This article is part of the supplement: Italian Society of Bioinformatics (BITS): Annual Meeting 2011

Open Access Research

An ICT infrastructure to integrate clinical and molecular data in oncology research

Daniele Segagni1, Valentina Tibollo1, Arianna Dagliati2, Alberto Zambelli1, Silvia G Priori1 and Riccardo Bellazzi3*

Author Affiliations

1 IRCCS Fondazione Salvatore Maugeri, Pavia, 27100, Italy

2 Istituto Universitario di Studi Superiori, Pavia, 27100, Italy

3 Università di Pavia, Dipartimento di Informatica e Sistemistica, Pavia, 27100, Italy

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BMC Bioinformatics 2012, 13(Suppl 4):S5  doi:10.1186/1471-2105-13-S4-S5

Published: 28 March 2012

Additional files

Additional file 1:

XML Schema for the NLP module output file. PDF file that represents the XML Schema used to generate the XML result file for the NLP module. Detailed below are the tags used: <document> is the xml root container; <name> represents the anonymized report id; <date> is the report date; <type> inform about histological or cytological type; <number> is the specimen number related to the report; <estrogens_receptors>, <progesterone_recoptors>, <Ki67>, <c-erb_B2> are related to laboratory analysis values, <grade> is the tumor grade, <state> in the TNM tumos code and <snomed> is a list of <code> and <name> that represent SNOMED values.

Format: PDF Size: 4KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 2:

Medical report example used with the NLP module. PDF file that represents a real example of medical records used as input for the developed NLP software module.

Format: PDF Size: 7KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 3:

XML example for the NLP module output file. PDF file that represents the XML format result file of the NLP module. The explanation of each tag is detailed in the description of "Additional file 1".

Format: PDF Size: 5KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data