Read Our Latest Monthly Round Up - May 2020
 
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We are pleased to share with you our May content update, featuring journal news, top articles and our most recent table of contents.

 
Featured articles

 
 
Terminating contamination

Terminating contamination: large-scale search identifies more than 2,000,000 contaminated entries in GenBank


Steinegger and Salzberg introduce an efficient method for detecting and removing incorrectly labelled sequences, in order to prevent the contamination of genomic analyses.


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Microbiome composition in Cameroonians1

Lifestyle and the presence of helminths is associated with gut microbiome composition in Cameroonians


Tishkoff and colleagues discuss the potential role of the gut microbiota as a therapeutic target in the prevention of helminthiasis.


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Gapless assembly of maize chromosomes

Gapless assembly of maize chromosomes using long-read technologies


Liu et al. produce a maize genome with gapless assemblies of chromosomes, using two independent assemblies and an optical map-based merging pipeline.


Full text | Download PDF

 
 
 
Table of contents
 

  

 

Comment

EDITORIAL

Open access, open data and peer review

Jernej Ule

 

EDITORIAL

What are innovations in peer review and editorial assessment for?

Willem Halffman and Serge P.J.M Horbach

 

EDITORIAL

Effects of the COVID-19 pandemic on life scientists

Jan O. Korbel and Oliver Stegle

 

Research

SHORT REPORT

Sampling time-dependent artifacts in single-cell genomics studies

Ramon Massoni-Badosa et al.

 

SHORT REPORT

Gapless assembly of maize chromosomes using long-read technologies

Jianing Liu et al.

 

SHORT REPORT

Accounting for cell type hierarchy in evaluating single cell RNA-seq clustering

Zhijin Wu and Hao Wu

 

RESEARCH

Single-cell RNA-seq with spike-in cells enables accurate quantification of cell-specific drug effects in pancreatic islets

Brenda Marquina-Sanchez et al.

 

RESEARCH

Integrative analyses of the RNA modification machinery reveal tissue- and cancer-specific signatures

Oguzhan Begik et al.

 

RESEARCH

A human lung tumor microenvironment interactome identifies clinically relevant cell-type cross-talk

Andrew J. Gentles et al.

 

RESEARCH

Defining the relative and combined contribution of CTCF and CTCFL to genomic regulation

Mayilaadumveettil Nishana et al.

 

RESEARCH

Compressing gene expression data using multiple latent space dimensionalities learns complementary biological representations

Gregory P. Way et al.

 

RESEARCH

Chromatin topology reorganization and transcription repression by PML-RARα in acute promyeloid leukemia

Ping Wang et al.

 

RESEARCH

Insights gained from a comprehensive all-against-all transcription factor binding motif benchmarking study

Giovanna Ambrosini et al.

 

RESEARCH

Protection from DNA re-methylation by transcription factors in primordial germ cells and pre-implantation embryos can explain trans-generational epigenetic inheritance

Isaac Kremsky and Victor G. Corces

 

RESEARCH

RNA structural dynamics regulate early embryogenesis through controlling transcriptome fate and function

Boyang Shi et al.

 

RESEARCH

Lifestyle and the presence of helminths is associated with gut microbiome composition in Cameroonians

Meagan A. Rubel et al.

 

RESEARCH

Personalized and graph genomes reveal missing signal in epigenomic data

Cristian Groza et al.

 

RESEARCH

Developmental regulation of canonical and small ORF translation from mRNAs

Pedro Patraquim et al.

 

METHOD

MOFA+: a statistical framework for comprehensive integration of multi-modal single-cell data

Ricard Argelaguet et al.

 

METHOD

Terminating contamination: large-scale search identifies more than 2,000,000 contaminated entries in GenBank

Martin Steinegger and Steven L. Salzberg

 

METHOD

APEC: an accesson-based method for single-cell chromatin accessibility analysis

Bin Li et al.

 

METHOD

BpForms and BcForms: a toolkit for concretely describing non-canonical polymers and complexes to facilitate global biochemical networks

Paul F. Lang et al.

 

METHOD

FORK-seq: replication landscape of the Saccharomyces cerevisiae genome by nanopore sequencing

Magali Hennion et al.

 

METHOD

CICERO: a versatile method for detecting complex and diverse driver fusions using cancer RNA sequencing data

Liqing Tian et al.

 

SOFTWARE

tappAS: a comprehensive computational framework for the analysis of the functional impact of differential splicing

Lorena de la Fuente et al.

 

 
 
 
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