III. ELEMENTS (OF PROPERTIES) AND THEIR CODE VALUES
(IUPAC Technical report 1997 -IFCC Recommendation 1997)
Prepared for publication by:
I. BRUUNSHUUS1, W. FREDERIKSEN2, H. OLESEN1 , I. IBSEN1
1 Dept. of Clinical Pharmacology Q 76.4.2,
Copenhagen University Hospital (Rigshospitalet), Copenhagen, Denmark
2 Dept. of Clinical Microbiology, Statens Serum Institute, Copenhagen,
Denmark
*#The combined Memberships of the Commission and the Committee during the preparation of this report (1994 to 1996) were as follows:
Chairman: 1989-1995 H. Olesen (Denmark); 1996 - D Kenny (Ireland). Members: X. Fuentes-Arderiu (Spain; 1991-1997); J.G. Hill (Canada; 1987-1997); D. Kenny (Ireland; 1994-1997); H. Olesen (Denmark; 1985-1995); PL Storring (United Kingdom; 1989-1995); P Soares de Araujo (Brazil; 1994-1997); Ren� Dybk�r (Denmark; 1996-1997); Clem McDonald (USA; 1996-1997).
Please forward comments to:
H. Olesen, Dept. Clin. Pharmacol. Q 75.2.1, Copenhagen University
Hospital (Rigshospitalet), 20 Tagensvej, DK-2200 Copenhagen, Denmark.
Fax: +45 35 45 27 45; e-mail: [email protected] or
[email protected]
Synopsis
We have prepared a coding scheme for the elements (concepts) in the
subject field "clinical laboratory sciences". The scheme uses code values
taken from international coding schemes that provide code values for the
elements in the various subspecialties which are represented in the subject
field.
The coding scheme for elements is accessible on Internet from the C-NPU Home page address:
http://www.ifcc-iupac.suite.dk
Preface
The present document is the third part of a series on properties observed
in the clinical laboratory sciences initiated in 1987.
The series will comprise the five general parts (I-IV and XI) and a
series of special parts:
| I | Syntax and semantic rules |
| II | Kinds-of-property |
| III | Elements (of properties) and their code values (this document) |
| IV | Properties and their code values |
| V | Properties and units in Thrombosis and Haemostasis |
| VI | Properties and units in IOC prohibited drugs |
| VII | Properties and units in Inborn Errors of Metabolism |
| VIII | Properties and units in Clinical Microbiology |
| IX | Properties and units in Trace Elements |
| X | Properties and units in General Clinical Chemistry |
| XI | Coding systems - structure and guidelines |
| XII | Properties and units in Clinical Pharmacology and Toxicology |
| XIII | Properties and units in Reproduction and Fertility |
| XIV | Properties and units in Tumor Markers |
| XVI | Properties and units in Clinical Allergology |
The size and complexity of part III, IV and XV is such that they will
be presented in electronic format.
The overall aim is access by electronic media of:
"Compendium of terminology and nomenclature of properties in clinical
laboratory sciences".
"Glossary of terms in quantities and units in clinical chemistry".
"Properties and units in the clinical laboratory sciences" .
Definitions
code value: result of applying a coding scheme to an element
in a coded set
coding scheme: collection of rules that maps the elements of
one set on to the elements of a second set
international coding scheme identifier, ISCI: identifier assigned
to uniquely identify a registered coding scheme for use in information
interchange
subject field: section of human knowledge, the borderlines of
which are defined from a purpose-related point of view
NOTE - In terminology science and its practical applications, the subject
field is determined through the establishment of systems of concepts
term list: collection of terms to be subjected to further terminology
work
Introduction
Authoritative coding schemes in the health care domain are much needed
for the electronic exchange of information on assays across language and
cultural barriers.
In the clinical laboratory sciences there is a tradition for systematic
expression of laboratory examination and the number of examinations performed
is considerable, that is 5 to 10 per inhabitant per year.
To facilitate data exchange, a coding scheme for terms indicating properties
has been prepared (part IV of this series). The elements (words, concepts,
building blocks) of these terms for properties are listed as a term list
in the present document in the form of a coding scheme comprising:
1. An international coding scheme identifier, and a code value representing
a concept.
2. The linguistic expression of the concept in English and in some
other language.
The listings are given both in code value order and in alphabetic order. The size of the listings is considerable, and they are therefore accessible on Internet only. This also facilitates updating.
The reason for codifying is threefold:
1. The code value mostly refers to a concept defined by the authority
issuing the coding scheme.
2. The concept can be expressed directly in the local idiom, without
need of translation.
3. The code value ensures a correct expression and spelling throughout
the terms for properties.
The sources of code values are:
| ATCC | American Type Culture Collection |
| CAS | Chemical Abstract Service. Spelling of pharmaceutical substances is primarily according to INN |
| CCUG | Culture Collection, University of G�teborg, Sweden |
| CIP | Collection de l'Institut Pasteur, Paris, France |
| EC | Enzyme Commission of the International Union of Biochemistry and Molecular Biology. Enzyme Nomenclature, Recommendation (1992)* |
| IAM | Institute of Applied Microbiology, Tokyo, Japan |
| JCM | Japan Collection of Microorganisms |
| MSH | Medical Subject Headings, National Institutes of Health, National Library of Medicine, Bethesda, USA |
| NCTC | National Collection of Type Cultures, Colindale, United Kingdom |
| QU | Given by IFCC-IUPAC/C-NPU |
| ECRI | Universal Medical Device (UMD) Nomenclature System� . Product Categories Thesaurus 1996. Copyright 1995 by ECRI. |
* The term aminotransferase (EC 2.6.x.x) used in Recommendations 1964,
1978 and 1984 has been altered to transaminase in the 1992 recommendation.
Chemical Abstract Service has no plan to change their preferred nomenclature
for aminotransferases to transaminases, and this stand has been followed
by C-NPU.
The list will be supplemented on an ad hoc basis, in particular with
code values for viruses, and anatomical sites.
In some cases both a CAS and an EC code value are available. In these
cases priority is given to the CAS code value, and the EC code value is
given as a note.
While CAS code values are at hand for acids and bases, these compounds
occur as anions and cations in biological fluids. For these QU code values
apply.
EXAMPLES
| CAS69-72-7 | Salicylic acid |
| QU60927 | Salicylate |
| CAS99-66-1 | Valproic acid |
| QU60926 | Valproate |
The bulk of the code values are for use in the result part of a clinical laboratory report, for example the outcome of a microbiological examination, the findings in doping control, the identification of an unusual haemoglobin or identifying an inborn error of metabolism.
EXAMPLE
[NPU06073]
U3/4 Bacterium; taxon = Escherichia coli (ATCC11775) ; Proteus
vulgaris (ATCC13315)
The code values may also be used in constructing further code strings
for properties when the need arises.
The term list is not for publication in paper form, but is for access
on the Internet from the C-NPU Home page address:
http://www.ifcc-iupac.suite.dk
REFERENCES
[1] IUPAC-IFCC (International Union of Pure and Applied Chemistry-International Federation of Clinical Chemistry), 1995. Compendium of terminology and nomenclature of properties in clinical laboratory sciences. "The Silver Book". Prepared for publication by Rigg JC, Brown SS, Dybk�r R, Olesen H. Oxford: Blackwell Science, 290 pp.
[2] IUPAC-IFCC (International Union of Pure and Applied Chemistry- International Federation of Clinical Chemistry, Commission/Committee on Quantities and Units(in Clinical Chemistry), 1995. Glossary of terms in quantities and units in clinical chemistry. Prepared for publication by Lehmann HP, Fuentes-Arderiu X, Bertello, LF. Pure and Appl Chem 1996; 68: 957-1000. Biochim Clin 1995; 19: 471-502.
[3] International Standard ISO/IEC 7826-1:1994. Information technology - General structure for the interchange of code values. Part 1: Identification of coding schemes.
[4] International Standard ISO 1087:1990. Terminology - Vocabulary.
[5] IUPAC- IFCC (International Union of Pure and Applied Chemistry-International Federation of Clinical Chemistry), 1967. Quantities and units in clinical chemistry including Recommendation 1966. Prepared for publication by Dybk�r R, J�rgensen, K. Copenhagen: Munksgaard, 102 pp.
SAMPLE PAGE
English; alphabetic order
| CAS77337-76-9 | Acamprosate | |
| MSH95D000048 | Acanthamoeba | |
| QU66000 | Acanthamoeba astronyxis | |
| QU66001 | Acanthamoeba castellanii | |
| QU66002 | Acanthamoeba culbertsoni | |
| QU66003 | Acanthamoeba polyphaga | |
| QU66004 | Acanthamoeba rhysodes | |
| CAS56180-94-0 | Acarbose | |
| CAS37517-30-9 | Acebutolol | |
| CAS34381-68-5 | Acebutolol Hydrochloride | |
| CAS77-66-7 | Acecarbromal | |
| CAS827-61-2 | Aceclidine | |
| CAS89796-99-6 | Aceclofenac | |
| CAS77-46-3 | Acedapsone | |
| CAS80-03-5 | Acediasulfone | |
| CAS127-60-6 | Acediasulfone Sodium | |
| CAS15302-00-8 | Acefylline Piperazine | |
| CAS642-83-1 | Aceglatone | |
| CAS12607-92-0 | Aceglutamide Aluminium | |
| CAS53164-05-9 | Acemetacin | |
| CAS152-72-7 | Acenocoumarol | |
| CAS61-00-7 | Acepromazine | |
| CAS78273-80-0 | Aceroxatidine | |
| CAS93793-83-0 | Aceroxatidine Hydrochloride | |
| CAS75-07-0 | Acetaldehyde | |
| EC1.2.1.10 | Acetaldehyde dehydrogenase (acetylating) | |
| EC3.5.1.51 | 4- | Acetamidobutyryl-CoA deacetylase |
| CAS97-44-9 | Acetarsol | |
| EC2.8.3.8 | Acetate CoA-transferase | |
| EC2.7.2.1 | Acetate kinase | |
| EC2.7.2.12 | Acetate kinase (pyrophosphate) | |
| EC6.2.1.1 | Acetate-CoA ligase | |
| EC6.2.1.13 | Acetate-CoA ligase (ADP-forming) | |
| CAS59-66-5 | Acetazolamide | |
| CAS1424-27-7 | Acetazolamide Sodium | |
| CAS299-89-8 | Acetiamine | |
| ATCC33288 | Acetivibrio cellulolyticus | |
| ATCC33324 | Acetivibrio ethanolgignens | |
| ATCC49731 | Acetivibrio multivorans | |
| EC4.1.1.4 | Acetoacetate decarboxylase | |
| EC6.2.1.16 | Acetoacetate-CoA ligase | |
| MSHD000090 | Acetoacetate | |
| EC3.1.2.11 | Acetoacetyl-CoA hydrolase | |
| EC1.1.1.36 | Acetoacetyl-CoA reductase | |
| ATCC14835 | Acetobacter liquefaciens | |
| ATCC29683 | Acetobacterium woodii | |
| ATCC33488 | Acetogenium kivui | |
| CAS968-81-0 | Acetohexamide |
SAMPLE PAGE
English; coding scheme identifier order
| ATCC14835 | Acetobacter liquefaciens | |
| ATCC29683 | Acetobacterium woodii | |
| ATCC33288 | Acetivibrio cellulolyticus | |
| ATCC33324 | Acetivibrio ethanolgignens | |
| ATCC33488 | Acetogenium kivui | |
| ATCC49731 | Acetivibrio multivorans | |
| CAS12607-92-0 | Aceglutamide Aluminium | |
| CAS127-60-6 | Acediasulfone Sodium | |
| CAS1424-27-7 | Acetazolamide Sodium | |
| CAS152-72-7 | Acenocoumarol | |
| CAS15302-00-8 | Acefylline Piperazine | |
| CAS299-89-8 | Acetiamine | |
| CAS34381-68-5 | Acebutolol Hydrochloride | |
| CAS37517-30-9 | Acebutolol | |
| CAS53164-05-9 | Acemetacin | |
| CAS56180-94-0 | Acarbose | |
| CAS59-66-5 | Acetazolamide | |
| CAS61-00-7 | Acepromazine | |
| CAS642-83-1 | Aceglatone | |
| CAS75-07-0 | Acetaldehyde | |
| CAS77337-76-9 | Acamprosate | |
| CAS77-46-3 | Acedapsone | |
| CAS77-66-7 | Acecarbromal | |
| CAS78273-80-0 | Aceroxatidine | |
| CAS80-03-5 | Acediasulfone | |
| CAS827-61-2 | Aceclidine | |
| CAS89796-99-6 | Aceclofenac | |
| CAS93793-83-0 | Aceroxatidine Hydrochloride | |
| CAS968-81-0 | Acetohexamide | |
| CAS97-44-9 | Acetarsol | |
| EC1.1.1.36 | Acetoacetyl-CoA reductase | |
| EC1.2.1.10 | Acetaldehyde dehydrogenase (acetylating) | |
| EC2.7.2.1 | Acetate kinase | |
| EC2.7.2.12 | Acetate kinase (pyrophosphate) | |
| EC2.8.3.8 | Acetate CoA-transferase | |
| EC3.1.2.11 | Acetoacetyl-CoA hydrolase | |
| EC3.5.1.51 | 4- | Acetamidobutyryl-CoA deacetylase |
| EC4.1.1.4 | Acetoacetate decarboxylase | |
| EC6.2.1.1 | Acetate-CoA ligase | |
| EC6.2.1.13 | Acetate-CoA ligase (ADP-forming) | |
| EC6.2.1.16 | Acetoacetate-CoA ligase | |
| MSHD000090 | Acetoacetate | |
| MSHD000048 | Acanthamoeba | |
| QU66000 | Acanthamoeba astronyxis | |
| QU66001 | Acanthamoeba castellanii | |
| QU66002 | Acanthamoeba culbertsoni | |
| QU66003 | Acanthamoeba polyphaga | |
| QU66004 | Acanthamoeba rhysodes |