Zafeiropoulos H - Search Results

1

0s and 1s in marine molecular research: a regional HPC perspective.

Zafeiropoulos H, Gioti A, Ninidakis S, Potirakis A, Paragkamian S, Angelova N, Antoniou A, Danis T, Kaitetzidou E, Kasapidis P, Kristoffersen JB, Papadogiannis V, Pavloudi C, Ha QV, Lagnel J, Pattakos N, Perantinos G, Sidirokastritis D, Vavilis P, Kotoulas G, Manousaki T, Sarropoulou E, Tsigenopoulos CS, Arvanitidis C, Magoulas A, Pafilis E. Zafeiropoulos H, et al. Gigascience. 2021 Aug 18;10(8):giab053. doi: 10.1093/gigascience/giab053. Gigascience. 2021. PMID: 34405237 Free PMC article.

2

PEMA: a flexible Pipeline for Environmental DNA Metabarcoding Analysis of the 16S/18S ribosomal RNA, ITS, and COI marker genes.

Zafeiropoulos H, Viet HQ, Vasileiadou K, Potirakis A, Arvanitidis C, Topalis P, Pavloudi C, Pafilis E. Zafeiropoulos H, et al. Gigascience. 2020 Mar 1;9(3):giaa022. doi: 10.1093/gigascience/giaa022. Gigascience. 2020. PMID: 32161947 Free PMC article.

3

Corrigendum to: PEMA: a flexible pipeline for environmental DNA metabarcoding analysis of the 16S/18S ribosomal RNA, ITS, and COI marker genes.

Zafeiropoulos H, Viet HQ, Vasileiadou K, Potirakis A, Arvanitidis C, Topalis P, Pavloudi C, Pafilis E. Zafeiropoulos H, et al. Gigascience. 2020 Dec 21;9(12):giaa150. doi: 10.1093/gigascience/giaa150. Gigascience. 2020. PMID: 33347569 Free PMC article. No abstract available.

4

PREGO: A Literature and Data-Mining Resource to Associate Microorganisms, Biological Processes, and Environment Types.

Zafeiropoulos H, Paragkamian S, Ninidakis S, Pavlopoulos GA, Jensen LJ, Pafilis E. Zafeiropoulos H, et al. Microorganisms. 2022 Jan 26;10(2):293. doi: 10.3390/microorganisms10020293. Microorganisms. 2022. PMID: 35208748 Free PMC article.

5

Deciphering the community structure and the functional potential of a hypersaline marsh microbial mat community.

Pavloudi C, Zafeiropoulos H. Pavloudi C, et al. Among authors: zafeiropoulos h. FEMS Microbiol Ecol. 2022 Dec 10;98(12):fiac141. doi: 10.1093/femsec/fiac141. FEMS Microbiol Ecol. 2022. PMID: 36416806

6

metaGOflow: a workflow for the analysis of marine Genomic Observatories shotgun metagenomics data.

Zafeiropoulos H, Beracochea M, Ninidakis S, Exter K, Potirakis A, De Moro G, Richardson L, Corre E, Machado J, Pafilis E, Kotoulas G, Santi I, Finn RD, Cox CJ, Pavloudi C. Zafeiropoulos H, et al. Gigascience. 2022 Dec 28;12:giad078. doi: 10.1093/gigascience/giad078. Gigascience. 2022. PMID: 37850871 Free PMC article.

7

Metabolic models of human gut microbiota: Advances and challenges.

Rios Garza D, Gonze D, Zafeiropoulos H, Liu B, Faust K. Rios Garza D, et al. Among authors: zafeiropoulos h. Cell Syst. 2023 Feb 15;14(2):109-121. doi: 10.1016/j.cels.2022.11.002. Cell Syst. 2023. PMID: 36796330 Free article. Review.

8

dingo: a Python package for metabolic flux sampling.

Chalkis A, Fisikopoulos V, Tsigaridas E, Zafeiropoulos H. Chalkis A, et al. Among authors: zafeiropoulos h. Bioinform Adv. 2024 Mar 22;4(1):vbae037. doi: 10.1093/bioadv/vbae037. eCollection 2024. Bioinform Adv. 2024. PMID: 38586119 Free PMC article.

9

Predicting microbial interactions with approaches based on flux balance analysis: an evaluation.

Joseph C, Zafeiropoulos H, Bernaerts K, Faust K. Joseph C, et al. Among authors: zafeiropoulos h. BMC Bioinformatics. 2024 Jan 23;25(1):36. doi: 10.1186/s12859-024-05651-7. BMC Bioinformatics. 2024. PMID: 38262921 Free PMC article.

10

A pile of pipelines: An overview of the bioinformatics software for metabarcoding data analyses.

Hakimzadeh A, Abdala Asbun A, Albanese D, Bernard M, Buchner D, Callahan B, Caporaso JG, Curd E, Djemiel C, Brandström Durling M, Elbrecht V, Gold Z, Gweon HS, Hajibabaei M, Hildebrand F, Mikryukov V, Normandeau E, Özkurt E, M Palmer J, Pascal G, Porter TM, Straub D, Vasar M, Větrovský T, Zafeiropoulos H, Anslan S. Hakimzadeh A, et al. Among authors: zafeiropoulos h. Mol Ecol Resour. 2023 Aug 7:10.1111/1755-0998.13847. doi: 10.1111/1755-0998.13847. Online ahead of print. Mol Ecol Resour. 2023. PMID: 37548515

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