ARB: a software environment for sequence data.

By Wolfgang Ludwig, O. Strunk, Ralf Westram, L. Richter, Harald Meier, Yadhukumar, Arno Buchner, Tina Lai, Susanne Steppi, Gangolf Jobb and 22 more. Nucleic Acids Research, 2004

7,018 citations recorded by the source corpus.

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/b1e141498735c775d232fe1b81432ae748b96ab7

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Molecular Biology

Citations in the corpus

A Bioinformatician's Guide to Metagenomics (2008, methodology): “Alternative approaches to address the problem include making separate trees for each metagenomic gene only in the context of the reference data set, subdividing the alignment into smaller parts to produce more complete subalignments that can still contain multiple metagenome-derived genes, or insert”
Benchmarking of Methods for Genomic Taxonomy (2014, background): “However, for more than 30 years, 16S rRNA sequence data have served as the backbone for the classiﬁcation of prokaryotes (1), and tremendous amounts of 16S rRNA sequences are available in public repositories (2–4).”
Detection and Phylogenetic Relationships of Highly Diverse Uncultured Acidobacterial Communities in Altamira Cave Using 23S rRNA Sequence Analyses (2005, methodology): “Phylogenetic analyses were performed using the ARB software package (Ludwig et al. 2004).”
Performance, Accuracy, and Web Server for Evolutionary Placement of Short Sequence Reads under Maximum Likelihood (2011, positive): “…alignment (RA) for the RS and then inserted into the RT either via a complete de novo tree reconstruction, a constrained tree search, using the RT as a constraint or backbone, or a fast and/or approximate QS addition algorithm, such as ARB (Ludwig et al. 2004), which uses maximum parsimony (MP).”
Diazotrophic endophytes of native black cottonwood and willow (2009, methodology): “Tree was reconstructed using the maximum-likelihood method of ProML implemented in ARB (Ludwig et al., 2004) based on manual alignment of aminoacid sequences. pathogens or by producing plant growth hormones.”
NAST: a multiple sequence alignment server for comparative analysis of 16S rRNA genes (2006, methodology): “Once aligned, the entire batch can be classiﬁed by Greengenes using taxonomic nomenclature proposed by independent curators [NCBI, RDP/Bergey’s (19) Ludwig (20) Hugenholtz (21) and Pace (22)].”
Corrosion of Iron by Sulfate-Reducing Bacteria: New Views of an Old Problem (2013, methodology): “The tree was calculated based on maximum likelihood with the ARB software package and SILVA database (126, 127).”