---
language:
  - en
license: other
tags:
  - biology
  - genomics
  - medical
  - bioinformatics
  - variant-annotation
  - clinical
  - wgs
  - wes
pretty_name: SchemaBio Bundle
---

# 🧬 SchemaBio Bundle

## 📖 Overview 
This dataset is a comprehensive, meticulously curated, one-stop annotation library designed for bioinformatics and genomic variant analysis (e.g., WES/WGS pipelines). It aggregates essential variant effect predictors, clinical databases, and genomic reference files into a unified repository, significantly reducing the time spent on data collection, format alignment, and preprocessing.



## 🗂️ Included Data & Sources

This repository includes data from the following categories:
1. **Variant Effect Predictors & Scores:** AlphaMissense, EVOScore2, Pangolin.
2. **Clinical & Population Frequencies:** gnomAD, CIViC, mskcc_hotspot.
3. **Genomic References & Regions:** UCSC annotations (`cytoband`, `ncbiRefSeq.gtf`), Ensembl references (`GRCh38/37 FASTA`, `vep_cache`), ManeSelectBed.



## ⚖️ Licensing & Commercial Use

**Great news: All underlying datasets included in this repository currently permit commercial use**, provided that users strictly adhere to their respective attribution and share-alike requirements.

Because this repository acts as an aggregator, **it does not fall under a single license**. You must comply with the individual licenses of the respective underlying data sources. The table below outlines the specific license for each component:

### 📊 Database Licenses Summary

| Database / Source | Version | Official License | Commercial Use | Redistribution | Key Requirements & Notes |
| :--- | :--- | :--- | :--- | :--- | :--- |
| [**AlphaMissense**](https://zenodo.org/records/10813168) | v3 | **CC BY 4.0** | ✅ Allowed | ✅ Allowed | Must attribute to DeepMind Technologies Limited. |
| [**EVOScore2**](https://huggingface.co/datasets/pzweuj/EVOScore-2) | 20260128 | **MIT** | ✅ Allowed | ✅ Allowed | Must include the original copyright notice. |
| [**Pangolin**](https://zenodo.org/records/15649338) | v1 | **CC BY 4.0** | ✅ Allowed | ✅ Allowed | Must provide proper attribution. |
| [**ManeSelectBed**](https://github.com/pzweuj/ManeSelectBed) | v49 | **MIT** | ✅ Allowed | ✅ Allowed | Must include the original copyright notice. |
| [**mskcc_hotspot**](https://www.cancerhotspots.org/) | v2 | **ODbL** | ✅ Allowed | ✅ Allowed | **Share-Alike:** If you modify/adapt this database, the derivative must also be ODbL. |
| [**CIViC**](https://civicdb.org/welcome) | 20260301 | **CC0 1.0** | ✅ Allowed | ✅ Allowed | Public Domain. No restrictions. |
| [**gnomAD**](https://gnomad.broadinstitute.org/) | v4.1 | **Unrestricted** | ✅ Allowed | ✅ Allowed | Broad Institute claims no restrictions on use. |
| [**UCSC Data**](https://hgdownload.soe.ucsc.edu/goldenPath) | / | **Public Domain** | ✅ Allowed | ✅ Allowed | Publicly funded data, free for all uses. |
| [**Ensembl Data**](https://ftp.ensembl.org/pub/release-115/) | release 115 | **Unrestricted** | ✅ Allowed | ✅ Allowed | EMBL-EBI places no restrictions on use or redistribution. |

*Disclaimer: The creator of this combined dataset claims no ownership over the original source data. Users are solely responsible for ensuring their downstream use complies with the original data providers' terms.*