A 2-transcript host cell signature distinguishes viral from bacterial diarrhea and it is influenced by the severity of symptoms

[1]  Matthew C. Altman,et al.  Shared and organism-specific host responses to childhood diarrheal diseases revealed by whole blood transcript profiling , 2018, PloS one.

[2]  M. Kaforou,et al.  Genome‐wide host RNA signatures of infectious diseases: discovery and clinical translation , 2017, Immunology.

[3]  A. Salas,et al.  Whole Exome Sequencing reveals new candidate genes in host genomic susceptibility to Respiratory Syncytial Virus Disease , 2017, Scientific Reports.

[4]  J. A. Russell,et al.  Unbiased Strain-Typing of Arbovirus Directly from Mosquitoes Using Nanopore Sequencing: A Field-forward Biosurveillance Protocol , 2017, bioRxiv.

[5]  L. Miele,et al.  Ancestry as a potential modifier of gene expression in breast tumors from Colombian women , 2017, PloS one.

[6]  C. Sohn,et al.  Low utility of blood culture in pediatric community-acquired pneumonia: An observational study on 2705 patients admitted to the emergency department , 2017, Medicine.

[7]  Mathias C. Walter,et al.  MinION as part of a biomedical rapidly deployable laboratory. , 2017, Journal of biotechnology.

[8]  C. Amos,et al.  Population effect model identifies gene expression predictors of survival outcomes in lung adenocarcinoma for both Caucasian and Asian patients , 2017, PloS one.

[9]  L. Coin,et al.  Diagnosis of Bacterial Infection Using a 2-Transcript Host RNA Signature in Febrile Infants 60 Days or Younger , 2017, JAMA.

[10]  Stefano Lise,et al.  Making the most of RNA-seq: Pre-processing sequencing data with Opossum for reliable SNP variant detection , 2017, Wellcome open research.

[11]  Trevor Bedford,et al.  Multiplex PCR method for MinION and Illumina sequencing of Zika and other virus genomes directly from clinical samples , 2017, Nature Protocols.

[12]  A. Salas,et al.  Strong down-regulation of glycophorin genes: A host defense mechanism against rotavirus infection. , 2016, Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases.

[13]  C. Hoggart,et al.  Diagnostic Test Accuracy of a 2-Transcript Host RNA Signature for Discriminating Bacterial vs Viral Infection in Febrile Children. , 2016, JAMA.

[14]  O. Ramilo,et al.  Association of RNA Biosignatures With Bacterial Infections in Febrile Infants Aged 60 Days or Younger. , 2016, JAMA.

[15]  Måns Magnusson,et al.  MultiQC: summarize analysis results for multiple tools and samples in a single report , 2016, Bioinform..

[16]  H. Dupont,et al.  ACG Clinical Guideline: Diagnosis, Treatment, and Prevention of Acute Diarrheal Infections in Adults , 2016, The American Journal of Gastroenterology.

[17]  Colin G Fink,et al.  Does Viral Co-Infection Influence the Severity of Acute Respiratory Infection in Children? , 2016, PloS one.

[18]  A. Salas,et al.  Mapping the genomic mosaic of two ‘Afro-Bolivians’ from the isolated Yungas valleys , 2016, BMC Genomics.

[19]  Daniel J. Gaffney,et al.  A survey of best practices for RNA-seq data analysis , 2016, Genome Biology.

[20]  E. Brown,et al.  Antibacterial drug discovery in the resistance era , 2016, Nature.

[21]  Colin G Fink,et al.  Viral Co-Infections in Pediatric Patients Hospitalized with Lower Tract Acute Respiratory Infections , 2015, PloS one.

[22]  N. Singhal,et al.  MALDI-TOF mass spectrometry: an emerging technology for microbial identification and diagnosis , 2015, Front. Microbiol..

[23]  Charles M. Rice,et al.  Corrigendum: A diverse range of gene products are effectors of the type I interferon antiviral response , 2015, Nature.

[24]  P. Ferrieri,et al.  Blood Culture in Evaluation of Pediatric Community-Acquired Pneumonia: A Systematic Review and Meta-analysis. , 2015, Hospital pediatrics.

[25]  Carmen Cadarso-Suárez,et al.  OptimalCutpoints: An R Package for Selecting Optimal Cutpoints in Diagnostic Tests , 2014 .

[26]  Matthias Bethge,et al.  Natter: A Python Natural Image Statistics Toolbox , 2014 .

[27]  C. Llor,et al.  Antimicrobial resistance: risk associated with antibiotic overuse and initiatives to reduce the problem , 2014, Therapeutic advances in drug safety.

[28]  D. Kelly,et al.  Childhood meningitis in the conjugate vaccine era: a prospective cohort study , 2014, Archives of Disease in Childhood.

[29]  A. Salas,et al.  A Genome-Wide Study of Modern-Day Tuscans: Revisiting Herodotus's Theory on the Origin of the Etruscans , 2014, PloS one.

[30]  G. McVean,et al.  Integrating mapping-, assembly- and haplotype-based approaches for calling variants in clinical sequencing applications , 2014, Nature Genetics.

[31]  A. Salas,et al.  Evaluating the accuracy of AIM panels at quantifying genome ancestry , 2014, BMC Genomics.

[32]  Matthew Thompson,et al.  Clinical prediction model to aid emergency doctors managing febrile children at risk of serious bacterial infections: diagnostic study , 2013, BMJ : British Medical Journal.

[33]  Thomas R. Gingeras,et al.  STAR: ultrafast universal RNA-seq aligner , 2013, Bioinform..

[34]  G. Weinstock,et al.  Detection of Viruses in Young Children With Fever Without an Apparent Source , 2012, Pediatrics.

[35]  Kenny Q. Ye,et al.  An integrated map of genetic variation from 1,092 human genomes , 2012, Nature.

[36]  David B. Witonsky,et al.  Reconstructing Native American Population History , 2012, Nature.

[37]  Helga Thorvaldsdóttir,et al.  Integrative Genomics Viewer , 2011, Nature Biotechnology.

[38]  Andrew Hayen,et al.  The accuracy of clinical symptoms and signs for the diagnosis of serious bacterial infection in young febrile children: prospective cohort study of 15 781 febrile illnesses , 2010, BMJ : British Medical Journal.

[39]  David H. Alexander,et al.  Fast model-based estimation of ancestry in unrelated individuals. , 2009, Genome research.

[40]  D. Comas,et al.  Linguistic and maternal genetic diversity are not correlated in Native Mexicans , 2009, Human Genetics.

[41]  Lin Chen,et al.  Susceptibility to glaucoma: differential comparison of the astrocyte transcriptome from glaucomatous African American and Caucasian American donors , 2008, Genome Biology.

[42]  Manuel A. R. Ferreira,et al.  PLINK: a tool set for whole-genome association and population-based linkage analyses. , 2007, American journal of human genetics.

[43]  Joshua T. Burdick,et al.  Common genetic variants account for differences in gene expression among ethnic groups , 2007, Nature Genetics.

[44]  Alex E. Lash,et al.  Gene Expression Omnibus: NCBI gene expression and hybridization array data repository , 2002, Nucleic Acids Res..