R. Henrik Nilsson

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galaxie-CGI scripts for sequence identification through automated phylogenetic analysis

R. Henrik Nilsson, Karl-Henrik Larsson, Björn M. Ursing, 2004, Bioinform..

New Ph.D. students in the empirical sciences should be recruited into ongoing scientific studies right from the start

R. Henrik Nilsson, Erik Kristiansson, Martin Ryberg, 2016 .

Integration and validation of resources for high-throughput classification of fungal communities

R. Henrik Nilsson, Gerhard G. Thallinger, Kessy Abarenkov, 2014, ECCB 2014.

Metaxa2 Database Builder: enabling taxonomic identification from metagenomic or metabarcoding data using any genetic marker

R. Henrik Nilsson, Christian Wurzbacher, Reed M. Johnson, 2018, Bioinform..

Approaching the taxonomic affiliation of unidentified sequences in public databases – an example from the mycorrhizal fungi

R. Henrik Nilsson, Martin Ryberg, Erik Kristiansson, 2005, BMC Bioinformatics.

Mapping and Publishing Sequence-Derived Data through Biodiversity Data Platforms

R. Henrik Nilsson, Thomas Stjernegaard Jeppesen, Michael Hope, 2020 .

The UNITE database for molecular identification of fungi: handling dark taxa and parallel taxonomic classifications

R. Henrik Nilsson, Frank Oliver Glöckner, Kessy Abarenkov, 2018, Nucleic Acids Res..

galaxieEST: addressing EST identity through automated phylogenetic analysis

R. Henrik Nilsson, Karl-Henrik Larsson, Björn M. Ursing, 2004, BMC Bioinformatics.

Unbiased probabilistic taxonomic classification for DNA barcoding

R. Henrik Nilsson, Panu Somervuo, Otso Ovaskainen, 2016, Bioinform..

PlutoF—a Web Based Workbench for Ecological and Taxonomic Research, with an Online Implementation for Fungal ITS Sequences

R. Henrik Nilsson, Kessy Abarenkov, Karl-Henrik Larsson, 2010, Evolutionary Bioinformatics Online.

Annotating public fungal ITS sequences from the built environment according to the MIxS-Built Environment standard – a report from a May 23-24, 2016 workshop (Gothenburg, Sweden)

R. Henrik Nilsson, Gunilla Bok, Erik Kristiansson, 2016 .

Data from: PROTAX-fungi: a web-based tool for probabilistic taxonomic placement of fungal ITS sequences

R. Henrik Nilsson, Panu Somervuo, Kessy Abarenkov, 2019 .

Metaxa2 Diversity Tools: Easing microbial community analysis with Metaxa2

R. Henrik Nilsson, Christian Wurzbacher, Johan Bengtsson-Palme, 2016, Ecol. Informatics.

Finding needles in haystacks: linking scientific names, reference specimens and molecular data for Fungi

R. Henrik Nilsson, Kazuaki Tanaka, Qing Cai, 2014, Database J. Biol. Databases Curation.

DivBayes and SubT: exploring species diversification using Bayesian statistics

R. Henrik Nilsson, Martin Ryberg, P. Brandon Matheny, 2011, Bioinform..

High-Throughput Diversity Analysis and Quality Control of Environmental Data Derived from Next-Generation Sequencing Studies

R. Henrik Nilsson, Martin Eriksson, Johan Bengtsson, 2012 .

New light on names and naming of dark taxa

R. Henrik Nilsson, Martin Ryberg, R. H. Nilsson, 2018, MycoKeys.

Novel soil-inhabiting clades fill gaps in the fungal tree of life

R. Henrik Nilsson, Mohammad Bahram, Timothy Y. James, 2017, Microbiome.

Unravelling Soil Fungal Communities from Different Mediterranean Land-Use Backgrounds

R. Henrik Nilsson, Alfredo Vizzini, Valeria Bianciotto, 2012, PloS one.

A Comprehensive, Automatically Updated Fungal ITS Sequence Dataset for Reference-Based Chimera Control in Environmental Sequencing Efforts

R. Henrik Nilsson, Erik Kristiansson, Kessy Abarenkov, 2015, Microbes and environments.

A note on the incidence of reverse complementary fungal ITS sequences in the public sequence databases and a software tool for their detection and reorientation

R. Henrik Nilsson, Kessy Abarenkov, Zheng Wang, 2011, Mycoscience.

Five simple guidelines for establishing basic authenticity and reliability of newly generated fungal ITS sequences.

R. Henrik Nilsson, Erik Kristiansson, Nils Hallenberg, 2012 .

Progress in molecular and morphological taxon discovery in Fungi and options for formal classification of environmental sequences

R. Henrik Nilsson, Dylan Glotzer, Paul M. Kirk, 2011 .

Taxonomic Reliability of DNA Sequences in Public Sequence Databases: A Fungal Perspective

R. Henrik Nilsson, Erik Kristiansson, Kessy Abarenkov, 2006, PloS one.

Top 50 most wanted fungi

R. Henrik Nilsson, Erik Kristiansson, Kessy Abarenkov, 2016 .

SUPERSMART: ecology and evolution in the era of big data

R. Henrik Nilsson, Hannes Hettling, Michael J. Sanderson, 2014 .

Tidying up international nucleotide sequence databases

R. Henrik Nilsson, Petr Kohout, Kessy Abarenkov, 2011 .

Intraspecific ITS Variability in the Kingdom Fungi as Expressed in the International Sequence Databases and Its Implications for Molecular Species Identification

R. Henrik Nilsson, Erik Kristiansson, Nils Hallenberg, 2008, Evolutionary bioinformatics online.

Tasting Soil Fungal Diversity with Earth Tongues: Phylogenetic Test of SATé Alignments for Environmental ITS Data

R. Henrik Nilsson, Jeffrey P. Townsend, Zheng Wang, 2011, PloS one.

Improved software detection and extraction of ITS1 and ITS2 from ribosomal ITS sequences of fungi and other eukaryotes for analysis of environmental sequencing data

R. Henrik Nilsson, Erik Kristiansson, Zheng Wang, 2013 .

Tidying Up International Nucleotide Sequence Databases: Ecological, Geographical and Sequence Quality Annotation of ITS Sequences of Mycorrhizal Fungi

R. Henrik Nilsson, Petr Kohout, Kessy Abarenkov, 2011, PloS one.

An open source software package for automated extraction of ITS1 and ITS2 from fungal ITS sequences for use in high-throughput community assays and molecular ecology

R. Henrik Nilsson, Erik Kristiansson, Kessy Abarenkov, 2010 .

Toward a Self-Updating Platform for Estimating Rates of Speciation and Migration, Ages, and Relationships of Taxa

R. Henrik Nilsson, Hannes Hettling, Michael J. Sanderson, 2016, Systematic biology.

Improving ITS sequence data for identification of plant pathogenic fungi

R. Henrik Nilsson, Daniel Lindner, Kevin D. Hyde, 2014, Fungal Diversity.

Global diversity and geography of soil fungi

R. Henrik Nilsson, Erki Saluveer, Petr Kohout, 2014, Science.