Methplotlib: analysis of modified nucleotides from nanopore sequencing

Single-molecule sequencing detection of N6-methyladenine in microbial reference materials

(2019) Alexa B. R. McIntyre et al.   Nature Communications

Using long-read sequencing to detect imprinted DNA methylation

(2019) Scott Gigante et al.   NUCLEIC ACIDS RESEARCH

NanoMod: a computational tool to detect DNA modifications using Nanopore long-read sequencing data

(2019) Qian Liu et al.   BMC GENOMICS

DNAmod: the DNA modification database

(2019) Ankur Jai Sood et al.   Journal of Cheminformatics

Differentially methylated regions in bipolar disorder and suicide

(2019) Marie E. Gaine et al.   AMERICAN JOURNAL OF MEDICAL GENETICS PART B-NEUROPSYCHIATRIC GENETICS

Structural variants identified by Oxford Nanopore PromethION sequencing of the human genome

(2019) Wouter De Coster et al.   GENOME RESEARCH

Detection of DNA base modifications by deep recurrent neural network on Oxford Nanopore sequencing data

(2019) Qian Liu et al.   Nature Communications

The diverse roles of DNA methylation in mammalian development and disease

(2019) Maxim V. C. Greenberg et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Recent advances in the detection of base modifications using the Nanopore sequencer

(2019) Liu Xu et al.   JOURNAL OF HUMAN GENETICS

Highly parallel direct RNA sequencing on an array of nanopores

(2018) Daniel R Garalde et al.   NATURE METHODS

Bioconda: sustainable and comprehensive software distribution for the life sciences

(2018) Björn Grüning et al.   NATURE METHODS

GENCODE reference annotation for the human and mouse genomes

(2018) Adam Frankish et al.   NUCLEIC ACIDS RESEARCH

Detecting DNA cytosine methylation using nanopore sequencing

(2017) Jared T Simpson et al.   NATURE METHODS

Mapping DNA methylation with high-throughput nanopore sequencing

(2017) Arthur C Rand et al.   NATURE METHODS

Imprinting at the PLAGL1 domain is contained within a 70-kb CTCF/cohesin-mediated non-allelic chromatin loop

(2013) Isabel Iglesias-Platas et al.   NUCLEIC ACIDS RESEARCH

Snakemake--a scalable bioinformatics workflow engine

(2012) J. Koster et al.   BIOINFORMATICS

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

(2012) H. Thorvaldsdottir et al.   BRIEFINGS IN BIOINFORMATICS

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

Epigenetic control of alternative mRNA processing at the imprinted Herc3/Nap1l5 locus

(2012) Michael Cowley et al.   NUCLEIC ACIDS RESEARCH

The NumPy Array: A Structure for Efficient Numerical Computation

(2011) Stéfan van der Walt et al.   COMPUTING IN SCIENCE & ENGINEERING

The role of GNAS and other imprinted genes in the development of obesity

(2009) L S Weinstein et al.   INTERNATIONAL JOURNAL OF OBESITY