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List of works by Simon Rasmussen

100 ancient genomes show repeated population turnovers in Neolithic Denmark

scientific article published on 10 January 2024

137 ancient human genomes from across the Eurasian steppes

scientific article published in Nature

A 5700 year-old human genome and oral microbiome from chewed birch pitch

scientific article published on 17 December 2019

A Selective Sweep on a Deleterious Mutation in CPT1A in Arctic Populations

scientific article

A genomic history of Aboriginal Australia

scientific article (publication date: 21 September 2016)

Alpha proteobacterial ancestry of the [Fe-Fe]-hydrogenases in anaerobic eukaryotes.

scientific article published on 30 July 2016

An Aboriginal Australian genome reveals separate human dispersals into Asia

scientific article (publication date: 7 October 2011)

Ancient genomes show social and reproductive behavior of early Upper Paleolithic foragers

scientific article published on 5 October 2017

Ancient hepatitis B viruses from the Bronze Age to the Medieval period

scientific article published in Nature

Ancient nuclear genomes enable repatriation of Indigenous human remains

scientific article published on 19 December 2018

Ancient pathogen DNA in human teeth and petrous bones.

scientific article

Author Correction: 137 ancient human genomes from across the Eurasian steppes

scientific article published in Nature

Author Correction: Ancient hepatitis B viruses from the Bronze Age to the Medieval period

scientific article published in Nature

Bacterial natural transformation by highly fragmented and damaged DNA ⬇️

scientific article (publication date: 3 December 2013)

Benchmarking of methods for genomic taxonomy

scientific article published on 26 February 2014

Bifidobacterium bifidum actively changes the gene expression profile induced by Lactobacillus acidophilus in murine dendritic cells

scientific article

Binning microbial genomes using deep learning

scholarly article published 10 December 2018

Biosynthesis of bioactive diterpenoids in the medicinal plant Vitex agnus-castus.

scientific article

Complete genes may pass from food to human blood.

scientific article

Construction of a dairy microbial genome catalog opens new perspectives for the metagenomic analysis of dairy fermented products

scientific article

Critical Assessment of Metagenome Interpretation: the second round of challenges

scientific article published in April 2022

Defining NASH from a Multi-Omics Systems Biology Perspective

scientific article published in 2021

Derived immune and ancestral pigmentation alleles in a 7,000-year-old Mesolithic European

scientific article

Dhurrin metabolism in the developing grain of Sorghum bicolor (L.) Moench investigated by metabolite profiling and novel clustering analyses of time-resolved transcriptomic data

scientific article

Early divergent strains of Yersinia pestis in Eurasia 5,000 years ago

scientific article

Early human dispersals within the Americas

scientific article published in Science

Emergence and Spread of Basal Lineages of Yersinia pestis during the Neolithic Decline

scientific article published on 06 December 2018

FAVA: high-quality functional association networks inferred from scRNA-seq and proteomics data

scientific article published in 2024

Gene expression plasticity across hosts of an invasive scale insect species ⬇️

scientific article

Genome Sequence of Talaromyces atroroseus, Which Produces Red Colorants for the Food Industry

scientific article

Genome-scale cold stress response regulatory networks in ten Arabidopsis thaliana ecotypes

scientific article

Genome-wide ancestry patterns in Rapanui suggest pre-European admixture with Native Americans

scientific article

Genomic characterization, phylogenetic analysis, and identification of virulence factors in Aerococcus sanguinicola and Aerococcus urinae strains isolated from infection episodes

scientific article

Global monitoring of antimicrobial resistance based on metagenomics analyses of urban sewage

scientific article published on 08 March 2019

Global network reorganization during dynamic adaptations of Bacillus subtilis metabolism

scientific article published in March 2012

Hybridization capture using short PCR products enriches small genomes by capturing flanking sequences (CapFlank)

scientific article

Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes

scientific article published on 6 July 2014

Identification of acquired antimicrobial resistance genes

scientific article published on 10 July 2012

Impaired uptake and/or utilization of leucine by Saccharomyces cerevisiae is suppressed by the SPT15-300 allele of the TATA-binding protein gene

scientific article published on 7 August 2009

Improved metagenome binning and assembly using deep variational autoencoders

scientific article

In silico assessment of virulence factors in strains of Streptococcus oralis and Streptococcus mitis isolated from patients with Infective Endocarditis

scientific article

Lactobacillus acidophilus induces virus immune defence genes in murine dendritic cells by a Toll-like receptor-2-dependent mechanism

scientific article published on October 2010

Meta-genomic analysis of toilet waste from long distance flights; a step towards global surveillance of infectious diseases and antimicrobial resistance

scientific article published on 10 July 2015

Metagenomic analysis of rapid gravity sand filter microbial communities suggests novel physiology of Nitrospira spp.

scientific article

Metagenomic species profiling using universal phylogenetic marker genes

scientific article

Microbial community structure of Arctic multiyear sea ice and surface seawater by 454 sequencing of the 16S RNA gene.

scientific article

Multilocus sequence typing of total-genome-sequenced bacteria

scientific article

Noninvasive proteomic biomarkers for alcohol-related liver disease

scientific article published in 2022

Novel variation and de novo mutation rates in population-wide de novo assembled Danish trios ⬇️

scientific article

Origins and genetic legacies of the Caribbean Taino

scientific article published on 20 February 2018

POPULATION GENETICS. Genomic evidence for the Pleistocene and recent population history of Native Americans

scientific article

Physiological and Genetic Adaptations to Diving in Sea Nomads

scientific article

Population genomics of Bronze Age Eurasia

scientific article published on June 2015

Population genomics of post-glacial western Eurasia

scientific article published on 10 January 2024

Population genomics of the Viking world

scientific article published on 16 September 2020

Proteasomal degradation of herpes simplex virus capsids in macrophages releases DNA to the cytosol for recognition by DNA sensors

scientific article published on 23 January 2013

Rare truncating variants in the sarcomeric protein titin associate with familial and early-onset atrial fibrillation

scientific article published in Nature Communications

Re-theorising mobility and the formation of culture and language among the Corded Ware Culture in Europe

article

Reads2Type: a web application for rapid microbial taxonomy identification

scientific article published on 25 November 2015

Richness of human gut microbiome correlates with metabolic markers

scientific article (publication date: 29 August 2013)

SCAI promotes error-free repair of DNA interstrand crosslinks via the Fanconi anemia pathway

scientific article published on 14 February 2022

Sequencing and de novo assembly of 150 genomes from Denmark as a population reference

scientific article published in Nature

Similar genomic patterns of clinical infective endocarditis and oral isolates of Streptococcus sanguinis and Streptococcus gordonii

scientific article published on 17 February 2020

Targeted Metabolic Engineering Guided by Computational Analysis of Single-Nucleotide Polymorphisms (SNPs)

scientific article published on 01 January 2013

Terminal Pleistocene Alaskan genome reveals first founding population of Native Americans.

scientific article

The first horse herders and the impact of early Bronze Age steppe expansions into Asia

scientific article

The genetic prehistory of the New World Arctic

scientific article

The genome of a Late Pleistocene human from a Clovis burial site in western Montana

scientific article

The prehistoric peopling of Southeast Asia

scientific article

The transcriptionally active regions in the genome of Bacillus subtilis

scientific article

Transcriptional landscape estimation from tiling array data using a model of signal shift and drift

scientific article

Transcriptome analysis of root-knot nematode (Meloidogyne incognita)-infected tomato (Solanum lycopersicum) roots reveals complex gene expression profiles and metabolic networks of both host and nematode during susceptible and resistance responses

scientific article published on 21 February 2017

Transcriptome profiling of brown adipose tissue during cold exposure reveals extensive regulation of glucose metabolism

scientific article published on 16 December 2014

Transcriptome responses to combinations of stresses in Arabidopsis

scientific article

Two ancient human genomes reveal Polynesian ancestry among the indigenous Botocudos of Brazil

scientific article

Unraveling ancestry, kinship, and violence in a Late Neolithic mass grave

scientific article published on 06 May 2019

Upper Palaeolithic Siberian genome reveals dual ancestry of Native Americans

scientific article

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