BioPortal Ontology to i2b2 File Mappings

This page allows you to download a BioPortal ontology in i2b2 format. Simply locate the ontology and version that you want on the left and download the corresponding file. Note that not all BioPortal ontologies and versions have corresponding i2b2 files. If you would like for a missing ontology or version to be included on this page then please visit https://community.i2b2.org/wiki/display/NCBO/NCBO+Ontology+Tools to learn how to make an i2b2 file from a BioPortal ontology. If you have an i2b2 file that you would like to make available to others then please use the “Upload” button at the bottom of this page to add your file to this list.

BioPortal Ontology i2b2 File
Name Version Ontology File Report Upload Date Contact
HOM-UCARE 1.0 45877 ncbo_45877_i2b2.txt view report

NCBO Processing tool Version 1.0 July 2011
Prefix: HOM:
Path format: Readable

2011-08-11 13:26:15 UTC Lori Phillips
SNOMED Clinical Findings 1.2 SNOMED_CF ncbo_43051_SNO_SHORT.zip view report

NCBO Processing tool Version 1.0 July 2011
Prefix: SNO:
Path format: Short

2011-08-16 20:02:21 UTC Lori Phillips
International Classification of Diseases 2012 ICD9CM ncbo_47178_ICD9_MED.txt view report

NCBO Processing tool Version 1.1 May 2012
Prefix: ICD9:
Path format: Medium
Summary basecodes omitted

2012-05-11 13:55:38 UTC Lori Phillips
SNOMED Clinical Terms 2011_07_31 SNOMEDCT NCBO_46896_SNO_CF_ROOT.zip view report

NCBO Processing tool Version 1.1 May 2012
File is '|' delimited; first row specifies column headings
Strings are quoted with the ' " ' identifier
A single root node was not specified
Prefix: SNO:
Path format: Short
Summary basecodes omitted

2012-06-27 14:40:56 UTC Lori Phillips
SNOMED Clinical Terms 2011_07_31 SNOMEDCT NCBO_46896_SNO_BODY_ROOT.zip view report

NCBO Processing tool Version 1.1 May 2012
File is '|' delimited; first row specifies column headings
Strings are quoted with the ' " ' identifier
A single root node was not specified
Prefix: SNO:
Path format: Short
Summary basecodes omitted

2012-06-27 14:50:24 UTC Lori Phillips
SNOMED Clinical Terms 2011_07_31 SNOMEDCT 46896_Full_SNOMED_processed_short_.zip view report

NCBO Processing tool Version 1.0 July 2011
Prefix: SNO:
Path format: Short

2013-01-18 16:53:52 UTC Pei Chen
RadLex 3.8 RADLEX 49816_RAD_LEX_RID_SHORT.zip view report

NCBO Processing tool Version 1.0 July 2011
Prefix: RID:
Path format: Short

2013-05-28 15:09:39 UTC Pei Chen
Sequence Types and Features Ontology unknown SO i2b2_genomics_ontology_full.txt view report

The i2b2genomics metadata is a modification of the Sequence Ontology organized as concepts and modifiers. Terms extracted from sequence ontology have retained the 'SO:" code prefix. Additional terms were added as needed and given the "SEQ:" code prefix.

2013-07-19 15:51:26 UTC Lori Phillips
International Classification of Diseases, Version 10 - Clinical Modification 2011_01 ICD10CM 46302_ICD10_MED_metadataFile.txt view report

NCBO Processing tool Version 1.1 May 2012
File is '|' delimited; first row specifies column headings
Strings are quoted with the ' " ' identifier
A single root node name of Diagnoses was specified
Prefix: ICD10:
Path format: Medium

2014-01-03 19:52:29 UTC Lori Phillips
International Classification of Diseases, Version 10 - Procedure Coding System 2011 ICD10PCS PCS_46303_metadataFile.txt view report

NCBO Processing tool Version 1.1 May 2012
File is '|' delimited; first row specifies column headings
Strings are quoted with the ' " ' identifier
A single root node name of ICD10PCS was specified
Prefix: ICD10PCS:
Path format: Medium

2014-01-03 20:08:26 UTC Lori Phillips
National Drug File - Reference Terminology 2011_09_06 NDFRT NDFRT_47101_metadataFile.txt view report

NCBO Processing tool Version 1.1 May 2012
File is '|' delimited; first row specifies column headings
Strings are quoted with the ' " ' identifier
A single root node name of NDFRT was specified
Prefix: NDFRT:
Path format: Medium

2014-01-03 21:17:07 UTC Lori Phillips
Logical Observation Identifier Names and Codes 236 LOINC LOINC_47637_metadataFile.txt.gz view report

NCBO Processing tool Version 1.1 May 2012
File is '|' delimited; first row specifies column headings
Strings are quoted with the ' " ' identifier
A single root node name of LOINC was specified
Prefix: LOINC:
Path format: Medium

2014-01-06 14:45:00 UTC Lori Phillips
Human Phenotype Ontology unknown HP HPO_2014_10_17_short_i2b2.zip view report

NCBO Processing tool Version 2.0 Feb 2014
File is '|' delimited; first row specifies column headings
Strings are quoted with the ' " ' identifier
A single root node was not specified
Prefix: None
Path format: Short

2014-10-15 15:19:50 UTC Pei Chen
Medical Subject Headings 2014AA MESH MESH_2014AA_short_i2b2.zip view report

NCBO Processing tool Version 2.0 Feb 2014
File is '|' delimited; first row specifies column headings
Strings are quoted with the ' " ' identifier
A single root node was not specified
Prefix: None
Path format: Short

2014-11-04 16:18:40 UTC Pei Chen
Gene Ontology releases/2014-10-30 GO GO_2014AA_short_i2b2.zip view report

NCBO Processing tool Version 2.0 Feb 2014
File is '|' delimited; first row specifies column headings
Strings are quoted with the ' " ' identifier
A single root node was not specified
Prefix: None
Path format: Short

2014-11-05 22:25:52 UTC Pei Chen
International Classification of Diseases, Version 9 - Clinical Modification 2014AA ICD9CM ICD9CM_2014AA_short_i2b2.zip view report

NCBO Processing tool Version 2.0 Feb 2014
File is '|' delimited; first row specifies column headings
Strings are quoted with the ' " ' identifier
A single root node was not specified
Prefix: None
Path format: Short

2014-11-05 22:32:14 UTC Pei Chen
National Drug File - Reference Terminology 2014AA NDFRT NDFRT_2014AA_short_i2b2.zip view report

NCBO Processing tool Version 2.0 Feb 2014
File is '|' delimited; first row specifies column headings
Strings are quoted with the ' " ' identifier
A single root node was not specified
Prefix: None
Path format: Short

2014-11-06 19:26:16 UTC Pei Chen
International Classification of Diseases, Version 10 - Clinical Modification 2014AA ICD10CM ICD10_2014AA_short_i2b2.zip view report

NCBO Processing tool Version 2.0 Feb 2014
File is '|' delimited; first row specifies column headings
Strings are quoted with the ' " ' identifier
A single root node was not specified
Prefix: None
Path format: Short

2014-11-06 19:30:04 UTC Pei Chen
RxNORM 2014AA RXNORM RXNORM_2014AA_short_i2b2.zip view report

NCBO Processing tool Version 2.0 Feb 2014
File is '|' delimited; first row specifies column headings
Strings are quoted with the ' " ' identifier
A single root node was not specified
Prefix: None
Path format: Short

2015-01-28 14:56:54 UTC Pei Chen
Systematized Nomenclature of Medicine - Clinical Terms 2014AA SNOMEDCT SNOMED_2014AA_short_i2b2.zip view report

NCBO Processing tool Version 2.0 Feb 2014
File is '|' delimited; first row specifies column headings
Strings are quoted with the ' " ' identifier
A single root node was not specified
Prefix: None
Path format: Short

2015-02-17 16:30:29 UTC Pei Chen
Medical Dictionary for Regulatory Activities 2014AB MEDDRA I2B2_NCBO_MEDDRA_Final.zip view report

NCBO Processing tool Version 2.0 Feb 2014
File is '|' delimited; first row specifies column headings
Strings are quoted with the ' " ' identifier
A single root node name of MedDRA was specified
Prefix: MedDRA:
Path format: Medium

2015-05-06 10:05:42 UTC Sekhar Hari
International Classification of Diseases, Version 10 - Procedure Coding System 2013AB ICD10PCS ICD10PCS_2013AB_2.txt view report

NCBO Processing tool Version 2.0 Feb 2014
File is '|' delimited; first row specifies column headings
Strings are quoted with the ' " ' identifier
A single root node name of ICD10PCS was specified
Prefix: ICD10PCS:
Path format: Medium

2015-07-09 14:24:58 UTC Lori Phillips
International Classification of Diseases, Version 10 - Clinical Modification 2015AA ICD10CM ICD10CM_2015AA_metadataFile.txt view report

NCBO Processing tool Version 2.0 Feb 2014
File is '|' delimited; first row specifies column headings
Strings are quoted with the ' " ' identifier
A single root node name of ICD10CM_2015AA was specified
Prefix: ICD10:
Path format: Medium

2015-10-13 16:40:51 UTC Lori Phillips
International Classification of Diseases, Version 10 - Procedure Coding System 2015AA ICD10PCS ICD10PCS_2015AA_metadataFile.txt view report

NCBO Processing tool Version 2.0 Feb 2014
File is '|' delimited; first row specifies column headings
Strings are quoted with the ' " ' identifier
A single root node name of ICD10PCS_2015AA was specified
Prefix: ICD10PCS:
Path format: Medium

2015-10-22 17:39:00 UTC Lori Phillips