Screening human cell lines for viral infections applying RNA-Seq data analysis

Unique, dual-indexed sequencing adapters with UMIs effectively eliminate index cross-talk and significantly improve sensitivity of massively parallel sequencing

(2018) Laura E. MacConaill et al.   BMC GENOMICS

Prevalence and Characterization of Murine Leukemia Virus Contamination in Human Cell Lines

(2015) Cord C. Uphoff et al.   PLoS One

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Guidelines for the use of cell lines in biomedical research

(2014) R J Geraghty et al.   BRITISH JOURNAL OF CANCER

Large scale comparison of non-human sequences in human sequencing data

(2014) Hongseok Tae et al.   GENOMICS

High-Throughput RNA Sequencing-Based Virome Analysis of 50 Lymphoma Cell Lines from the Cancer Cell Line Encyclopedia Project

(2014) Subing Cao et al.   JOURNAL OF VIROLOGY

Sequencing depth and coverage: key considerations in genomic analyses

(2014) David Sims et al.   NATURE REVIEWS GENETICS

Diverse and Widespread Contamination Evident in the Unmapped Depths of High Throughput Sequencing Data

(2014) Richard W. Lusk   PLoS One

Microbial Contamination in Next Generation Sequencing: Implications for Sequence-Based Analysis of Clinical Samples

(2014) Michael J. Strong et al.   PLoS Pathogens

The rise and fall of XMRV

(2013) O. K. Kakisi et al.   TRANSFUSION MEDICINE

Finding the lost treasures in exome sequencing data

(2013) David C. Samuels et al.   TRENDS IN GENETICS

Quantification of Human and Animal Viruses to Differentiate the Origin of the Fecal Contamination Present in Environmental Samples

(2013) Sílvia Bofill-Mas et al.   Biomed Research International

Infection of Xenotransplanted Human Cell Lines by Murine Retroviruses: A Lesson Brought Back to Light by XMRV

(2013) Heidi A. Hempel et al.   Frontiers in Oncology

Contamination of Cell Cultures with Bovine Viral Diarrhea Virus (BVDV)

(2012) L. V. Uryvaev et al.   BULLETIN OF EXPERIMENTAL BIOLOGY AND MEDICINE

The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity

(2012) Jordi Barretina et al.   NATURE

Differential expression in RNA-seq: A matter of depth

(2011) S. Tarazona et al.   GENOME RESEARCH

Recombinant Origin of the Retrovirus XMRV

(2011) T. Paprotka et al.   SCIENCE

Detection of EBV, HBV, HCV, HIV-1, HTLV-I and -II, and SMRV in Human and Other Primate Cell Lines

(2010) Cord C. Uphoff et al.   JOURNAL OF BIOMEDICINE AND BIOTECHNOLOGY