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MetaTrans: an open-source pipeline for metatranscriptomics

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1007/s002030050373openalex-snapshot

Ruminococcus hydrogenotrophicus sp. nov., a new H 2 /CO 2 -utilizing acetogenic bacterium isolated from human feces

inferredcites →https://doi.org/10.1016/j.ymeth.2013.06.027openalex-snapshot

Kraken: A set of tools for quality control and analysis of high-throughput sequence data

inferredcites →https://doi.org/10.1038/ismej.2011.139openalex-snapshot

An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea

inferredcites →https://doi.org/10.1038/ismej.2011.158openalex-snapshot

The activity level of a microbial community function can be predicted from its metatranscriptome

inferredcites →https://doi.org/10.1038/nature08821openalex-snapshot

A human gut microbial gene catalogue established by metagenomic sequencing

inferredcites →https://doi.org/10.1038/nature11234openalex-snapshot

Structure, function and diversity of the healthy human microbiome

inferredcites →https://doi.org/10.1038/nbt.2942openalex-snapshot

An integrated catalog of reference genes in the human gut microbiome

inferredcites →https://doi.org/10.1038/nmeth.3176openalex-snapshot

Fast and sensitive protein alignment using DIAMOND

inferredcites →https://doi.org/10.1038/nmeth.f.303openalex-snapshot

QIIME allows analysis of high-throughput community sequencing data

inferredcites →https://doi.org/10.1093/bioinformatics/btp336openalex-snapshot

SOAP2: an improved ultrafast tool for short read alignment

inferredcites →https://doi.org/10.1093/bioinformatics/btq461openalex-snapshot

Search and clustering orders of magnitude faster than BLAST

inferredcites →https://doi.org/10.1093/bioinformatics/btr708openalex-snapshot

ART: a next-generation sequencing read simulator

inferredcites →https://doi.org/10.1093/bioinformatics/bts611openalex-snapshot

SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data

inferredcites →https://doi.org/10.1093/bioinformatics/btv272openalex-snapshot

Polyester : simulating RNA-seq datasets with differential transcript expression

inferredcites →https://doi.org/10.1093/gbe/evu050openalex-snapshot

A Phylogenomic View of Ecological Specialization in the Lachnospiraceae, a Family of Digestive Tract-Associated Bacteria

inferredcites →https://doi.org/10.1093/molbev/msp077openalex-snapshot

FastTree: Computing Large Minimum Evolution Trees with Profiles instead of a Distance Matrix

inferredcites →https://doi.org/10.1093/nar/gkm864openalex-snapshot

SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB

inferredcites →https://doi.org/10.1093/nar/gkn689openalex-snapshot

rrnDB: documenting the number of rRNA and tRNA genes in bacteria and archaea

inferredcites →https://doi.org/10.1093/nar/gkn787openalex-snapshot

GtRNAdb: a database of transfer RNA genes detected in genomic sequence

inferredcites →https://doi.org/10.1093/nar/gkq747openalex-snapshot

FragGeneScan: predicting genes in short and error-prone reads

inferredcites →https://doi.org/10.1093/nar/gkr313openalex-snapshot

iPath2.0: interactive pathway explorer

inferredcites →https://doi.org/10.1093/nar/gks1005openalex-snapshot

Rfam 11.0: 10 years of RNA families

inferredcites →https://doi.org/10.1101/gr.112730.110openalex-snapshot

Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons

inferredcites →https://doi.org/10.1128/aem.03006-05openalex-snapshot

Greengenes, a Chimera-Checked 16S rRNA Gene Database and Workbench Compatible with ARB

inferredcites →https://doi.org/10.1128/aem.06811-11openalex-snapshot

Metatranscriptomic Analysis of Microbes in an Oceanfront Deep-Subsurface Hot Spring Reveals Novel Small RNAs and Type-Specific tRNA Degradation

inferredcites →https://doi.org/10.1136/gutjnl-2012-303013openalex-snapshot

Anal gas evacuation and colonic microbiota in patients with flatulence: effect of diet

inferredcites →https://doi.org/10.1186/1471-2164-14-530openalex-snapshot

A comprehensive metatranscriptome analysis pipeline and its validation using human small intestine microbiota datasets

inferredcites →https://doi.org/10.1186/1471-2180-12-158openalex-snapshot

Storage conditions of intestinal microbiota matter in metagenomic analysis

inferredcites →https://doi.org/10.1186/1756-0500-6-503openalex-snapshot

Impact of RNA-seq attributes on false positive rates in differential expression analysis of de novo assembled transcriptomes

inferredcites →https://doi.org/10.1186/2041-9139-4-16openalex-snapshot

A quantitative reference transcriptome for Nematostella vectensis earlyembryonic development: a pipeline for de novo assembly in emergingmodel systems

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/s13059-014-0550-8openalex-snapshot

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

inferredcites →https://doi.org/10.1371/journal.pcbi.1004008openalex-snapshot

A RESTful API for Accessing Microbial Community Data for MG-RAST

inferredcites →https://doi.org/10.1371/journal.pone.0017447openalex-snapshot

Metatranscriptomic Approach to Analyze the Functional Human Gut Microbiota

inferredcites →https://doi.org/10.1371/journal.pone.0061126openalex-snapshot

Comparative Metagenomic and Metatranscriptomic Analysis of Hindgut Paunch Microbiota in Wood- and Dung-Feeding Higher Termites

inferredcites →https://doi.org/10.1371/journal.pone.0114804openalex-snapshot

IM-TORNADO: A Tool for Comparison of 16S Reads from Paired-End Libraries

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.3897/imafungus.17.185187zenodo-depositor-declared

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inferred← citeshttps://doi.org/10.1002/9781119062585.ch5openalex-snapshot

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inferred← citeshttps://doi.org/10.1002/agg2.70169openalex-snapshot

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inferred← citeshttps://doi.org/10.1016/b978-0-443-22372-3.00002-9openalex-snapshot

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inferred← citeshttps://doi.org/10.1016/j.animal.2025.101575openalex-snapshot

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inferred← citeshttps://doi.org/10.1016/j.aninu.2024.11.027openalex-snapshot

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inferred← citeshttps://doi.org/10.1016/j.fnutr.2026.100067openalex-snapshot

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inferred← citeshttps://doi.org/10.1016/j.insi.2026.100395openalex-snapshot

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inferred← citeshttps://doi.org/10.1016/j.jnutbio.2020.108340openalex-snapshot

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inferred← citeshttps://doi.org/10.1016/j.micres.2022.127180openalex-snapshot

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inferred← citeshttps://doi.org/10.1016/j.mucimm.2026.100375openalex-snapshot

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inferred← citeshttps://doi.org/10.1016/j.nbt.2017.05.002openalex-snapshot

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inferred← citeshttps://doi.org/10.1016/j.pmpp.2024.102381openalex-snapshot

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inferred← citeshttps://doi.org/10.1016/j.scitotenv.2019.06.451openalex-snapshot

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inferred← citeshttps://doi.org/10.1038/s41467-019-08844-4openalex-snapshot

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inferred← citeshttps://doi.org/10.1038/s43705-022-00189-2openalex-snapshot

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inferred← citeshttps://doi.org/10.1038/srep37243openalex-snapshot

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inferred← citeshttps://doi.org/10.1093/bib/bbac529openalex-snapshot

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inferred← citeshttps://doi.org/10.1093/bib/bbx051openalex-snapshot

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inferred← citeshttps://doi.org/10.1093/bib/bby012openalex-snapshot

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inferred← citeshttps://doi.org/10.1093/bioinformatics/btab327openalex-snapshot

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inferred← citeshttps://doi.org/10.1093/femsre/fuw046openalex-snapshot

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inferred← citeshttps://doi.org/10.1093/gigascience/giz096openalex-snapshot

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inferred← citeshttps://doi.org/10.1093/ismeco/ycaf090openalex-snapshot

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inferred← citeshttps://doi.org/10.1093/nar/gkab353openalex-snapshot

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inferred← citeshttps://doi.org/10.1093/nar/gkag478openalex-snapshot

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inferred← citeshttps://doi.org/10.1093/nargab/lqaa058openalex-snapshot

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inferred← citeshttps://doi.org/10.1093/nargab/lqaa083openalex-snapshot

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inferred← citeshttps://doi.org/10.1093/toxsci/kfac029openalex-snapshot

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inferred← citeshttps://doi.org/10.1101/2020.12.14.422671openalex-snapshot

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inferred← citeshttps://doi.org/10.1101/218347openalex-snapshot

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inferred← citeshttps://doi.org/10.1111/1365-2435.14650openalex-snapshot

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inferred← citeshttps://doi.org/10.1111/1462-2920.14860openalex-snapshot

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inferred← citeshttps://doi.org/10.1111/1755-0998.13996openalex-snapshot

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inferred← citeshttps://doi.org/10.1111/jeb.14110openalex-snapshot

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inferred← citeshttps://doi.org/10.1111/mec.17331openalex-snapshot

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inferred← citeshttps://doi.org/10.1128/msystems.00884-20openalex-snapshot

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inferred← citeshttps://doi.org/10.1128/msystems.00937-21openalex-snapshot

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inferred← citeshttps://doi.org/10.1136/thoraxjnl-2019-214168openalex-snapshot

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inferred← citeshttps://doi.org/10.1146/annurev-biodatasci-031121-103035openalex-snapshot

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inferred← citeshttps://doi.org/10.1146/annurev-pharmtox-010919-023612openalex-snapshot

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COMAN: a web server for comprehensive metatranscriptomics analysis

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inferred← citeshttps://doi.org/10.3389/fgene.2019.00904openalex-snapshot

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inferred← citeshttps://doi.org/10.3389/fmicb.2023.1120224openalex-snapshot

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inferred← citeshttps://doi.org/10.3389/fmicb.2026.1852812openalex-snapshot

Species-specific rumen microbial responses to dietary inhibition of methanogenesis in cows and goats

inferred← citeshttps://doi.org/10.3389/fphys.2016.00606openalex-snapshot

Host-Microbiome Interaction and Cancer: Potential Application in Precision Medicine

inferred← citeshttps://doi.org/10.3389/fpls.2017.02241openalex-snapshot

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inferred← citeshttps://doi.org/10.3390/metabo15030185openalex-snapshot

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inferred← citeshttps://doi.org/10.3920/978-90-8686-839-1_15openalex-snapshot

Chapter 15 Methodologies for microbiota assessment in infancy and childhood

inferred← citeshttps://doi.org/10.4014/jmb.2412.12001openalex-snapshot

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inferred← citeshttps://doi.org/10.5772/intechopen.1012591openalex-snapshot

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inferred← citeshttps://doi.org/10.5772/intechopen.97500openalex-snapshot

Recent Applications of RNA Sequencing in Food and Agriculture

inferred← citeshttps://doi.org/10.6084/m9.figshare.14516153openalex-snapshot

Additional file 1 of Best practices on the differential expression analysis of multi-species RNA-seq

inferred← citeshttps://doi.org/10.6084/m9.figshare.24416193openalex-snapshot

Additional file 1 of Rational probe design for efficient rRNA depletion and improved metatranscriptomic analysis of human microbiomes

inferred← citeshttps://doi.org/10.6084/m9.figshare.24416276openalex-snapshot

Additional file 2 of Rational probe design for efficient rRNA depletion and improved metatranscriptomic analysis of human microbiomes

inferred← citeshttps://doi.org/10.6084/m9.figshare.26600290openalex-snapshot

Additional file 1 of MetaPro: a scalable and reproducible data processing and analysis pipeline for metatranscriptomic investigation of microbial communities

inferred← citeshttps://doi.org/10.6084/m9.figshare.26600293openalex-snapshot

Additional file 2 of MetaPro: a scalable and reproducible data processing and analysis pipeline for metatranscriptomic investigation of microbial communities

inferred← citeshttps://doi.org/10.6084/m9.figshare.26600296openalex-snapshot

Additional file 3 of MetaPro: a scalable and reproducible data processing and analysis pipeline for metatranscriptomic investigation of microbial communities

inferred← citeshttps://doi.org/10.6084/m9.figshare.26600299openalex-snapshot

Additional file 4 of MetaPro: a scalable and reproducible data processing and analysis pipeline for metatranscriptomic investigation of microbial communities

inferred← citeshttps://doi.org/10.6084/m9.figshare.26600302openalex-snapshot

Additional file 5 of MetaPro: a scalable and reproducible data processing and analysis pipeline for metatranscriptomic investigation of microbial communities

inferred← citeshttps://doi.org/10.6084/m9.figshare.26600305openalex-snapshot

Additional file 6 of MetaPro: a scalable and reproducible data processing and analysis pipeline for metatranscriptomic investigation of microbial communities

inferred← citeshttps://doi.org/10.6084/m9.figshare.26600308openalex-snapshot

Additional file 7 of MetaPro: a scalable and reproducible data processing and analysis pipeline for metatranscriptomic investigation of microbial communities

inferred← citeshttps://doi.org/10.6084/m9.figshare.26600311openalex-snapshot

Additional file 8 of MetaPro: a scalable and reproducible data processing and analysis pipeline for metatranscriptomic investigation of microbial communities

inferred← citeshttps://doi.org/10.6084/m9.figshare.26600314openalex-snapshot

Additional file 9 of MetaPro: a scalable and reproducible data processing and analysis pipeline for metatranscriptomic investigation of microbial communities

inferred← citeshttps://doi.org/10.6084/m9.figshare.26600317openalex-snapshot

Additional file 10 of MetaPro: a scalable and reproducible data processing and analysis pipeline for metatranscriptomic investigation of microbial communities

inferred← citeshttps://doi.org/10.6084/m9.figshare.26600320openalex-snapshot

Additional file 11 of MetaPro: a scalable and reproducible data processing and analysis pipeline for metatranscriptomic investigation of microbial communities

inferred← citeshttps://doi.org/10.6084/m9.figshare.26600323openalex-snapshot

Additional file 12 of MetaPro: a scalable and reproducible data processing and analysis pipeline for metatranscriptomic investigation of microbial communities

inferred← citeshttps://doi.org/10.70675/1b47c678zf649z43a9z8435z643e9168fe33openalex-snapshot

Étude de la diversité du domaine Bacteria et du règne Fungi au cours du rouissage du lin sur champ par une approche de metabarcoding

inferred← citeshttps://doi.org/10.70675/52770561zd3f8z4a1eza179zc612877e1fbeopenalex-snapshot

Étude de la symbiose dans le plancton marin par une approche transcriptome et méta-transcriptome

inferred← citeshttps://doi.org/10.70675/7744fa77zfb02z4bdazbbd5z3371a5ed65f3openalex-snapshot

Etude du métatranscriptome de la digestion anaérobie du développement bioinformatique à l'étude expérimentale en conditions inhibitrices

inferred← citeshttps://doi.org/10.70675/dc1c4361zc8a6z4f31z8286z661d098b45a3openalex-snapshot

Impact des bactériocines sur la composition, la dynamique et l'activité métabolique du microbiote caecal aviaire : étude in vitro par métabarcoding 16S et métabolomique

inferred← citeshttps://doi.org/10.7287/peerj.3859v0.1/reviews/1openalex-snapshot

Peer Review #1 of "How to normalize metatranscriptomic count data for differential expression analysis (v0.1)"

inferred← citeshttps://doi.org/10.7287/peerj.3859v0.1/reviews/2openalex-snapshot

Peer Review #2 of "How to normalize metatranscriptomic count data for differential expression analysis (v0.1)"

inferred← citeshttps://doi.org/10.7287/peerj.3859v0.2/reviews/2openalex-snapshot

Peer Review #2 of "How to normalize metatranscriptomic count data for differential expression analysis (v0.2)"

inferred← citeshttps://doi.org/10.7717/peerj.3859openalex-snapshot

How to normalize metatranscriptomic count data for differential expression analysis

Editorial review for independent work. ICSAC — the Institute for Complexity Science and Advanced Computing — runs a structured editorial panel for researchers publishing outside journals, and publishes on CiteStamp rails. Submission is free and goes through ORCID: icsacinstitute.org/submit.