Subject: Bioinformatics Table of Contents for 15 May 2018 Oxford Academic
 
 
 
oxford_logo.jpg
 
 
 
 
New issue alert
 
 
 
 
 
 
Bioinformatics  
Volume 34 Issue 10
 
15 May 2018
 
button-issue.png
 
ORIGINAL PAPERS
 
 
 
 
GENOME ANALYSIS
 
 
 
A high-resolution map of the human small non-coding transcriptome 
 
Tobias Fehlmann; Christina Backes; Julia Alles; Ulrike Fischer; Martin Hart ...
 
 
Genome U-Plot: a whole genome visualization 
 
Athanasios Gaitatzes; Sarah H Johnson ; James B Smadbeck; George Vasmatzis
 
 
A benchmark study of scoring methods for non-coding mutations 
 
Damien Drubay; Daniel Gautheret; Stefan Michiels
 
 
Tumor purity quantification by clonal DNA methylation signatures 
 
Matteo Benelli; Dario Romagnoli; Francesca Demichelis
 
 
 
SEQUENCE ANALYSIS
 
 
 
CALQ: compression of quality values of aligned sequencing data 
 
Jan Voges ; Jörn Ostermann; Mikel Hernaez
 
 
 
 
Mapping-free variant calling using haplotype reconstruction from k-mer frequencies border= 
 
Peter A Audano; Shashidhar Ravishankar; Fredrik O Vannberg
 
 
Machine learning for classifying tuberculosis drug-resistance from DNA sequencing data border= 
 
Yang Yang; Katherine E Niehaus; Timothy M Walker ; Zamin Iqbal; A Sarah Walker ...
 
 
Computational identification of micro-structural variations and their proteogenomic consequences in cancer 
 
Yen-Yi Lin; Alexander Gawronski; Faraz Hach; Sujun Li; Ibrahim Numanagić ...
 
 
K2 and K 2 * : efficient alignment-free sequence similarity measurement based on Kendall statistics 
 
Jie Lin; Donald A Adjeroh ; Bing-Hua Jiang; Yue Jiang
 
 
DeepSig: deep learning improves signal peptide detection in proteins border= 
 
Castrense Savojardo; Pier Luigi Martelli; Piero Fariselli; Rita Casadio
 
 
 
 
ChopStitch: exon annotation and splice graph construction using transcriptome assembly and whole genome sequencing data border= 
 
Hamza Khan; Hamid Mohamadi; Benjamin P Vandervalk; Rene L Warren; Justin Chu ...
 
 
LeNup: learning nucleosome positioning from DNA sequences with improved convolutional neural networks border=  
 
Juhua Zhang; Wenbo Peng; Lei Wang
 
 
Sensitive and specific post-call filtering of genetic variants in xenograft and primary tumors 
 
Brian K Mannakee; Uthra Balaji ; Agnieszka K Witkiewicz; Ryan N Gutenkunst; Erik S Knudsen
 
 
 
STRUCTURAL BIOINFORMATICS
 
 
 
mTM-align: an algorithm for fast and accurate multiple protein structure alignment 
 
Runze Dong; Zhenling Peng; Yang Zhang ; Jianyi Yang
 
 
 
GENE EXPRESSION
 
 
 
Multiple hot-deck imputation for network inference from RNA sequencing data 
 
Alyssa Imbert; Armand Valsesia; Caroline Le Gall; Claudia Armenise; Gregory Lefebvre ...
 
 
CRNET: an efficient sampling approach to infer functional regulatory networks by integrating large-scale ChIP-seq and time-course RNA-seq data 
 
Xi Chen ; Jinghua Gu; Xiao Wang; Jin-Gyoung Jung; Tian-Li Wang ...
 
 
 
GENETICS AND POPULATION ANALYSIS
 
 
 
A network approach to exploring the functional basis of gene'gene epistatic interactions in disease susceptibility 
 
Danny Kit-Sang Yip ; Landon L Chan; Iris K Pang; Wei Jiang; Nelson L S Tang ...
 
 
 
SYSTEMS BIOLOGY
 
 
 
Ontological function annotation of long non-coding RNAs through hierarchical multi-label classification 
 
Jingpu Zhang ; Zuping Zhang; Zixiang Wang; Yuting Liu; Lei Deng
 
 
 
DATA AND TEXT MINING
 
 
 
Algorithmic identification of discrepancies between published ratios and their reported confidence intervals and P-values 
 
Constantin Georgescu; Jonathan D Wren
 
 
 
BIOIMAGE INFORMATICS
 
 
 
A benchmark for comparing precision medicine methods in thyroid cancer diagnosis using tissue microarrays 
 
Ching-Wei Wang; Yu-Ching Lee; Evelyne Calista; Fan Zhou ; Hongtu Zhu ...
 
 
APPLICATIONS NOTES
 
 
 
 
GENOME ANALYSIS
 
 
 
SV2: accurate structural variation genotyping and de novo mutation detection from whole genomes 
 
Danny Antaki; William M Brandler; Jonathan Sebat
 
 
Personal Cancer Genome Reporter: variant interpretation report for precision oncology border= 
 
Sigve Nakken; Ghislain Fournous ; Daniel Vodák; Lars Birger Aasheim; Ola Myklebost ...
 
 
Enrichment analysis with EpiAnnotator border= 
 
Yoann Pageaud; Christoph Plass; Yassen Assenov
 
 
 
STRUCTURAL BIOINFORMATICS
 
 
 
PyChimera: use UCSF Chimera modules in any Python 2.7 project 
 
Jaime Rodríguez-Guerra Pedregal ; Jean-Didier Maréchal
 
 
 
GENETICS AND POPULATION ANALYSIS
 
 
 
PGA: post-GWAS analysis for disease gene identification 
 
Jhih-Rong Lin; Daniel Jaroslawicz; Ying Cai; Quanwei Zhang; Zhen Wang ...
 
 
 
SYSTEMS BIOLOGY
 
 
 
R2DGC: threshold-free peak alignment and identification for 2D gas chromatography-mass spectrometry in R 
 
Ryne C Ramaker ; Emily R Gordon; Sara J Cooper
 
 
polyPK: an R package for pharmacokinetic analysis of multi-component drugs using a metabolomics approach 
 
Mengci Li; Shouli Wang; Guoxiang Xie; Xiaohui Ma; Tianlu Chen ...
 
 
Aligning dynamic networks with DynaWAVE 
 
Vipin Vijayan; Tijana Milenković
 
 
 
DATA AND TEXT MINING
 
 
 
ChronQC: a quality control monitoring system for clinical next generation sequencing 
 
Nilesh R Tawari; Justine Jia Wen Seow; Dharuman Perumal; Jack L Ow; Shimin Ang ...
 
 
Unsubscribe       Manage email alerts
 
Written requests to unsubscribe can be sent to: Journals Marketing, Oxford University Press, Great Clarendon Street, Oxford, OX2 6DP, UK.

The content of this email is protected by copyright.
 
oxforde_university.jpg
 
 
 
                                 


This email is intended for bionet@evol.biology.mcmaster.ca.