Update README.md

README.md

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 ---
 license: cc-by-4.0
+language:
+  - en
+pretty_name: AutoTPD+
+tags:
+  - targeted-protein-degradation
+  - protac
+  - molecular-glue
+  - drug-discovery
+  - tabular
+arxiv: 2605.11221
+configs:
+  - config_name: autotpdplus-protac
+    data_files:
+      - split: train
+        path: AutoTPDplus-PROTAC.csv
+  - config_name: autotpdplus-mg
+    data_files:
+      - split: train
+        path: AutoTPDplus-MG.csv
+  - config_name: autotpd-protac
+    data_files:
+      - split: train
+        path: AutoTPD-PROTAC.csv
+  - config_name: autotpd-mg
+    data_files:
+      - split: train
+        path: AutoTPD-MG.csv
 ---
+
+# AutoTPD+
+
+[![Project website](https://img.shields.io/badge/Project-Website-2ea44f)](https://yaochenr.github.io/LLM-TPD-Extraction/)
+[![Code](https://img.shields.io/badge/Code-GitHub-181717?logo=github)](https://github.com/yaochenr/LLM-TPD-Extraction)
+[![Paper](https://img.shields.io/badge/Paper-arXiv%3A2605.11221-b31b1b?logo=arxiv)](https://arxiv.org/abs/2605.11221)
+[![License](https://img.shields.io/badge/License-CC%20BY%204.0-f5c518)](https://creativecommons.org/licenses/by/4.0/)
+
+AutoTPD+ is a living database of PROTAC and molecular glue degradation assays mined from the literature using an agentic LLM workflow.
+
+It contains standardized compound, target, recruiter, assay, cell-line, DC50, and Dmax information. AutoTPD+ combines literature extracted records with PROTAC-DB 3.0 and MolGlueDB and is designed for monthly updates.
+
+- **7,570** assay records
+- **1,008** source publications
+- **2,402** unique chemical structures
+- **2 modalities:** PROTAC and molecular glue
+
+## Files
+
+| File | Description | Records |
+|---|---|---:|
+| `AutoTPDplus-PROTAC.csv` | Living PROTAC dataset | 6,719 |
+| `AutoTPDplus-MG.csv` | Living molecular glue dataset | 851 |
+| `AutoTPD-PROTAC.csv` | Frozen PROTAC benchmark | 714 |
+| `AutoTPD-MG.csv` | Frozen molecular glue benchmark | 246 |
+
+## Data format
+
+Each row represents one degradation assay record.
+
+<details>
+<summary><strong>All columns</strong></summary>
+
+| **Column** | **Description** |
+| :--- | :--- |
+| **IDENTIFIERS** | |
+| `AutoTPD_ID` | Stable row identifier, unchanged across monthly releases |
+| `Record_ID` | Record ID in the source database; empty for LLM-extracted records |
+| `Compound_ID` | Compound ID in the source database; empty for LLM-extracted records |
+| `DOI` | Source publication |
+| **COMPOUND** | |
+| `Compound_Name` | Compound name or label as reported in the paper |
+| `IUPAC_Name` | IUPAC name |
+| `IUPAC_Name_Source` | Where the IUPAC name came from (PAPER, PUBCHEM) |
+| `SMILES` | RDKit canonical SMILES |
+| `SMILES_Source` | Where the SMILES came from (PAPER, PUBCHEM, OPSIN, source database) |
+| `StdInChIKey` | Standard InChIKey computed by RDKit from the standardized canonical SMILES |
+| `Connectivity_Key` | First block of the InChIKey (connectivity only, ignores stereochemistry) |
+| **DEGRADATION TARGET** | |
+| `Degradation_Target` | Target as reported in the paper |
+| `Degradation_Target_Gene` | HGNC gene symbol |
+| `Degradation_Target_Uniprot` | UniProt accession |
+| `Degradation_Target_Uniprot_MutationID` | UniProt variant ID when a specific mutant is targeted |
+| `Degradation_Target_Sequence` | UniProt protein sequence |
+| **RECRUITER** | |
+| `Recruiter` | Recruiter (usually an E3 ligase) as reported |
+| `Recruiter_Gene` | Gene symbol |
+| `Recruiter_Uniprot` | UniProt accession |
+| `Recruiter_Sequence` | UniProt protein sequence |
+| **ASSAY CONTEXT** | |
+| `Assay` | Assay as described in the paper |
+| `Assay_STD` | Standardized assay family |
+| `Cell_Line` | Cell line as reported, or cell-free |
+| `Cell_Line_STD` | Cellosaurus recommended name |
+| `Cell_Line_STD_Accession` | Cellosaurus accession (RRID) |
+| `Cell_Line_Modification` | Engineered construct, e.g. a HiBiT knock-in |
+| `Cell_Line_Species` | Species of the cell line |
+| **DC50** | |
+| `DC50` | Concentration giving 50% degradation |
+| `DC50_units` | Units of DC50 |
+| `DC50_h` | Treatment time in hours |
+| `DC50_operator` | Qualifier: `<`, `>`, `~`, `<=`, `>=` |
+| `DC50_range_min` | Range low end, or mean − error |
+| `DC50_range_max` | Range high end, or mean + error |
+| **DMAX** | |
+| `Dmax` | Maximal degradation, in % |
+| `Dmax_h` | Treatment time in hours |
+| `Dmax_operator` | Qualifier: `<`, `>`, `~`, `<=`, `>=` |
+| `Dmax_range_min` | Range low end, or mean − error |
+| `Dmax_range_max` | Range high end, or mean + error |
+| **DMAX CONCENTRATION** | |
+| `Dmax_conc` | Concentration at which Dmax was measured |
+| `Dmax_conc_units` | Units of Dmax_conc |
+| `Dmax_conc_operator` | Qualifier for Dmax_conc |
+| `Dmax_conc_range_min` | Range low end |
+| `Dmax_conc_range_max` | Range high end |
+
+</details>
+
+## Usage
+
+```python
+from datasets import load_dataset
+
+protac = load_dataset(
+    "ailab-bio/AutoTPDplus",
+    "autotpdplus-protac",
+    token=True,
+)
+
+molecular_glue = load_dataset(
+    "ailab-bio/AutoTPDplus",
+    "autotpdplus-mg",
+    token=True,
+)
+```
+
+## Citation
+
+```bibtex
+@article{rao2026beyond,
+  title={Beyond Manual Curation: Augmenting Targeted Protein Degradation Databases via Agentic Literature Extraction Workflows},
+  author={Rao, Yaochen and Jalalypour, Farzaneh and Krishnan, NM and Mercado, Rocío},
+  journal={arXiv preprint arXiv:2605.11221},
+  year={2026}
+}
+```
+
+## License
+
+The structured datasets are released under CC BY 4.0. Original publications,
+PROTAC-DB, MolGlueDB, and other upstream resources remain subject to their
+respective licenses.