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docs: add dataset card front-matter, OA license note, and JSONL example

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- Set language, tags, task_categories, and size_categories
- Add OA-only license notice (multiple upstream licenses)
- Provide JSONL record schema and example
- Prepare for MLM (DAPT/TAPT) usage

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  1. README.md +49 -5
README.md CHANGED
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- ---
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- license: other
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- license_name: multiple
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- license_link: LICENSE
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- ---
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
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+ ---
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+ language:
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+ - en
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+ license: other
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+ pretty_name: "BIOBERT — Microbiology OA Full-Text Corpus"
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+ dataset_type: text
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+ task_categories:
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+ - fill-mask
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+ tags:
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+ - microbiology
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+ - open-access
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+ - pmc
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+ - europe-pmc
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+ - fulltext
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+ - mlm
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+ - pretraining
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+ - biobert
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+ - english
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+ size_categories:
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+ - unknown
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+ ---
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+
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+ # BIOBERT — Microbiology OA Full-Text Corpus
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+
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+ **Purpose:** Provide an English **Open-Access–only** full-text corpus in microbiology and related domains for:
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+ - Domain/Task-Adaptive Pretraining (DAPT/TAPT) with **Masked Language Modeling (MLM)**
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+ - Fine-tuning BERT-style models such as BioBERT
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+
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+ > ⚠️ **Copyright / License:** This repository includes **OA items only** (e.g., PMC / Europe PMC OA). Each item must be used under its **original upstream license**. The fields `license_type` and `license_url` are included in every record. This repository does **not** grant a new license for redistribution.
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+
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+ ## Data format
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+ Recommended file format: **JSON Lines (`.jsonl`)** — one document/section per line.
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+
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+ **Example record**
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+ ```json
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+ {
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+ "id": "pmcid:PMC1234567#sec3",
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+ "title": "Sample article title",
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+ "text": "full body text …",
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+ "source": "PMC",
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+ "pmcid": "PMC1234567",
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+ "doi": "10.xxxx/xxxx",
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+ "year": 2024,
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+ "journal": "Journal Name",
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+ "section": "body",
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+ "license_type": "CC-BY-4.0",
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+ "license_url": "https://creativecommons.org/licenses/by/4.0/",
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+ "url": "https://europepmc.org/…"
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+ }