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MALT: Fast alignment and analysis of metagenomic DNA sequence data applied to the Tyrolean Iceman
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
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Better Filtering with Gapped q-Grams
inferredcites →https://doi.org/10.1016/0022-2836(70)90057-4openalex-snapshot
A general method applicable to the search for similarities in the amino acid sequence of two proteins
inferredcites →https://doi.org/10.1016/0022-2836(81)90087-5openalex-snapshot
Identification of common molecular subsequences
inferredcites →https://doi.org/10.1016/j.mimet.2008.07.014openalex-snapshot
An effective method for isolation of DNA from pig faeces and comparison of five different methods
inferredcites →https://doi.org/10.1016/j.tim.2007.06.004openalex-snapshot
Nontypeable Haemophilus influenzae: understanding virulence and commensal behavior
inferredcites →https://doi.org/10.1016/s0022-2836(05)80360-2openalex-snapshot
Basic Local Alignment Search Tool
inferredcites →https://doi.org/10.1038/nature10576openalex-snapshot
Metagenomic analysis of a permafrost microbial community reveals a rapid response to thaw
inferredcites →https://doi.org/10.1038/nature11209openalex-snapshot
A framework for human microbiome research
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Pre-Columbian mycobacterial genomes reveal seals as a source of New World human tuberculosis
inferredcites →https://doi.org/10.1038/nmeth.3176openalex-snapshot
Fast and sensitive protein alignment using DIAMOND
inferredcites →https://doi.org/10.1038/nprot.2014.063openalex-snapshot
Characterization of ancient and modern genomes by SNP detection and phylogenomic and metagenomic analysis using PALEOMIX
inferredcites →https://doi.org/10.1038/srep16498openalex-snapshot
Intrinsic challenges in ancient microbiome reconstruction using 16S rRNA gene amplification
inferredcites →https://doi.org/10.1093/bioinformatics/18.3.440openalex-snapshot
PatternHunter: faster and more sensitive homology search
inferredcites →https://doi.org/10.1093/bioinformatics/8.5.481openalex-snapshot
Aligning two sequences within a specified diagonal band
inferredcites →https://doi.org/10.1093/bioinformatics/btp352openalex-snapshot
The Sequence Alignment/Map format and SAMtools
inferredcites →https://doi.org/10.1093/bioinformatics/btt193openalex-snapshot
mapDamage2.0: fast approximate Bayesian estimates of ancient DNA damage parameters
inferredcites →https://doi.org/10.1093/bioinformatics/btu439openalex-snapshot
Lambda: the local aligner for massive biological data
inferredcites →https://doi.org/10.1093/nar/gki866openalex-snapshot
The Subsystems Approach to Genome Annotation and its Use in the Project to Annotate 1000 Genomes
inferredcites →https://doi.org/10.1093/nar/gkl842openalex-snapshot
NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins
inferredcites →https://doi.org/10.1093/nar/gks1219openalex-snapshot
The SILVA ribosomal RNA gene database project: improved data processing and web-based tools
inferredcites →https://doi.org/10.1101/gr.194201openalex-snapshot
SSAHA: A Fast Search Method for Large DNA Databases
inferredcites →https://doi.org/10.1101/pdb.prot5448openalex-snapshot
Illumina Sequencing Library Preparation for Highly Multiplexed Target Capture and Sequencing
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Structure and function of the global ocean microbiome
inferredcites →https://doi.org/10.1126/science.aad2545openalex-snapshot
The 5300-year-old Helicobacter pylori genome of the Iceman
inferredcites →https://doi.org/10.1126/science.aad2646openalex-snapshot
Microbial community assembly and metabolic function during mammalian corpse decomposition
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Klebsiella spp. as Nosocomial Pathogens: Epidemiology, Taxonomy, Typing Methods, and Pathogenicity Factors
inferredcites →https://doi.org/10.1186/gb-2010-11-5-r47openalex-snapshot
Computational challenges in the analysis of ancient DNA
inferredcites →https://doi.org/10.1186/gb-2014-15-3-r46openalex-snapshot
Kraken: ultrafast metagenomic sequence classification using exact alignments
inferredcites →https://doi.org/10.1186/s13059-016-0918-zopenalex-snapshot
EAGER: efficient ancient genome reconstruction
inferredcites →https://doi.org/10.1371/journal.pcbi.1004957openalex-snapshot
MEGAN Community Edition - Interactive Exploration and Analysis of Large-Scale Microbiome Sequencing Data
inferredcites →https://doi.org/10.1371/journal.pone.0077733openalex-snapshot
The Living Dead: Bacterial Community Structure of a Cadaver at the Onset and End of the Bloat Stage of Decomposition
inferredcites →https://doi.org/10.1371/journal.pone.0099994openalex-snapshot
Metagenomic Analysis Reveals Presence of Treponema denticola in a Tissue Biopsy of the Iceman
inferredcites →https://doi.org/10.5860/choice.32-6307openalex-snapshot
The man in the ice: the discovery of a 5,000-year-old body reveals the secrets of the stone age
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
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inferred← citeshttps://doi.org/10.21105/joss.04360openalex-snapshot
sam2lca: Lowest Common Ancestor for SAM/BAM/CRAM alignment files
inferred← citeshttps://doi.org/10.21203/rs.3.rs-3879251/v1openalex-snapshot
Ancient DNA study provides clues to leprosy susceptibility in medieval Europe
inferred← citeshttps://doi.org/10.2139/ssrn.5255522openalex-snapshot
Rhizarian High-Rank Assemblage Change Through Time in the Scotia Sea: A Paleo-Genomics Approach (Iodp Exp. 382)
inferred← citeshttps://doi.org/10.2139/ssrn.5255524openalex-snapshot
A 9,000 Year Marine Diatom Assemblage Reconstruction Off Eastern Tasmania, Australia, Using Microfossil and Molecular Methods
inferred← citeshttps://doi.org/10.23919/eusipco.2018.8553297openalex-snapshot
Metagenomic composition analysis of sedimentary ancient DNA from the Isle of Wight
inferred← citeshttps://doi.org/10.3389/fevo.2020.00084openalex-snapshot
PIA: More Accurate Taxonomic Assignment of Metagenomic Data Demonstrated on sedaDNA From the North Sea
inferred← citeshttps://doi.org/10.3389/fevo.2022.888421openalex-snapshot
MetaDamage tool: Examining post-mortem damage in sedaDNA on a metagenomic scale
inferred← citeshttps://doi.org/10.3389/fmicb.2017.00095openalex-snapshot
Trophic Interactions of Infant Bifidobacteria and Eubacterium hallii during L-Fucose and Fucosyllactose Degradation
inferred← citeshttps://doi.org/10.3389/fmicb.2020.550420openalex-snapshot
Interpretations of Environmental Microbial Community Studies Are Biased by the Selected 16S rRNA (Gene) Amplicon Sequencing Pipeline
inferred← citeshttps://doi.org/10.3389/fmicb.2020.575377openalex-snapshot
Proficiency Testing of Metagenomics-Based Detection of Food-Borne Pathogens Using a Complex Artificial Sequencing Dataset
inferred← citeshttps://doi.org/10.3389/fmicb.2023.1071379openalex-snapshot
Evaluation of the rbcL marker for metabarcoding of marine diatoms and inference of population structure of selected genera
inferred← citeshttps://doi.org/10.3389/fmicb.2023.1253371openalex-snapshot
The microbial biodiversity at the archeological site of Tel Megiddo (Israel)
inferred← citeshttps://doi.org/10.3390/agriculture11070572openalex-snapshot
Effect of Red Orange and Lemon Extract-Enriched Diet in Suckling Lambs’ Fecal Microbiota
inferred← citeshttps://doi.org/10.3390/biology11020297openalex-snapshot
A Computational Model of Bacterial Population Dynamics in Gastrointestinal Yersinia enterocolitica Infections in Mice
inferred← citeshttps://doi.org/10.3390/foods10061189openalex-snapshot
Metagenetic Analysis for Microbial Characterization of Focaccia Doughs Obtained by Using Two Different Starters: Traditional Baker’s Yeast and a Selected Leuconostoc citreum Strain
inferred← citeshttps://doi.org/10.3390/genes12020309openalex-snapshot
The Postmedieval Latvian Oral Microbiome in the Context of Modern Dental Calculus and Modern Dental Plaque Microbial Profiles
inferred← citeshttps://doi.org/10.3390/genes9030122openalex-snapshot
Proper Authentication of Ancient DNA Is Still Essential
inferred← citeshttps://doi.org/10.3390/genes9090445openalex-snapshot
Metagenomic Composition Analysis of an Ancient Sequenced Polar Bear Jawbone from Svalbard
inferred← citeshttps://doi.org/10.3390/heritage7020027openalex-snapshot
Related in Death? Further Insights on the Curious Case of Bishop Peder Winstrup and His Grandchild’s Burial
inferred← citeshttps://doi.org/10.3390/microorganisms10081623openalex-snapshot
A Case Study for the Recovery of Authentic Microbial Ancient DNA from Soil Samples
inferred← citeshttps://doi.org/10.3390/microorganisms11102478openalex-snapshot
Benchmarking Metagenomic Classifiers on Simulated Ancient and Modern Metagenomic Data
inferred← citeshttps://doi.org/10.3390/nu12113444openalex-snapshot
Fructose-Induced Intestinal Microbiota Shift Following Two Types of Short-Term High-Fructose Dietary Phases
inferred← citeshttps://doi.org/10.3390/nu13061808openalex-snapshot
Short- and Branched-Chain Fatty Acids as Fecal Markers for Microbiota Activity in Vegans and Omnivores
inferred← citeshttps://doi.org/10.3390/v11080703openalex-snapshot
Novel Tick Phlebovirus Genotypes Lacking Evidence for Vertebrate Infections in Anatolia and Thrace, Turkey
inferred← citeshttps://doi.org/10.3390/v11111071openalex-snapshot
Survey and Characterization of Jingmen Tick Virus Variants
inferred← citeshttps://doi.org/10.3390/v14061336openalex-snapshot
Detection of Ancient Viruses and Long-Term Viral Evolution
inferred← citeshttps://doi.org/10.5167/uzh-202801openalex-snapshot
Reproducible, portable, and efficient ancient genome reconstruction with nf-core/eager
inferred← citeshttps://doi.org/10.64898/2026.01.28.702372openalex-snapshot
MAT-classifier: A memory-efficient pipeline for accurate genus-level profiling from ancient metagenomic data
inferred← citeshttps://doi.org/10.64898/2026.07.15.738373openalex-snapshot
Ancient whole genomes reveal regional selection during adaptation to Neolithic lifestyle in Western Eurasia
inferred← citeshttps://doi.org/10.70675/8305f7f2z786az4f47z9186z32b3d7d3a8deopenalex-snapshot
Algorithms based on k-mers for ancient oral metagenomics : Tools for contamination removal and assessment in palaeometagenomics
inferred← citeshttps://doi.org/10.70675/b241df1az46a2z4334za760z6bc4c319d19copenalex-snapshot
Diagnostiquer un état de santé bucco-dentaire par une double approche macroscopique et métagénomique : application à une population rurale française du XVIIIe siècle
inferred← citeshttps://doi.org/10.7287/peerj.10947v0.1/reviews/1openalex-snapshot
Peer Review #1 of "Reproducible, portable, and efficient ancient genome reconstruction with nf-core/eager (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.10947v0.1/reviews/2openalex-snapshot
Peer Review #2 of "Reproducible, portable, and efficient ancient genome reconstruction with nf-core/eager (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.10947v0.1/reviews/3openalex-snapshot
Peer Review #3 of "Reproducible, portable, and efficient ancient genome reconstruction with nf-core/eager (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.9732v0.1/reviews/1openalex-snapshot
Peer Review #1 of "Belowground fungal community diversity, composition and ecological functionality associated with winter wheat in conventional and organic agricultural systems (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.9732v0.1/reviews/2openalex-snapshot
Peer Review #2 of "Belowground fungal community diversity, composition and ecological functionality associated with winter wheat in conventional and organic agricultural systems (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.9732v0.2/reviews/1openalex-snapshot
Peer Review #1 of "Belowground fungal community diversity, composition and ecological functionality associated with winter wheat in conventional and organic agricultural systems (v0.2)"
inferred← citeshttps://doi.org/10.7287/peerj.9732v0.2/reviews/2openalex-snapshot
Peer Review #2 of "Belowground fungal community diversity, composition and ecological functionality associated with winter wheat in conventional and organic agricultural systems (v0.2)"
inferred← citeshttps://doi.org/10.7287/peerj.preprints.2382v1openalex-snapshot
Bioinformatics support for the Tubiom community gut microbiome project
inferred← citeshttps://doi.org/10.7717/peerj.10947openalex-snapshot
Reproducible, portable, and efficient ancient genome reconstruction with nf-core/eager
inferred← citeshttps://doi.org/10.7717/peerj.16770openalex-snapshot
Benchmarking a targeted 16S ribosomal RNA gene enrichment approach to reconstruct ancient microbial communities
inferred← citeshttps://doi.org/10.7717/peerj.9732openalex-snapshot
Belowground fungal community diversity, composition and ecological functionality associated with winter wheat in conventional and organic agricultural systems
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