Literature DB >> 32050609

Requirements Analysis and Specification for a Molecular Tumor Board Platform Based on cBioPortal.

Philipp Buechner1, Marc Hinderer1, Philipp Unberath1, Patrick Metzger2,3, Martin Boeker4, Till Acker5, Florian Haller6, Elisabeth Mack7, Daniel Nowak8,9, Claudia Paret10,11, Denny Schanze12, Nikolas von Bubnoff13,14,15, Sebastian Wagner16, Hauke Busch17, Melanie Boerries2,18,19, Jan Christoph1.   

Abstract

Clinicians in molecular tumor boards (MTB) are confronted with a growing amount of genetic high-throughput sequencing data. Today, at German university hospitals, these data are usually handled in complex spreadsheets from which clinicians have to obtain the necessary information. The aim of this work was to gather a comprehensive list of requirements to be met by cBioPortal to support processes in MTBs according to clinical needs. Therefore, oncology experts at nine German university hospitals were surveyed in two rounds of interviews. To generate an interview guideline a scoping review was conducted. For visual support in the second round, screenshot mockups illustrating the requirements from the first round were created. Requirements that cBioPortal already meets were skipped during the second round. In the end, 24 requirements with sometimes several conceivable options were identified and 54 screenshot mockups were created. Some of the identified requirements have already been suggested to the community by other users or are currently being implemented in cBioPortal. This shows, that the results are in line with the needs expressed by various disciplines. According to our findings, cBioPortal has the potential to significantly improve the processes and analyses of an MTB after the implementation of the identified requirements.

Entities:  

Keywords:  cBioPortal; computational biology; decision making, computer-assisted; decision support systems, clinical; molecular tumor board; neoplasms; precision medicine; requirements analysis

Year:  2020        PMID: 32050609     DOI: 10.3390/diagnostics10020093

Source DB:  PubMed          Journal:  Diagnostics (Basel)        ISSN: 2075-4418


  8 in total

1.  A pan-cancer analysis of thioredoxin-interacting protein as an immunological and prognostic biomarker.

Authors:  Xuxue Guo; Mei Huang; Haonan Zhang; Qianhui Chen; Ying Hu; Yan Meng; Changjie Wu; Chenge Tu; Yongfeng Liu; Aimin Li; Qingyuan Li; Peirong Zhou; Side Liu
Journal:  Cancer Cell Int       Date:  2022-07-17       Impact factor: 6.429

2.  Knowledge bases and software support for variant interpretation in precision oncology.

Authors:  Florian Borchert; Andreas Mock; Aurelie Tomczak; Jonas Hügel; Samer Alkarkoukly; Alexander Knurr; Anna-Lena Volckmar; Albrecht Stenzinger; Peter Schirmacher; Jürgen Debus; Dirk Jäger; Thomas Longerich; Stefan Fröhling; Roland Eils; Nina Bougatf; Ulrich Sax; Matthieu-P Schapranow
Journal:  Brief Bioinform       Date:  2021-11-05       Impact factor: 11.622

3.  Gene Expression and Data Analysis Pipeline Using Cancer BioPortal in the Classroom.

Authors:  Chassidy N Barnes; Blake P Johnson; Stefanie W Leacock; Ruben M Ceballos; Lori L Hensley; Nathan S Reyna
Journal:  J Microbiol Biol Educ       Date:  2021-03-31

4.  Overexpression of chaperonin containing TCP1 subunit 7 has diagnostic and prognostic value for hepatocellular carcinoma.

Authors:  Xinghua Huang; Huaxiang Wang; Fengfeng Xu; Lizhi Lv; Ruling Wang; Bin Jiang; Tingting Liu; Huanzhang Hu; Yi Jiang
Journal:  Aging (Albany NY)       Date:  2022-01-24       Impact factor: 5.955

5.  Searching of Clinical Trials Made Easier in cBioPortal Using Patients' Genetic and Clinical Profiles.

Authors:  Philipp Unberath; Lukas Mahlmeister; Niklas Reimer; Hauke Busch; Melanie Boerries; Jan Christoph
Journal:  Appl Clin Inform       Date:  2022-03-30       Impact factor: 2.342

6.  cbpManager: a web application to streamline the integration of clinical and genomic data in cBioPortal to support the Molecular Tumor Board.

Authors:  Federico Marini; Torsten Panholzer; Claudia Paret; Arsenij Ustjanzew; Alexander Desuki; Christoph Ritzel; Alina Corinna Dolezilek; Daniel-Christoph Wagner; Jan Christoph; Philipp Unberath; Thomas Kindler; Jörg Faber
Journal:  BMC Med Inform Decis Mak       Date:  2021-12-20       Impact factor: 2.796

7.  Integrated expression analysis revealed RUNX2 upregulation in lung squamous cell carcinoma tissues.

Authors:  Da-Ping Yang; Hui-Ping Lu; Gang Chen; Jie Yang; Li Gao; Jian-Hua Song; Shang-Wei Chen; Jun-Xian Mo; Jin-Liang Kong; Zhong-Qing Tang; Chang-Bo Li; Hua-Fu Zhou; Lin-Jie Yang
Journal:  IET Syst Biol       Date:  2020-10       Impact factor: 1.615

8.  Downregulated Expression of RIPOR3 Correlated with Immune Infiltrates Predicts Poor Prognosis in Oral Tongue Cancer.

Authors:  Kai Zhang; Junlong Da; Xiaoyao Liu; Xinpeng Liu; Jianqun Wang; Han Jin; Ying Li; Bin Zhang
Journal:  Med Sci Monit       Date:  2022-03-12
  8 in total

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