BAIT: Organizing genomes and mapping rearrangements in single cells

Beyond sequencing: optical mapping of DNA in the age of nanotechnology and nanoscopy

(2013) Michal Levy-Sakin et al.   CURRENT OPINION IN BIOTECHNOLOGY

DNA template strand sequencing of single-cells maps genomic rearrangements at high resolution

(2012) Ester Falconer et al.   NATURE METHODS

The UCSC Genome Browser database: extensions and updates 2013

(2012) Laurence R. Meyer et al.   NUCLEIC ACIDS RESEARCH

The Genomes OnLine Database (GOLD) v.4: status of genomic and metagenomic projects and their associated metadata

(2011) I. Pagani et al.   NUCLEIC ACIDS RESEARCH

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Finishing genomes with limited resources: lessons from an ensemble of microbial genomes

(2010) Niranjan Nagarajan et al.   BMC GENOMICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Identification of sister chromatids by DNA template strand sequences

(2009) Ester Falconer et al.   NATURE

Mapping translocation breakpoints by next-generation sequencing

(2008) W. Chen et al.   GENOME RESEARCH

Genome instability: a mechanistic view of its causes and consequences

(2008) Andrés Aguilera et al.   NATURE REVIEWS GENETICS