Orchestrating single-cell analysis with Bioconductor

…, D Risso, C Soneson, L Waldron, H Pagès, ML Smith… - Nature …, 2020 - nature.com
Recent technological advancements have enabled the profiling of a large number of genome-wide
features in individual cells. However, single-cell data present unique challenges that …

beadarray: R classes and methods for Illumina bead-based data

MJ Dunning, ML Smith, ME Ritchie, S Tavaré - Bioinformatics, 2007 - academic.oup.com
The R/Bioconductor package beadarray allows raw data from Illumina experiments to be read
and stored in convenient R classes. Users are free to choose between various methods of …

Ordering of mutations in preinvasive disease stages of esophageal carcinogenesis

…, P Lao-Sirieix, MJ Dunning, L Smith, ML Smith… - Nature …, 2014 - nature.com
Cancer genome sequencing studies have identified numerous driver genes, but the relative
timing of mutations in carcinogenesis remains unclear. The gradual progression from …

[HTML][HTML] Prognostic value of Doppler transmitral flow patterns in patients with congestive heart failure

GY Xie, MR Berk, MD Smith, JC Gurley… - Journal of the American …, 1994 - Elsevier
Objectives. This study was designed to determine whether Doppler echocardiographic
transmitral flow patterns can predict cardiac mortality in patients with congestive heart failure. …

Quantitative assessment of mitral regurgitation by Doppler color flow imaging: angiographic and hemodynamic correlations

MG Spain, MD Smith, PA Grayburn… - Journal of the American …, 1989 - Elsevier
This study was performed to test the hypothesis that measurements of jet area by Doppler
color flow imaging can predict the angiographic severity and hemodynamic consequences of …

[HTML][HTML] Transesophageal echocardiography in the diagnosis of traumatic rupture of the aorta

MD Smith, JM Cassidy, S Souther… - … England Journal of …, 1995 - Mass Medical Soc
Background Rupture of the aorta is a major cause of death after motor vehicle accidents.
Survival depends on early diagnosis, and emergency aortography is the standard imaging …

[HTML][HTML] illuminaio: An open source IDAT parsing tool for Illumina microarrays

ML Smith, KA Baggerly, H Bengtsson, ME Ritchie… - …, 2013 - ncbi.nlm.nih.gov
The IDAT file format is used to store BeadArray data from the myriad of genomewide
profiling platforms on offer from Illumina Inc. This proprietary format is output directly from the …

[HTML][HTML] Telomerecat: A ploidy-agnostic method for estimating telomere length from whole genome sequencing data

JHR Farmery, ML Smith, AG Lynch - Scientific reports, 2018 - nature.com
Telomere length is a risk factor in disease and the dynamics of telomere length are crucial
to our understanding of cell replication and vitality. The proliferation of whole genome …

Musculoskeletal pain in cardiac ultrasonographers: results of a random survey

AC Smith, JG Wolf, GY Xie, MD Smith - Journal of the American Society of …, 1997 - Elsevier
Myalgias and arthralgias are common among workers whose jobs require repetitive isometric
maneuvers or malalignment of body position. However, few systematic studies have been …

Machine learning to predict early recurrence after oesophageal cancer surgery

…, S Tavaré, AG Lynch, ML Smith… - Journal of British …, 2020 - academic.oup.com
Background Early cancer recurrence after oesophagectomy is a common problem, with an
incidence of 20–30 per cent despite the widespread use of neoadjuvant treatment. …