wirthal1990-tech commited on
Commit
41b1bd1
·
verified ·
1 Parent(s): 89c9bdf

RUN_006 S4: Update README with 3-tier Stripe pricing links

Browse files
Files changed (1) hide show
  1. README.md +45 -22
README.md CHANGED
@@ -57,6 +57,7 @@ dataset_info:
57
  config_name: default
58
  ---
59
 
 
60
  <div align="center">
61
 
62
  # USDA Phytochemical & Ethnobotanical Database — Enriched v2.0
@@ -67,9 +68,9 @@ dataset_info:
67
  [![Sample](https://img.shields.io/badge/Sample-400%20rows-brightgreen)](https://huggingface.co/datasets/wirthal1990-tech/USDA-Phytochemical-Database-JSON)
68
  [![Full Dataset](https://img.shields.io/badge/Full%20Dataset-104%2C388%20rows-blue)](https://ethno-api.com)
69
  [![Format](https://img.shields.io/badge/Format-JSON%20%2B%20Parquet-orange)](https://ethno-api.com)
70
- [![HuggingFace](https://img.shields.io/badge/🤗%20HuggingFace-Dataset-yellow)](https://huggingface.co/datasets/wirthal1990-tech/USDA-Phytochemical-Database-JSON)
71
 
72
- [**Free 400-Row Sample**](#quickstart) · [**Full Dataset (€699)**](https://ethno-api.com) · [**Quickstart Notebook**](quickstart.ipynb)
73
 
74
  </div>
75
 
@@ -85,15 +86,29 @@ dataset_info:
85
 
86
  | Column | Type | Nulls | Description |
87
  |--------|------|-------|-------------|
88
- | `chemical` | `string` | 0% | Standardised compound name (USDA Duke's nomenclature) |
89
  | `plant_species` | `string` | 0% | Binomial Latin species name |
90
- | `application` | `string` | ~40% | Traditional medicinal application (e.g. "Antiinflammatory") |
91
  | `dosage` | `string` | ~55% | Reported dosage, concentration, or IC50 value |
92
  | `pubmed_mentions_2026` | `int32` | 0% | Total PubMed publications mentioning this compound (March 2026 snapshot) |
93
  | `clinical_trials_count_2026` | `int32` | 0% | ClinicalTrials.gov study count per compound (March 2026) |
94
  | `chembl_bioactivity_count` | `int32` | 0% | ChEMBL documented bioactivity measurement count |
95
  | `patent_count_since_2020` | `int32` | 0% | US patents since 2020-01-01 mentioning compound (USPTO PatentsView) |
96
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
97
  ## Why Not Build This Yourself?
98
 
99
  Normalising and cross-referencing 24,771 phytochemicals against four authoritative databases is not a weekend project:
@@ -112,9 +127,9 @@ Normalising and cross-referencing 24,771 phytochemicals against four authoritati
112
 
113
  ## Why This Dataset Exists
114
 
115
- Large language models hallucinate botanical taxonomy. A biotech team's RAG pipeline confidently outputting "Quercetin found in 450 species at 2.3 mg/g" sounds plausible — but the real number of species in our data is 215, and dosage varies by three orders of magnitude depending on the plant part.
116
 
117
- The raw USDA Dr. Duke's database is spread across 16 relational tables. Joining them correctly requires understanding non-obvious foreign keys, handling >40% null values in application fields, and normalising species names against accepted binomial nomenclature. Most teams give up after a week.
118
 
119
  ## Quickstart
120
 
@@ -139,7 +154,7 @@ print(f"Schema: {table.schema}")
139
  print(f"Rows: {table.num_rows} Memory: {table.nbytes / 1e6:.1f} MB")
140
  ```
141
 
142
- ### DuckDB (analytical queries, no install required)
143
 
144
  ```python
145
  import duckdb
@@ -147,12 +162,11 @@ import duckdb
147
  result = duckdb.sql("""
148
  SELECT
149
  chemical,
150
- MAX(pubmed_mentions_2026) AS pubmed_score,
151
  MAX(clinical_trials_count_2026) AS trial_count,
152
- MAX(chembl_bioactivity_count) AS bioassays,
153
- COUNT(DISTINCT plant_species) AS species_count
154
- FROM read_json_auto('ethno_dataset_v2.json')
155
- WHERE application ILIKE '%anti-inflam%'
156
  GROUP BY chemical
157
  ORDER BY trial_count DESC
158
  LIMIT 20
@@ -165,7 +179,6 @@ result.show()
165
  ```python
166
  from datasets import load_dataset
167
 
168
- # Load the free 400-row sample directly from HuggingFace Hub
169
  ds = load_dataset(
170
  "wirthal1990-tech/USDA-Phytochemical-Database-JSON",
171
  split="sample",
@@ -206,22 +219,28 @@ completion of the full enrichment run.
206
 
207
  | File | Size | Format | Access |
208
  |------|------|--------|--------|
209
- | `ethno_sample_400.json` | 67 KB | JSON | Free (this repo) |
210
- | `ethno_sample_400.parquet` | 15 KB | Parquet | Free (this repo) |
211
- | `ethno_dataset_2026_v2.json` | ~18 MB | JSON | [Commercial (€699)](https://ethno-api.com) |
212
- | `ethno_dataset_2026_v2.parquet` | ~900 KB | Parquet | [Commercial (€699)](https://ethno-api.com) |
213
- | `MANIFEST_v2.json` | ~1 KB | JSON | Included with purchase |
214
- | `quickstart.ipynb` | 6 KB | Notebook | Free (this repo) |
 
 
 
 
 
 
215
 
216
  ## Data Sources & Methodology
217
 
218
  | Source | Access | Date | Method |
219
  |--------|--------|------|--------|
220
- | [USDA Dr. Duke's Phytochemical and Ethnobotanical Databases](https://phytochem.nal.usda.gov/) | Public domain | 2026 | Full 16-table PostgreSQL import, normalized |
221
  | [NCBI PubMed](https://pubmed.ncbi.nlm.nih.gov/) | E-utilities API | March 2026 | `esearch` per compound, total publication count |
222
  | [ClinicalTrials.gov](https://clinicaltrials.gov/) | v2 API | March 2026 | Study count per compound name |
223
  | [ChEMBL](https://www.ebi.ac.uk/chembl/) | REST API (v34) | March 2026 | Bioactivity measurement count via molecule search |
224
- | [USPTO PatentsView](https://patentsview.org/) | REST API v1 (`search.patentsview.org/api/v1/patent/`) with `X-Api-Key` header, querying US patent counts since 2020-01-01 | March 2026 | US patents since 2020-01-01 mentioning compound |
225
 
226
  All enrichment scripts are deterministic, checkpoint-resumable, and respect API rate limits. Source code available upon request for enterprise customers.
227
 
@@ -245,7 +264,11 @@ Enrichment fields contain representative values pending completion of the full e
245
  ## License & Commercial Access
246
 
247
  - **Free 400-row sample**: [CC BY-NC 4.0](https://creativecommons.org/licenses/by-nc/4.0/) — use for evaluation, academic research, and prototyping.
248
- - **Full 104,388-row dataset**: Single-entity commercial license, **€699 one-time purchase** at [ethno-api.com](https://ethno-api.com). Redistribution, resale, and derivative dataset publication are prohibited.
 
 
 
 
249
 
250
  ## Citation
251
 
 
57
  config_name: default
58
  ---
59
 
60
+
61
  <div align="center">
62
 
63
  # USDA Phytochemical & Ethnobotanical Database — Enriched v2.0
 
68
  [![Sample](https://img.shields.io/badge/Sample-400%20rows-brightgreen)](https://huggingface.co/datasets/wirthal1990-tech/USDA-Phytochemical-Database-JSON)
69
  [![Full Dataset](https://img.shields.io/badge/Full%20Dataset-104%2C388%20rows-blue)](https://ethno-api.com)
70
  [![Format](https://img.shields.io/badge/Format-JSON%20%2B%20Parquet-orange)](https://ethno-api.com)
71
+ [![HuggingFace](https://img.shields.io/badge/%F0%9F%A4%97%20HuggingFace-Dataset-yellow)](https://huggingface.co/datasets/wirthal1990-tech/USDA-Phytochemical-Database-JSON)
72
 
73
+ [**Free 400-Row Sample**](#quickstart) · [**Single Entity €699 →**](https://buy.stripe.com/00w6oGgFh58v6Toeqsebu02) · [**Team €1.349 →**](https://buy.stripe.com/dRm7sK9cP1Wj0v06Y0ebu03) · [**Enterprise €1.699 →**](https://buy.stripe.com/dRm28q0Gj1WjdhM6Y0ebu04)
74
 
75
  </div>
76
 
 
86
 
87
  | Column | Type | Nulls | Description |
88
  |--------|------|-------|-------------|
89
+ | `chemical` | `string` | 0% | Standardised compound name (USDA Dukes nomenclature) |
90
  | `plant_species` | `string` | 0% | Binomial Latin species name |
91
+ | `application` | `string` | ~40% | Traditional medicinal application (e.g. Antiinflammatory) |
92
  | `dosage` | `string` | ~55% | Reported dosage, concentration, or IC50 value |
93
  | `pubmed_mentions_2026` | `int32` | 0% | Total PubMed publications mentioning this compound (March 2026 snapshot) |
94
  | `clinical_trials_count_2026` | `int32` | 0% | ClinicalTrials.gov study count per compound (March 2026) |
95
  | `chembl_bioactivity_count` | `int32` | 0% | ChEMBL documented bioactivity measurement count |
96
  | `patent_count_since_2020` | `int32` | 0% | US patents since 2020-01-01 mentioning compound (USPTO PatentsView) |
97
 
98
+ ---
99
+
100
+ ## Pricing & Licensing
101
+
102
+ | Tier | Price | Includes | Purchase |
103
+ |------|-------|----------|----------|
104
+ | **Single Entity** | **€699** netto | JSON + Parquet + SHA-256 Manifest. 1 juristische Person, interne Nutzung. Perpetual license. | [**Buy Now →**](https://buy.stripe.com/00w6oGgFh58v6Toeqsebu02) |
105
+ | **Team** | **€1.349** netto | Alles aus Single + `duckdb_queries.sql` (20 Queries, 5 Kategorien) + `compound_priority_score.py` + 4 Pre-computed Views (Top-500 nach PubMed, Trials, Patent-Dichte, Anti-Inflammatory Panel). Unbegrenzte interne Nutzer einer juristischen Person. | [**Buy Now →**](https://buy.stripe.com/dRm7sK9cP1Wj0v06Y0ebu03) |
106
+ | **Enterprise** | **€1.699** netto | Alles aus Team + `snowflake_load.sql` + `chromadb_ingest.py` + `pinecone_ingest.py` + `embedding_guide.md` (ClinicalBERT, RAG-Pipelines) + Compound Opportunity Matrix + Clinical Pipeline Gaps CSV + Pre-chunked RAG JSONL. Multi-Entity / Konzernnutzung, interne Produktintegration erlaubt. | [**Buy Now →**](https://buy.stripe.com/dRm28q0Gj1WjdhM6Y0ebu04) |
107
+
108
+ > Gemäß § 19 UStG wird keine Umsatzsteuer berechnet. Alle Preise netto. One-time purchase — keine Subscription, keine wiederkehrenden Kosten.
109
+
110
+ ---
111
+
112
  ## Why Not Build This Yourself?
113
 
114
  Normalising and cross-referencing 24,771 phytochemicals against four authoritative databases is not a weekend project:
 
127
 
128
  ## Why This Dataset Exists
129
 
130
+ Large language models hallucinate botanical taxonomy. A biotech teams RAG pipeline confidently outputting Quercetin found in 450 species at 2.3 mg/g sounds plausible — but the real number of species in our data is 215, and dosage varies by three orders of magnitude depending on the plant part.
131
 
132
+ The raw USDA Dr. Dukes database is spread across 16 relational tables. Joining them correctly requires understanding non-obvious foreign keys, handling >40% null values in application fields, and normalising species names against accepted binomial nomenclature. Most teams give up after a week.
133
 
134
  ## Quickstart
135
 
 
154
  print(f"Rows: {table.num_rows} Memory: {table.nbytes / 1e6:.1f} MB")
155
  ```
156
 
157
+ ### DuckDB (analytical queries sample included)
158
 
159
  ```python
160
  import duckdb
 
162
  result = duckdb.sql("""
163
  SELECT
164
  chemical,
165
+ MAX(pubmed_mentions_2026) AS pubmed_score,
166
  MAX(clinical_trials_count_2026) AS trial_count,
167
+ MAX(chembl_bioactivity_count) AS bioassays,
168
+ COUNT(DISTINCT plant_species) AS species_count
169
+ FROM read_json_auto('ethno_sample_400.json')
 
170
  GROUP BY chemical
171
  ORDER BY trial_count DESC
172
  LIMIT 20
 
179
  ```python
180
  from datasets import load_dataset
181
 
 
182
  ds = load_dataset(
183
  "wirthal1990-tech/USDA-Phytochemical-Database-JSON",
184
  split="sample",
 
219
 
220
  | File | Size | Format | Access |
221
  |------|------|--------|--------|
222
+ | `ethno_sample_400.json` | 108 KB | JSON | Free (this repo) |
223
+ | `ethno_sample_400.parquet` | 20 KB | Parquet | Free (this repo) |
224
+ | `quickstart.ipynb` | 9 KB | Notebook | Free (this repo) |
225
+ | `ethno_dataset_2026_v2.json` | ~18 MB | JSON | Included in all tiers |
226
+ | `ethno_dataset_2026_v2.parquet` | ~900 KB | Parquet | Included in all tiers |
227
+ | `MANIFEST_v2.json` (SHA-256) | ~1 KB | JSON | Included in all tiers |
228
+ | `duckdb_queries.sql` (20 Queries) | ~13 KB | SQL | Team + Enterprise |
229
+ | `compound_priority_score.py` | ~5 KB | Python | Team + Enterprise |
230
+ | `snowflake_load.sql` | ~6 KB | SQL | Enterprise |
231
+ | `chromadb_ingest.py` | ~6 KB | Python | Enterprise |
232
+ | `pinecone_ingest.py` | ~6 KB | Python | Enterprise |
233
+ | `embedding_guide.md` | ~7 KB | Markdown | Enterprise |
234
 
235
  ## Data Sources & Methodology
236
 
237
  | Source | Access | Date | Method |
238
  |--------|--------|------|--------|
239
+ | [USDA Dr. Dukes Phytochemical and Ethnobotanical Databases](https://phytochem.nal.usda.gov/) | Public domain | 2026 | Full 16-table PostgreSQL import, normalized |
240
  | [NCBI PubMed](https://pubmed.ncbi.nlm.nih.gov/) | E-utilities API | March 2026 | `esearch` per compound, total publication count |
241
  | [ClinicalTrials.gov](https://clinicaltrials.gov/) | v2 API | March 2026 | Study count per compound name |
242
  | [ChEMBL](https://www.ebi.ac.uk/chembl/) | REST API (v34) | March 2026 | Bioactivity measurement count via molecule search |
243
+ | [USPTO PatentsView](https://patentsview.org/) | REST API v1 | March 2026 | US patents since 2020-01-01 mentioning compound |
244
 
245
  All enrichment scripts are deterministic, checkpoint-resumable, and respect API rate limits. Source code available upon request for enterprise customers.
246
 
 
264
  ## License & Commercial Access
265
 
266
  - **Free 400-row sample**: [CC BY-NC 4.0](https://creativecommons.org/licenses/by-nc/4.0/) — use for evaluation, academic research, and prototyping.
267
+ - **Single Entity License €699** one-time: [**Buy →**](https://buy.stripe.com/00w6oGgFh58v6Toeqsebu02) 1 legal entity, internal use, perpetual. No redistribution.
268
+ - **Team License — €1.349** one-time: [**Buy →**](https://buy.stripe.com/dRm7sK9cP1Wj0v06Y0ebu03) — all employees of 1 legal entity, unlimited internal users, includes analytics toolkit.
269
+ - **Enterprise License — €1.699** one-time: [**Buy →**](https://buy.stripe.com/dRm28q0Gj1WjdhM6Y0ebu04) — multi-entity / group use, internal product integration rights, full RAG integration toolkit.
270
+
271
+ > Gemäß § 19 UStG wird keine Umsatzsteuer berechnet.
272
 
273
  ## Citation
274