Analysis code for: Microbial profiling of endometrioma and eutopic endometrium using 16S rRNA sequencing

Kensaku Furui, Ayako Muraoka, Bayasula Bayasula, Takehiko Takeda, Tomomi Seki, Natsuki Miyake, Reina Sonehara, Tomoko Nakamura, Hiroaki Kajiyama
2026 · doi:10.5281/zenodo.22172833 · W7204717127
OA: green CC0
🔓 Open OA copy Full text JSON View on OpenAlex View at publisher
⚙ AI-generated summary by qwen3.7-flash, 2026-10-10 ⓘ

This paper provides Python code for the reproducible analysis of 16S rRNA sequencing data from endometrioma and eutopic endometrium samples in eight patients.

One-sentence paraphrase of the abstract; not a substitute for reading it. No clinical advice. How this works

⚙ AI-generated deep summary by qwen3.7-flash, 2026-10-10 · read from full text ⓘ

This paper provides the Python analysis code for a study comparing microbial profiles in endometrioma and eutopic endometrium using 16S rRNA sequencing. The code facilitates paired analyses of eight patients, including PERMANOVA calculations, contamination screening, and diversity assessments through repeated rarefaction. It also details the summarization of BLAST searches for representative sequences and evaluates genus-level differential abundance with multiple comparison corrections. This paper is centrally about endometriosis — specifically providing the computational methodology for analyzing microbiome data from endometriomas and normal endometrial tissue.

Read from the paper's body, not the abstract. Not a substitute for reading the paper. No clinical advice. How this works

Abstract

Python code used for the analyses reported in the manuscript. Covers the paired analysis of eight patients, the calculation of R² for PERMANOVA, contamination screening, repeated rarefaction for the diversity analyses, summarization of the BLAST search of all 146 representative sequences, family-level composition, genus-level differential abundance with correction for multiple comparisons, and the sensitivity analysis for the dominant Escherichia lineage. Input data are the ASV table and representative sequences generated from the 16S rRNA gene sequencing data deposited under BioProject PRJDB40150. The random seed is fixed, so the reported values are reproducible.
Full text 789 characters · extracted from oa-doi-fallback · click to expand
Analysis code for: Microbial profiling of endometrioma and eutopic endometrium using 16S rRNA sequencing Description Python code used for the analyses reported in the manuscript. Covers the paired analysis of eight patients, the calculation of R² for PERMANOVA, contamination screening, repeated rarefaction for the diversity analyses, summarization of the BLAST search of all 146 representative sequences, family-level composition, genus-level differential abundance with correction for multiple comparisons, and the sensitivity analysis for the dominant Escherichia lineage. Input data are the ASV table and representative sequences generated from the 16S rRNA gene sequencing data deposited under BioProject PRJDB40150. The random seed is fixed, so the reported values are reproducible.

Text is read by the "Ask this paper" AI Q&A widget below. Extraction quality varies by source — PMC NXML preserves structure cleanly, OA-HTML may include some navigation residue, and OA-PDF can have broken hyphenation. The publisher copy (via DOI) is the canonical version.

My notes (saved in your browser only)

⚙ Ask this paper AI returns verbatim quotes from the full text · source: oa-doi-fallback ⓘ

Answers must be backed by verbatim quotes from this paper's full text. Hallucinated quotes are dropped automatically; if no verbatim passage answers the question, we say so. How this works

Citation neighborhood (no data yet)

We don't have any in-corpus citations linked to this paper yet. This is a recent paper (2026) — citers typically take a year or two to land, and the OpenAlex reference graph may still be filling in.

Source provenance

openalex
last seen: 2026-11-09T06:05:26.968455+00:00
License: CC0 · commercial use OK