The landscape of viral expression and host gene fusion and adaptation in human cancer

The Subread aligner: fast, accurate and scalable read mapping by seed-and-vote

(2013) Yang Liao et al.   NUCLEIC ACIDS RESEARCH

VirusSeq: software to identify viruses and their integration sites using next-generation sequencing of human cancer tissue

(2012) Yunxin Chen et al.   BIOINFORMATICS

Are viruses associated with human breast cancer? Scrutinizing the molecular evidence

(2012) Deepti Joshi et al.   BREAST CANCER RESEARCH AND TREATMENT

The effects of hepatitis B virus integration into the genomes of hepatocellular carcinoma patients

(2012) Z. Jiang et al.   GENOME RESEARCH

The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression

(2012) T. Derrien et al.   GENOME RESEARCH

Interpreting cancer genomes using systematic host network perturbations by tumour virus proteins

(2012) Orit Rozenblatt-Rosen et al.   NATURE

Genome-wide survey of recurrent HBV integration in hepatocellular carcinoma

(2012) Wing-Kin Sung et al.   NATURE GENETICS

Consensus on the role of human cytomegalovirus in glioblastoma

(2012) K. Dziurzynski et al.   NEURO-ONCOLOGY

Non-Random Integration of the HPV Genome in Cervical Cancer

(2012) Martina Schmitz et al.   PLoS One

MCV and Merkel cell carcinoma: a molecular success story

(2012) Reety Arora et al.   Current Opinion in Virology

SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler

(2012) Ruibang Luo et al.   GigaScience

Pathogen detection using short-RNA deep sequencing subtraction and assembly

(2011) O. Isakov et al.   BIOINFORMATICS

Quality control and preprocessing of metagenomic datasets

(2011) R. Schmieder et al.   BIOINFORMATICS

Genomic analysis identifies association of Fusobacterium with colorectal carcinoma

(2011) A. D. Kostic et al.   GENOME RESEARCH

Disease-associated XMRV sequences are consistent with laboratory contamination

(2011) Stephane Hue et al.   Retrovirology

Human papillomavirus is not associated with colorectal cancer in a large international study

(2010) Michele C. Gornick et al.   CANCER CAUSES & CONTROL

p53 is balancing development, differentiation and de-differentiation to assure cancer prevention

(2010) A. Molchadsky et al.   CARCINOGENESIS

Frequent genomic structural alterations at HPV insertion sites in cervical carcinoma

(2010) Martine Peter et al.   JOURNAL OF PATHOLOGY

Preventing cancer through tobacco and infection control: how many lives can we save in the next 10 years?

(2009) Kathleen Strong et al.   EUROPEAN JOURNAL OF CANCER PREVENTION

BK virus and human cancer: Innocent until proven guilty

(2009) Johanna R. Abend et al.   SEMINARS IN CANCER BIOLOGY

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Prediction of future metastasis and molecular characterization of head and neck squamous-cell carcinoma based on transcriptome and genome analysis by microarrays

(2008) D S Rickman et al.   ONCOGENE

Clonal Integration of a Polyomavirus in Human Merkel Cell Carcinoma

(2008) H. Feng et al.   SCIENCE

The human papillomavirus E7 oncoprotein

(2008) Margaret E. McLaughlin-Drubin et al.   VIROLOGY