:1-560:11 - Tobias Paczian, William L. Trimble
The MG-RAST API explorer: an on-ramp for RESTful query composition. 561:1-561:8 - Matús Medo
ProtRank: bypassing the imputation of missing values in differential expression analysis of proteomic data. 563:1-563:12 - Simon Dirmeier, Mario Emmenlauer, Christoph Dehio
PyBDA: a command line tool for automated analysis of big biological data sets. 564:1-564:6 - Milagros Marín
An integrative methodology based on protein-protein interaction networks for identification and functional annotation of disease-relevant genes applied to channelopathies. 565:1-565:13 - Alexander Davis
SCOPIT: sample size calculations for single-cell sequencing experiments. 566:1-566:6 - Yonghyun Nam
The translational network for metabolic disease - from protein interaction to disease co-occurrence. 576:1-576:12 - Mahroo Moridi, Marzieh Ghadirinia, Ali Sharifi-Zarchi, Fatemeh Zare-Mirakabad
The assessment of efficient representation of drug features using deep learning for drug repositioning. 577:1-577:11 - Yunyun Dong, Wenkai Yang, Jiawen Wang, Juanjuan Zhao, Yan Qiang, Zijuan Zhao, Ntikurako Guy-Fernand Kazihise, Yanfen Cui, Xiaotong Yang, Siyuan Liu:
MLW-gcForest: a multi-weighted gcForest model towards the staging of lung adenocarcinoma based on multi-modal genetic data. 578:1-578:14 - Daniel J. Giguere
omicplotR: visualizing omic datasets as compositions. 580:1-580:5 - Attayeb Mohsen
Impact of quality trimming on the efficiency of reads joining and diversity analysis of Illumina paired-end reads in the context of QIIME1 and QIIME2 microbiome analysis frameworks. 581:1-581:10 - Stanislav Listopad
A-Lister: a tool for analysis of differentially expressed omics entities across multiple pairwise comparisons. 595:1-595:10 - Nauman Ahmed, Jonathan Levy, Shanshan Ren, Hamid Mushtaq, Koen Bertels, Zaid Al-Ars:
Correction to: GASAL2: a GPU accelerated sequence alignment library for high-throughput NGS data. 597:1-597:4 - Hong Qin
Estimating network changes from lifespan measurements using a parsimonious gene network model of cellular aging. 599:1-599:10 - Bhusan K. Kuntal, Anirban Dutta
Correction to: CompNet: a GUI based tool for comparison of multiple biological interaction networks. 600:1 - Ling Zhang, Ishwor Thapa, Christian Haas
Multiplatform biomarker identification using a data-driven approach enables single-sample classification. 601:1-601:13 - Xiaochuan Wang, Chen Li
SIMLIN: a bioinformatics tool for prediction of S-sulphenylation in the human proteome based on multi-stage ensemble-learning models. 602:1-602:12 - Siddharth Subramaniyam, Michael A. DeJesus
Statistical analysis of variability in TnSeq data across conditions using zero-inflated negative binomial regression. 603:1-603:15 - Mehdi Mirzaie
Identification of native protein structures captured by principal interactions. 604:1-604:10 - Till Köster, Philipp Henning, Adelinde M. Uhrmacher:
Potential based, spatial simulation of dynamically nested particles. 607:1-607:16 - Russul Alanni
Deep gene selection method to select genes from microarray datasets for cancer classification. 608:1-608:15 - Jiale Liu, Xinqi Gong:
Attention mechanism enhanced LSTM with residual architecture and its application for protein-protein interaction residue pairs prediction. 609:1-609:11 - Christopher Grace, Martin Farrall, Hugh Watkins, Anuj Goel
Manhattan++: displaying genome-wide association summary statistics with multiple annotation layers. 610:1-610:5 - Yuanjie Liu
A general-purpose signal processing algorithm for biological profiles using only first-order derivative information. 611:1-611:17 - Ross Mawhorter, Ran Libeskind-Hadas:
Hierarchical clustering of maximum parsimony reconciliations. 612:1-612:12 - M. Shaffer, K. Thurimella, Kevin Quinn
AMON: annotation of metabolite origins via networks to integrate microbiome and metabolome data. 614:1-614:11 - Yaman Arkun
Detection of biological switches using the method of Gröebner bases. 615:1-615:16 - Haicang Zhang, Qi Zhang, Fusong Ju, Jianwei Zhu, Yujuan Gao, Ziwei Xie, Minghua Deng, Shiwei Sun, Wei-Mou Zheng, Dongbo Bu:
Correction to: Predicting protein inter-residue contacts using composite likelihood maximization and deep learning. 616:1-616:5 - Huiwen Wang, Jiadi Qiu, Haoquan Liu, Ying Xu, Ya Jia, Yunjie Zhao:
HKPocket: human kinase pocket database for drug design. 617:1-617:11 - Olalekan Agbolade
3-Dimensional facial expression recognition in human using multi-points warping. 619 - Menghan Wang, Tianxin Yu, Jinpeng Liu, Li Chen, Arnold J. Stromberg, John L. Villano, Susanne M. Arnold
A probabilistic method for leveraging functional annotations to enhance estimation of the temporal order of pathway mutations during carcinogenesis. 620 - Hatice Akarsu
deltaRpkm: an R package for a rapid detection of differential gene presence between related bacterial genomes. 621 - Dengju Yao
An improved random forest-based computational model for predicting novel miRNA-disease associations. 624 - Vincent Branders
Identifying gene-specific subgroups: an alternative to biclustering. 625 - Jiechen Li, Xueyong Li, Xiang Feng, Bing Wang
A novel target convergence set based random walk with restart for prediction of potential LncRNA-disease associations. 626 - Amarin Jettakul, Duangdao Wichadakul
Relation extraction between bacteria and biotopes from biomedical texts with attention mechanisms and domain-specific contextual representations. 627 - Alexander M. Sevy, Cinque S. Soto, Robin G. Bombardi, Jens Meiler, James E. Crowe Jr.
Immune repertoire fingerprinting by principal component analysis reveals shared features in subject groups with common exposures. 629 - Liyuan Guo, Wei Lin, Yidan Zhang, Wenhan Li, Jing Wang
BEST: a web server for brain expression Spatio-temporal pattern analysis. 632 - Joachim Ludwig, Christian Höner zu Siederdissen
flowEMMi: an automated model-based clustering tool for microbial cytometric data. 643 - Hui Liu
Predicting effective drug combinations using gradient tree boosting based on features extracted from drug-protein heterogeneous network. 645 - Benjamin Ulfenborg
Vertical and horizontal integration of multi-omics data with miodin. 649 - Elham Khodayari Moez
Longitudinal linear combination test for gene set analysis. 650 - Michael Mayers
Time-resolved evaluation of compound repositioning predictions on a text-mined knowledge network. 653 - Louis Ranjard
Effective machine-learning assembly for next-generation amplicon sequencing with very low coverage. 654 - Martin Palazzo, Pierre Beauseroy, Patricio Yankilevich
A pan-cancer somatic mutation embedding using autoencoders. 655 - Iñigo Prada-Luengo
Sensitive detection of circular DNAs at single-nucleotide resolution using guided realignment of partially aligned reads. 663 - Christoph Kämpf, Michael Specht, Alexander Scholz, Sven-Holger Puppel
uap: reproducible and robust HTS data analysis. 664 - Lei Cai, Yufeng Wu, Jingyang Gao
DeepSV: accurate calling of genomic deletions from high-throughput sequencing data using deep convolutional neural network. 665 - Guangyao Zhou
Base-pair ambiguity and the kinetics of RNA folding. 666 - Javier De Velasco Oriol
Benchmarking machine learning models for late-onset alzheimer's disease prediction from genomic data. 709 - Chandler Gatenbee, Ryan O. Schenck
EvoFreq: visualization of the Evolutionary Frequencies of sequence and model data. 710 - Jiajin Chen
shinyBN: an online application for interactive Bayesian network inference and visualization. 711 - Jacob R Heldenbrand, Saurabh Baheti, Matthew A. Bockol, Travis M. Drucker, Steven N. Hart, Matthew E. Hudson
Correction to: Recommendations for performance optimizations when using GATK3.8 and GATK4. 722 - Michael Heinzinger
Modeling aspects of the language of life through transfer-learning protein sequences. 723 - Chunhui Liu
Wound area measurement with 3D transformation and smartphone images. 724 - Ricardo Ramirez, Allen Michael Herrera, Joshua Ramirez, Chunjiang Qian
Deriving a Boolean dynamics to reveal macrophage activation with in vitro temporal cytokine expression profiles. 725 - Remzi Celebi
Evaluation of knowledge graph embedding approaches for drug-drug interaction prediction in realistic settings. 726 - Maria Littmann
Correction to: Detailed prediction of protein sub-nuclear localization. 727 - Kohei Amano, Tsubasa Matsumoto, Kenichi Tanaka, Kimito Funatsu, Masaaki Kotera
Metabolic disassembler for understanding and predicting the biosynthetic units of natural products. 728 - Charith B. Karunarathna, Jinko Graham
perfectphyloR: An R package for reconstructing perfect phylogenies. 729 - Xin Su, Jing Xu, Yanbin Yin
Antimicrobial peptide identification using multi-scale convolutional network. 730 - Dan Jiang, Cong Xin, Jinhua Ye, Yingbo Yuan, Ming Fang
ICGRM: integrative construction of genomic relationship matrix combining multiple genomic regions for big dataset. 731 - Dvir Netanely, Neta Stern, Itay Laufer, Ron Shamir
PROMO: an interactive tool for analyzing clinically-labeled multi-omic cancer datasets. 732 - Barbara Rita Barricelli, Elena Casiraghi
ki67 nuclei detection and ki67-index estimation: a novel automatic approach based on human vision modeling. 733 - A. B. M. Shamim Ul Hasan, Hiroyuki Kurata, Sebastian Pechmann
Improvement of the memory function of a mutual repression network in a stochastic environment by negative autoregulation. 734 - Hyejin Cho, Hyunju Lee
Biomedical named entity recognition using deep neural networks with contextual information. 735 - Ranjan Kumar Barman, Anirban Mukhopadhyay
Identification of infectious disease-associated host genes using machine learning techniques. 736 - Alexandra Poos, Theresa Kordaß, Amol Kolte, Volker Ast, Marcus Oswald, Karsten Rippe
Modelling TERT regulation across 19 different cancer types based on the MIPRIP 2.0 gene regulatory network approach. 737 - Vincent Demolombe, Alexandre G. de Brevern
Benchmarking the PEPOP methods for mimicking discontinuous epitopes. 738 - Emanuel Maldonado
LMAP_S: Lightweight Multigene Alignment and Phylogeny eStimation. 739 - Rudi Alberts
ZDOG: zooming in on dominating genes with mutations in cancer pathways. 740 - Judit Kumuthini
The H3ABioNet helpdesk: an online bioinformatics resource, enhancing Africa's capacity for genomics research. 741 - Daniel Lichtblau
Alignment-free genomic sequence comparison using FCGR and signal processing. 742 - Jérémy Amand
DynaVenn: web-based computation of the most significant overlap between ordered sets. 743 - Zhen Cui, Ying-Lian Gao, Jin-Xing Liu
The computational prediction of drug-disease interactions using the dual-network L2,1-CMF method. 5 - Oyetunji E. Ogundijo, Xiaodong Wang:
SeqClone: sequential Monte Carlo based inference of tumor subclones. 6 - Kevin Michael Boehm
Predicting peptide presentation by major histocompatibility complex class I: an improved machine learning approach to the immunopeptidome. 7 - Indresh Singh
OMeta: an ontology-based, data-driven metadata tracking system. 8 - Ghanasyam Rallapalli, Pilar Corredor-Moreno
Rapid fine mapping of causative mutations from sets of unordered, contig-sized fragments of genome sequence. 9 - Andre Lamurias
BO-LSTM: classifying relations via long short-term memory networks along biomedical ontologies. 10 - Peng Wang, Yu Zhang, Bei-Qi Wang, Jian-Long Li, Yi-Xin Wang
A statistical measure for the skewness of X chromosome inactivation based on case-control design. 11 - Minzhe Zhang
GeNeCK: a web server for gene network construction and visualization. 12 - Minzhe Zhang
Identifying genes with tri-modal association with survival and tumor grade in cancer patients. 13 - Johny Ijaq, Girik Malik, Anuj Kumar
A model to predict the function of hypothetical proteins through a nine-point classification scoring schema. 14 - Takoua Jendoubi
A whitening approach to probabilistic canonical correlation analysis for omics data integration. 15 - Rong Zhu
ACCBN: ant-Colony-clustering-based bipartite network method for predicting long non-coding RNA-protein interactions. 16 - Morteza Chalabi Hajkarim
CoExpresso: assess the quantitative behavior of protein complexes in human cells. 17 - Umaporn Siangphoe, Kellie J. Archer
Classical and Bayesian random-effects meta-analysis models with sample quality weights in gene expression studies. 18 - Alexandra Zaharia, Bernard Labedan, Christine Froidevaux, Alain Denise:
CoMetGeNe: mining conserved neighborhood patterns in metabolic and genomic contexts. 19 - Ryan C. Shean, Negar Makhsous, Graham D. Stoddard, Michelle J. Lin
VAPiD: a lightweight cross-platform viral annotation pipeline and identification tool to facilitate virus genome submissions to NCBI GenBank. 48 - Meiqi Wu, Yingxi Yang, Hui Wang, Yan Xu:
A deep learning method to more accurately recall known lysine acetylation sites. 49 - Patricia Maraver, Rubén Armañanzas
PaperBot: open-source web-based search and metadata organization of scientific literature. 50 - Mostafa Hadadian Nejad Yousefi
IMOS: improved Meta-aligner and Minimap2 On Spark. 51 - Leander Dony
Parametric and non-parametric gradient matching for network inference: a comparison. 52 - Fang Zhang, Fengzhu Sun, Yihui Luan:
Statistical significance approximation for local similarity analysis of dependent time series data. 53 - Marco Moretto, Paolo Sonego
First step toward gene expression data integration: transcriptomic data acquisition with COMMAND>_. 54 - Shadia Mikhael
A controlled comparison of thickness, volume and surface areas from multiple cortical parcellation packages. 55 - Nikolay Martyushenko, Eivind Almaas
ModelExplorer - software for visual inspection and inconsistency correction of genome-scale metabolic reconstructions. 56 - André Voigt, Eivind Almaas
Assessment of weighted topological overlap (wTO) to improve fidelity of gene co-expression networks. 58 - Ya-Wei Niu, Guanghui Wang, Gui-Ying Yan, Xing Chen
Integrating random walk and binary regression to identify novel miRNA-disease association. 59 - Konstantin Okonechnikov, Serap Erkek
InTAD: chromosome conformation guided analysis of enhancer target genes. 60 - Mohammad Zia, Paul Spurgeon, Adrian Levesque, Thomas R. Furlani
GenESysV: a fast, intuitive and scalable genome exploration open source tool for variants generated from high-throughput sequencing projects. 61 - Xiaozheng Li, Huazhen Wang
Intelligent diagnosis with Chinese electronic medical records based on convolutional neural networks. 62 - Yao Yao
CERENKOV2: improved detection of functional noncoding SNPs using data-space geometric features. 63 - Farzad Farnoud
Estimation of duplication history under a stochastic model for tandem repeats. 64 - Imane Boudellioua, Maxat Kulmanov
DeepPVP: phenotype-based prioritization of causative variants using deep learning. 65 - Nicolas Borisov, Irina Shabalina, Victor Tkachev, Maxim I. Sorokin, Andrew Garazha, Andrey Pulin
Shambhala: a platform-agnostic data harmonizer for gene expression data. 66 - Kanwal Naz, Anam Naz
PanRV: Pangenome-reverse vaccinology approach for identifications of potential vaccine candidates in microbial pangenome. 123 - Hasiba Asma, Marc S. Halfon
Computational enhancer prediction: evaluation and improvements. 174 - Joseph Brown, Aaron R. Phillips, David A. Lewis, Michael-Andres Mans, Yvonne Chang
Bioinformatics Resource Manager: a systems biology web tool for microRNA and omics data integration. 255 - Eva Gorrochategui, Joaquim Jaumot, Romà Tauler
ROIMCR: a powerful analysis strategy for LC-MS metabolomic datasets. 256 - Joanna Roder, Benjamin Linstid, Carlos Oliveira:
Improving the power of gene set enrichment analyses. 257 - Florian Martin, Sylvain Gubian, Marja Talikka, Julia Hoeng, Manuel C. Peitsch:
NPA: an R package for computing network perturbation amplitudes using gene expression data and two-layer networks. 451 - Emile P. Chen
Mathematical model of hypoxia and tumor signaling interplay reveals the importance of hypoxia and cell-to-cell variability in tumor growth inhibition. 507 - S. Ha, Elena S. Dimitrova, Stefan Hoops, Doaa Altarawy, Mitra Ansariola, D. Deb, Jane Glazebrook, R. Hillmer, Hossameldin Shahin, Fumiaki Katagiri
PlantSimLab - a modeling and simulation web tool for plant biologists. 508
manage site settings
To protect your privacy, all features that rely on external API calls from your browser are turned off by default. You need to opt-in for them to become active. All settings here will be stored as cookies with your web browser. For more information see our F.A.Q.
last updated on 2024-11-05 20:50 CET by the dblp team
all metadata released as open data under CC0 1.0 license
see also: Terms of Use | Privacy Policy | Imprint
dblp was originally created in 1993 at:
since 2018, dblp has been operated and maintained by:
the dblp computer science bibliography is funded and supported by: