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Elmar Pruesse
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The SILVA ribosomal RNA gene database project: improved data processing and web-based tools
C Quast, E Pruesse, P Yilmaz, J Gerken, T Schweer, P Yarza, J Peplies, ...
Nucleic acids research 41 (D1), D590-D596, 2012
246632012
Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2
E Bolyen, JR Rideout, MR Dillon, NA Bokulich, CC Abnet, GA Al-Ghalith, ...
Nature biotechnology 37 (8), 852-857, 2019
148982019
Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies
A Klindworth, E Pruesse, T Schweer, J Peplies, C Quast, M Horn, ...
Nucleic acids research 41 (1), e1-e1, 2013
75282013
SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB
E Pruesse, C Quast, K Knittel, BM Fuchs, W Ludwig, J Peplies, ...
Nucleic acids research 35 (21), 7188-7196, 2007
68412007
The SILVA and “all-species living tree project (LTP)” taxonomic frameworks
P Yilmaz, LW Parfrey, P Yarza, J Gerken, E Pruesse, C Quast, T Schweer, ...
Nucleic acids research 42 (D1), D643-D648, 2014
30122014
SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes
E Pruesse, J Peplies, FO Glöckner
Bioinformatics 28 (14), 1823-1829, 2012
29912012
Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences
P Yarza, P Yilmaz, E Pruesse, FO Glöckner, W Ludwig, KH Schleifer, ...
Nature Reviews Microbiology 12 (9), 635-645, 2014
23602014
Bioconda: sustainable and comprehensive software distribution for the life sciences
B Grüning, R Dale, A Sjödin, BA Chapman, J Rowe, CH Tomkins-Tinch, ...
Nature methods 15 (7), 475-476, 2018
8472018
Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications
P Yilmaz, R Kottmann, D Field, R Knight, JR Cole, L Amaral-Zettler, ...
Nature biotechnology 29 (5), 415-420, 2011
7242011
phyloFlash: rapid small-subunit rRNA profiling and targeted assembly from metagenomes
HR Gruber-Vodicka, BKB Seah, E Pruesse
Msystems 5 (5), 10.1128/msystems. 00920-20, 2020
2292020
Type 2 and interferon inflammation regulate SARS-CoV-2 entry factor expression in the airway epithelium
SP Sajuthi, P DeFord, Y Li, ND Jackson, MT Montgomery, JL Everman, ...
Nature communications 11 (1), 5139, 2020
207*2020
ARB: a software environment for sequence data
R Westram, K Bader, E Prüsse, Y Kumar, H Meier, FO Glöckner, ...
Handbook of Molecular Microbial Ecology I, 399-406, 2011
1042011
& Glöckner, FO (2014). The SILVA and “all-species living tree project (LTP)” taxonomic frameworks
P Yilmaz, LW Parfrey, P Yarza, J Gerken, E Pruesse, C Quast, T Schweer, ...
Nucleic acids research 42 (1), D643-D648, 0
53
Analysis of 23S rRNA genes in metagenomes–a case study from the Global Ocean Sampling Expedition
P Yilmaz, R Kottmann, E Pruesse, C Quast, FO Glöckner
Systematic and applied microbiology 34 (6), 462-469, 2011
222011
SILVA databases
C Quast, E Pruesse, J Gerken, T Schweer, P Yilmaz, J Peplies, ...
Encyclopedia of Metagenomics: Genes, Genomes and Metagenomes: Basics …, 2015
142015
SILVA: comprehensive databases for quality checked and aligned ribosomal RNA sequence data compatible with ARB
E Pruesse, C Quast, P Yilmaz, W Ludwig, FO Glöckner
Handbook of Molecular Microbial Ecology I: Metagenomics and Complementary …, 2011
112011
Viral Determinants of Early-Life Lower Respiratory Tract Illnesses: Results From the PRIMERO Birth Cohort Study
CM Moore, EA Secor, A Fairbanks-Mahnke, JR Elhawary, JL Everman, ...
C17. PEDIATRIC IMPACT OF COVID-19 AND OTHER RESPIRATORY INFECTIONS, A5000-A5000, 2024
2024
Transcriptional Dysregulation of Airway Epithelial and Immune Cells in Deployment-Related Lung Disease
JL Everman, N Jackson, EA Secor, E Pruesse, L Zell-Baran, M Kramaric, ...
B107. GENETIC AND TRANSCRIPTOMIC SIGNATURES IN LUNG DISEASES, A4912-A4912, 2024
2024
Rhinovirus (HRV) Infection Drives Severe Wheezing Episodes in Toddlers: Viral Metagenomic Analysis in the WINDOWS Study
E Secor, KL Hamlington, JL Everman, K Diener, ND Jackson, Z Stewart, ...
D28. PEDIATRIC PULMONOLOGY BENCH-TO-BEDSIDE: GENETICS, WHOLE-EXOME …, 2024
2024
The Puerto Rican Infant Metagenomic and Epidemiologic Study of Respiratory Outcomes (PRIMERO): Design and Baseline Characteristics for a Birth Cohort Study of Early-life Viral …
JI Witonsky, JR Elhawary, C Eng, SS Oh, S Salazar, ...
medRxiv, 2024.04. 15.24305359, 2024
2024
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