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Dear Colleague,

 

 

Genome Biology is pleased to share with you our November content update, featuring journal news, top articles and our most recent table of contents.

 
 
Journal news

 
 

Check out Genome Biology's latest special issue on Insights from Genome Editing, which contains research, methods, and commissioned reviews and opinions from leading researchers in the field.

Genome Biology and BMC Biology are currently inviting submissions to their upcoming joint special issue on Microbiome Biology. The special issue, which is planned for the spring/early summer of 2019, will be guest edited by Rob Knight (UC San Diego, USA), Ruth Ley (MPI for Developmental Biology, Tuebingen, Germany), Elizabeth Grice (University of Pennsylvania, USA) and Jeroen Raes (KU Leuven, Belgium).

Andrew Cosgrove will be attending the Exploring Human Host-Microbiome Interactions in Health and Disease conference from December 5th-7th at the Wellcome Genome Campus. Email us to set up a meeting.

Genome Biology and its sister journals BMC Biology and Genome Medicine now provide the opportunity for co-submissions, where authors submit a manuscript for joint consideration at two of these journals at the same time. Co-submissions provide a faster publication process, saving authors' time and avoiding the need for multiple submissions. You can learn more about co-submissions here.

 
 
 
Featured articles

 
 
Lachance et al

Genetic disease risks across populations

Lachance et al focus on highlighting the importance of incorporating evolutionary history of disease loci when conducting GWAS studies to better understand ways of combating disease and promoting health.

 
 
 
Miller et al

Evolutionary trajectories of robust and complex coral lineages

Miller and co report the assembly of the genomes of three corals and unveil findings related to coral nutrition and symbiosis.

 
 
 
Manalis et al

Linking single-cell measurements of mass, growth rat, and gene expression

Manalis et al describe their novel method; one of the first to allow for linked measurements of cellular mass, growth rate and transcriptome-wide gene expression from the same cell.

 
 
 
 
Table of contents
 
 
 


Comment

REVIEW
Livestock 2.0 - genome editing for fitter, healthier, and more productive farmed animals
Tait-Burkard et al

REVIEW

Ten things you should know about transposable elements

Bourgue et al.

REVIEW

DNA methylation and de-methylation using hybrid site-targeting proteins

Lei, Huang and Goodell

REVIEW

Applications and potential of genome editing in crop improvement
Zhang et al. 

RESEARCH HIGHLIGHT

A new look at an old question: when did the second whole genome duplication occur in vertebrate evolution?

Holland and Daza

RESEARCH HIGHLIGHT

The bird's-eye view on chromosome evolution

Zhang

RESEARCH HIGHLIGHT

Understanding and repurposing CRISPR-mediated alternative splicing

Smith, Mou and Xue

RESEARCH HIGHLIGHT

CRISPR/Cas9 offers a new tool for studying the role of chromatin architecture in disease pathogenesis

Guo and Dean

EDITORIAL

Transparent peer review trial: the results

Cosgrove and Cheifet

EDITORIAL

Genome editing: from tools to biological insights

Yao

 
 
 

Research

SHORT REPORT

Conferring DNA virus resistance with high specificity in plants using virus-inducible genome-editing system

Ji et al. 

SHORT REPORT

Live imaging and tracking of genome regions in CRISPR/dCas9 knock-in mice

Duan et al. 

DATABASE

CHESS: a new human gene catalog curated from thousands of large-scale RNA sequencing experiments reveals extensive transcriptional noise

Pertea et al. 

RESEARCH

N6-methyldeoxyadenosine directs nucleosome positioning in Tetrahymena DNA

Luo et al

RESEARCH

Genomes reveal marked differences in the adaptive evolution between orangutan species

Mattle-Greminger et al

RESEARCH

Genetic disease risks can be misestimated across global populations

Kim et al.  

RESEARCH

LncRNAs in polyploid cotton interspecific hybrids are derived from transposon neofunctionalization
Zhao et al. 

RESEARCH

Expression quantitative trait loci in the developing human brain and their enrichment in neuropsychiatric disorders

O'Brien et al

RESEARCH
LaminA/C regulates epigenetic and chromatin architecture changes upon aging of hematopoietic stem cells

Grigoryan et al

RESEARCH

Recurrent mutations at estrogen receptor binding sites alter chromatin topology and distal gene expression in breast cancer

Yang et al. 

RESEARCH

Combining accurate tumor genome simulation with crowdsourcing to benchmark somatic structural variant detection

Lee et al.  

RESEARCH

Comparative genomics reveals the distinct evolutionary trajectories of the robust and complex coral lineages

Ying et al. 

 
 

 

Method

METHOD

Linking single-cell measurements of mass, growth rate, and gene expression

Kimmerling et al

METHOD

CODEX2: full-spectrum copy number variation detection by high-throughput DNA sequencing

Jiang et al

METHOD

Pooled extracellular receptor-ligand interaction screening using CRISPR activation

Chong et al.  

METHOD

GRIPT: a novel case-control analysis method for Mendelian disease gene discovery

Wang et al. 

METHOD

VIPER: variability-preserving imputation for accurate gene expression recovery in single-cell RNA sequencing studies

Chen and Zhou

METHOD

Simulation-based benchmarking of isoform quantification in single-cell RNA-seq

Westoby et al. 

METHOD

omniCLIP: probabilistic identification of protein-RNA interactions from CLIP-seq data

Drewe-Boss, Wessels and Ohler

 
 
 

Software


SOFTWARE

KrakenUniq: confident and fast metagenomics classification using unique k-mer counts

Breitwieser, Baker and Salzberg

 
 
 
 
 
 
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