Read Our Latest Monthly Round Up - March 2020
Explore our latest featured articles, reports, highlights and more
Genome Biology
About   How to Submit  
Editorial Board   Article Alerts
Dear Colleague,

We are pleased to share with you our March content update, featuring journal news, top articles and our most recent table of contents.

Journal news


The special issue on Cancer Evolution and Metastasis, guest edited by Christina Curtis and Florian Markowetz has launched. The deadline for submissions has been extended to May 31st 2020. Please see the landing page for more details.

Featured articles


Avocado: a multi-scale deep tensor factorization method learns a latent representation of the human epigenome

Schreiber and colleagues use a deep neural network tensor factorization method to impute epigenomic data and to predict gene expression, promoter-enhancer interactions, and replication timing.

Full text | Download PDF

Completing the ENCODE3

Completing the ENCODE3 compendium yields accurate imputations across a variety of assays and human biosamples

Schrieber et al apply Avocado to data from the ENCODE compendium and show that it  facilitates the addition of assays and biosamples to pre-trained models.

Full text | Download PDF

The genome evolution

The genome evolution and domestication of tropical fruit mango

Wang and colleagues generate the genome assembly of the mango, providing crucial information on the evolution of one of the world’s most important tropical fruits.

Full text | Download PDF

Table of contents




Renaissance minds in 21st century science

Itai Yanai and Martin Lercher



A benchmark of algorithms for the analysis of pooled CRISPR screens

Sunil Bodapati et al.



Accurate targeted long-read DNA methylation and hydroxymethylation sequencing with TAPS

Yibin Liu et al.


WhatsGNU: a tool for identifying proteomic novelty

Ahmed M. Moustafa and Paul J. Planet


Decode-seq: a practical approach to improve differential gene expression analysis

Yingshu Li et al.


Longitudinal survey of microbiome associated with particulate matter in a megacity

Nan Qin et al.


The genome evolution and domestication of tropical fruit mango

Peng Wang et al.


Hemispheric asymmetry in the human brain and in Parkinson’s disease is linked to divergent epigenetic patterns in neurons

Peipei Li et al.


High-resolution modeling of the selection on local mRNA folding strength in coding sequences across the tree of life

Michael Peeri and Tamir Tuller


Smarcad1 mediates microbiota-induced inflammation in mouse and coordinates gene expression in the intestinal epithelium

Juri Kazakevych et al.


Benchmarking of computational error-correction methods for next-generation sequencing data

Keith Mitchell et al.


Obstacles to detecting isoforms using full-length scRNA-seq data

Jennifer Westoby et al.


Tandem CTCF sites function as insulators to balance spatial chromatin contacts and topological enhancer-promoter selection

Zhilian Jia et al.


High-resolution Repli-Seq defines the temporal choreography of initiation, elongation and termination of replication in mammalian cells

Peiyao A. Zhao et al.


A Cas12a ortholog with stringent PAM recognition followed by low off-target editing rates for genome editing

Peng Chen et al.


Diverse genetic mechanisms underlie worldwide convergent rice feralization

Jie Qiu et al.


Characterisation of genetic regulatory effects for osteoporosis risk variants in human osteoclasts

Benjamin H. Mullin et al.


CRISPRi-based radiation modifier screen identifies long non-coding RNA therapeutic targets in glioma
John Liu et al.


gscreend: modelling asymmetric count ratios in CRISPR screens to decrease experiment size and improve phenotype detection

Katharina Imkeller et al.


Decontamination of ambient RNA in single-cell RNA-seq with DecontX

Shiyi Yang et al.


Multiplexed capture of spatial configuration and temporal dynamics of locus-specific 3D chromatin by biotinylated dCas9

Xin Liu et al.


CHOP: haplotype-aware path indexing in population graphs

Tom Mokveld et al.


BANDITS: Bayesian differential splicing accounting for sample-to-sample variability and mapping uncertainty

Simone Tiberi and Mark D. Robinson


VALOR2: characterization of large-scale structural variants using linked-reads

Fatih Karao─člano─člu et al.


HiNT: a computational method for detecting copy number variations and translocations from Hi-C data

Su Wang et al.


DeepMILO: a deep learning approach to predict the impact of non-coding sequence variants on 3D chromatin structure

Tuan Trieu et al.


Avocado: a multi-scale deep tensor factorization method learns a latent representation of the human epigenome

Jacob Schreiber et al.


Completing the ENCODE3 compendium yields accurate imputations across a variety of assays and human biosamples

Jacob Schreiber et al.


NanoVar: accurate characterization of patients’ genomic structural variants using low-depth nanopore sequencing

Cheng Yong Tham et al.


Ultraplexing: increasing the efficiency of long-read sequencing for hybrid assembly with k-mer-based multiplexing

Alexander T. Dilthey et al.


Submit your research

Genome Biology is fully open access, giving high visibility to your work.

  • Ranked 3rd among research journals in the Genetics and Heredity category of the JCR* – the highest open access journal within the category

  • Dedicated to excellent author service – the status of your manuscript will be constantly monitored with handling editors proactively communicating updates

  • Global visibility – published articles achieve high visibility through our engaging homepage and press releases of papers. We also have a Facebook page with over 31,000 followers and a highly active Twitter account, which has over 65,000 followers


  Submit your research today  
Follow us on:
Genome Biology on Twitter   Genome Biology on Facebook   BMC on YouTube   Linkedin
COVID-19 image
© BioMed Central
This email has been sent to $email$.

This is how to ensure we're always delivering our latest content to your inbox.

Use this unsubscribe link to stop receiving any further messages from BMC.

For further information or enquiries please use our Contact page details. 

BMC respects your privacy and does not disclose, sell or rent your personal information to any nonaffiliated third parties without your consent. Privacy Policy
BioMed Central Ltd.
The Campus, 4 Crinan Street, 
London, N1 9XW,
United Kingdom
© 2020 BioMed Central | Part of Springer Nature