How CliniNote works
Clinical NLP that actually understands medical text
A walkthrough of how CliniNote processes EHR notes, extracts structured entities, and returns verifiable results your evidence team can audit and trust.
Purpose-built extraction
Not a wrapper. A clinical extraction engine.
CliniNote is built on models fine-tuned specifically on de-identified clinical notes, not general-purpose language models repurposed for medicine. That distinction matters when a note uses negation ("no history of"), temporality ("prior to admission"), and abbreviations ("HTN", "DM2") that general models routinely misinterpret.
The system processes each document through a clinical NLP pipeline that identifies entity mentions, resolves them to standard codes (ICD-10, NDC, CPT, LOINC), evaluates negation and uncertainty, and returns a structured dataset with confidence scores and source citations for every row.
Live extraction example
From clinical note to structured dataset
The same pipeline that runs on your EHR exports. Every entity annotated, coded, and cited.
| Entity | Type | Code | Conf |
|---|---|---|---|
| Heart failure | Diagnosis | I50.9 | 0.96 |
| COPD | Diagnosis | J44.1 | 0.94 |
| furosemide 40mg IV BID | Medication | NDC 00069-3060 | 0.99 |
| carvedilol 12.5mg | Medication | NDC 00007-4139 | 0.98 |
| spironolactone 25mg | Medication | NDC 00025-0534 | 0.97 |
| Echocardiogram | Procedure | CPT 93306 | 0.95 |
| BNP measurement | Lab | LOINC 42637-9 | 0.89 |
| Admission date | Date | 2025-02-18 | 0.99 |
What CliniNote extracts
Standard and custom entity types
Seven standard entity classes, each mapped to recognized coding systems. Add custom phenotype definitions for study-specific entities.
ICD-10 Diagnoses
Diagnosis mentions extracted and resolved to ICD-10-CM codes. Handles abbreviations, synonyms, and negated mentions. Confidence score included for each code assignment.
NDC Medications
Drug name, dose, route, and frequency extracted as a structured tuple. Normalized to NDC and RxNorm identifiers. Handles brand and generic name variants.
CPT Procedures
Procedures and interventions mapped to CPT codes. Captures planned, completed, and excluded procedures with temporal context where available in the note.
LOINC Lab Codes
Lab test names and result values extracted from narrative text. Mapped to LOINC codes with numeric value, unit, and result status where documented.
Dates and Temporal Expressions
Absolute dates, relative expressions ("three weeks prior"), and event anchors resolved into ISO-8601 dates where the anchor is available. Supports admission, discharge, and procedure date extraction.
Negation and Uncertainty
Each entity tagged with negation status (affirmed / negated / uncertain) and experiencer (patient vs. family history). Critical for avoiding false-positive diagnoses in cohort construction.
Input and output
Works with the formats your EHR already exports
See it run on your own notes
Request early access for a guided walkthrough on a sample of your EHR export data.