[HTML][HTML] Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

…, SJ Hallam, SP Jungbluth, TJG Ettema, S Tighe… - Nature …, 2017 - nature.com
We present two standards developed by the Genomic Standards Consortium (GSC) for
reporting bacterial and archaeal genome sequences. Both are extensions of the Minimum …

[HTML][HTML] Genomic methods and microbiological technologies for profiling novel and extreme environments for the extreme microbiome project (XMP)

S Tighe, E Afshinnekoo, TM Rock… - Journal of …, 2017 - ncbi.nlm.nih.gov
The Extreme Microbiome Project (XMP) is a project launched by the Association of Biomolecular
Resource Facilities Metagenomics Research Group (ABRF MGRG) that focuses on …

[PDF][PDF] A global metagenomic map of urban microbiomes and antimicrobial resistance

…, L Shi, T Shi, R Siam, H Suzuki, SW Tighe… - Cell, 2021 - cell.com
We present a global atlas of 4,728 metagenomic samples from mass-transit systems in 60
cities over 3 years, representing the first systematic, worldwide catalog of the urban microbial …

[HTML][HTML] Comprehensive benchmarking and ensemble approaches for metagenomic classifiers

…, SS Minot, D Danko, J Foox, S Ahsanuddin, S Tighe… - Genome biology, 2017 - Springer
Background One of the main challenges in metagenomics is the identification of microorganisms
in clinical and environmental samples. While an extensive and heterogeneous set of …

[HTML][HTML] Real-time DNA sequencing in the Antarctic dry valleys using the Oxford Nanopore sequencer

…, E Zaikova, DS Goerlitz, Y Bai, SW Tighe - Journal of …, 2017 - ncbi.nlm.nih.gov
The ability to sequence DNA outside of the laboratory setting has enabled novel research
questions to be addressed in the field in diverse areas, ranging from environmental …

[PDF][PDF] Geospatial resolution of human and bacterial diversity with city-scale metagenomics

…, EM Hénaff, P Zumbo, M Walsh, GD O'Mullan, S Tighe… - Cell systems, 2015 - cell.com
The panoply of microorganisms and other species present in our environment influence human
health and disease, especially in cities, but have not been profiled with metagenomics at …

Multi-platform assessment of transcriptome profiling using RNA-seq in the ABRF next-generation sequencing study

S Li, SW Tighe, CM Nicolet, D Grove, S Levy… - Nature …, 2014 - nature.com
High-throughput RNA sequencing (RNA-seq) greatly expands the potential for genomics
discoveries, but the wide variety of platforms, protocols and performance capabilitites has …

Molecular signatures suggest a major role for stromal cells in development of invasive breast cancer

T Casey, J Bond, S Tighe, T Hunter, L Lintault… - Breast cancer research …, 2009 - Springer
Background Breast cancer invasion and metastasis involves both epithelial and stromal
changes. Our objective was to delineate the pivotal role stroma plays in invasion by comparing …

Performance assessment of DNA sequencing platforms in the ABRF Next-Generation Sequencing Study

J Foox, SW Tighe, CM Nicolet, JM Zook… - Nature …, 2021 - nature.com
Assessing the reproducibility, accuracy and utility of massively parallel DNA sequencing
platforms remains an ongoing challenge. Here the Association of Biomolecular Resource …

[HTML][HTML] Direct RT-qPCR detection of SARS-CoV-2 RNA from patient nasopharyngeal swabs without an RNA extraction step

EA Bruce, ML Huang, GA Perchetti, S Tighe… - PLoS …, 2020 - journals.plos.org
The ongoing COVID-19 pandemic has created an unprecedented need for rapid diagnostic
testing. The World Health Organization (WHO) recommends a standard assay that includes …