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The AnimalAssociatedMetagenomeDB reveals a bias towards livestock and developed countries and blind spots in functional-potential studies of animal-associated microbiomes.
Avila Santos AP, Kabiru Nata'ala M, Kasmanas JC, Bartholomäus A, Keller-Costa T, Jurburg SD, Tal T, Camarinha-Silva A, Saraiva JP, Ponce de Leon Ferreira de Carvalho AC, Stadler PF, Sipoli Sanches D, Rocha U. Avila Santos AP, et al. Among authors: stadler pf. Anim Microbiome. 2023 Oct 5;5(1):48. doi: 10.1186/s42523-023-00267-3. Anim Microbiome. 2023. PMID: 37798675 Free PMC article.
MarineMetagenomeDB: a public repository for curated and standardized metadata for marine metagenomes.
Nata'ala MK, Avila Santos AP, Coelho Kasmanas J, Bartholomäus A, Saraiva JP, Godinho Silva S, Keller-Costa T, Costa R, Gomes NCM, Ponce de Leon Ferreira de Carvalho AC, Stadler PF, Sipoli Sanches D, Nunes da Rocha U. Nata'ala MK, et al. Among authors: stadler pf. Environ Microbiome. 2022 Nov 18;17(1):57. doi: 10.1186/s40793-022-00449-7. Environ Microbiome. 2022. PMID: 36401317 Free PMC article.
MuDoGeR: Multi-Domain Genome recovery from metagenomes made easy.
Rocha U, Coelho Kasmanas J, Kallies R, Saraiva JP, Toscan RB, Štefanič P, Bicalho MF, Borim Correa F, Baştürk MN, Fousekis E, Viana Barbosa LM, Plewka J, Probst AJ, Baldrian P, Stadler PF; CLUE-TERRA Consortium. Rocha U, et al. Among authors: stadler pf. Mol Ecol Resour. 2024 Feb;24(2):e13904. doi: 10.1111/1755-0998.13904. Epub 2023 Nov 23. Mol Ecol Resour. 2024. PMID: 37994269
RNA interaction format: a general data format for RNA interactions.
Schäfer RA, Rabsch D, Scholz GE, Stadler PF, Hess WR, Backofen R, Fallmann J, Voß B. Schäfer RA, et al. Among authors: stadler pf. Bioinformatics. 2023 Nov 1;39(11):btad665. doi: 10.1093/bioinformatics/btad665. Bioinformatics. 2023. PMID: 37944046 Free PMC article.
Local RNA folding revisited.
Waldl M, Spicher T, Lorenz R, Beckmann IK, Hofacker IL, Löhneysen SV, Stadler PF. Waldl M, et al. Among authors: stadler pf. J Bioinform Comput Biol. 2023 Aug;21(4):2350016. doi: 10.1142/S0219720023500166. Epub 2023 Jul 28. J Bioinform Comput Biol. 2023. PMID: 37522173
Limits of experimental evidence in RNA secondary structure prediction.
von Löhneysen S, Mörl M, Stadler PF. von Löhneysen S, et al. Among authors: stadler pf. Front Bioinform. 2024 Feb 22;4:1346779. doi: 10.3389/fbinf.2024.1346779. eCollection 2024. Front Bioinform. 2024. PMID: 38456157 Free PMC article. No abstract available.
550 results