TY  - JOUR
A1  - Borchert, Florian
A1  - Mock, Andreas
A1  - Tomczak, Aurelie
A1  - Hügel, Jonas
A1  - Alkarkoukly, Samer
A1  - Knurr, Alexander
A1  - Volckmar, Anna-Lena
A1  - Stenzinger, Albrecht
A1  - Schirmacher, Peter
A1  - Debus, Jürgen
A1  - Jäger, Dirk
A1  - Longerich, Thomas
A1  - Fröhling, Stefan
A1  - Eils, Roland
A1  - Bougatf, Nina
A1  - Sax, Ulrich
A1  - Schapranow, Matthieu-Patrick
T1  - Correction to: Knowledge bases and software support for variant interpretation in precision oncology
JF  - Briefings in bioinformatics
Y1  - 2021
U6  - https://doi.org/10.1093/bib/bbab246
SN  - 1467-5463
SN  - 1477-4054
VL  - 22
IS  - 6
PB  - Oxford Univ. Press
CY  - Oxford
ER  - 
TY  - JOUR
A1  - Borchert, Florian
A1  - Mock, Andreas
A1  - Tomczak, Aurelie
A1  - Hügel, Jonas
A1  - Alkarkoukly, Samer
A1  - Knurr, Alexander
A1  - Volckmar, Anna-Lena
A1  - Stenzinger, Albrecht
A1  - Schirmacher, Peter
A1  - Debus, Jürgen
A1  - Jäger, Dirk
A1  - Longerich, Thomas
A1  - Fröhling, Stefan
A1  - Eils, Roland
A1  - Bougatf, Nina
A1  - Sax, Ulrich
A1  - Schapranow, Matthieu-Patrick
T1  - Knowledge bases and software support for variant interpretation in precision oncology
JF  - Briefings in bioinformatics
N2  - Precision oncology is a rapidly evolving interdisciplinary medical specialty. Comprehensive cancer panels are becoming increasingly available at pathology departments worldwide, creating the urgent need for scalable cancer variant annotation and molecularly informed treatment recommendations. A wealth of mainly academia-driven knowledge bases calls for software tools supporting the multi-step diagnostic process. We derive a comprehensive list of knowledge bases relevant for variant interpretation by a review of existing literature followed by a survey among medical experts from university hospitals in Germany. In addition, we review cancer variant interpretation tools, which integrate multiple knowledge bases. We categorize the knowledge bases along the diagnostic process in precision oncology and analyze programmatic access options as well as the integration of knowledge bases into software tools. The most commonly used knowledge bases provide good programmatic access options and have been integrated into a range of software tools. For the wider set of knowledge bases, access options vary across different parts of the diagnostic process. Programmatic access is limited for information regarding clinical classifications of variants and for therapy recommendations. The main issue for databases used for biological classification of pathogenic variants and pathway context information is the lack of standardized interfaces. There is no single cancer variant interpretation tool that integrates all identified knowledge bases. Specialized tools are available and need to be further developed for different steps in the diagnostic process.
KW  - HiGHmed
KW  - personalized medicine
KW  - molecular tumor board
KW  - data integration
KW  - cancer therapy
Y1  - 2021
U6  - https://doi.org/10.1093/bib/bbab134
SN  - 1467-5463
SN  - 1477-4054
VL  - 22
IS  - 6
PB  - Oxford Univ. Press
CY  - Oxford
ER  - 
TY  - JOUR
A1  - v. Frankenberg, Jenny
A1  - Seidl, Rainer Ottis
A1  - Schultheiss, Corinna
A1  - Frank, Ulrike
A1  - Fuß, Sophia
A1  - Stefke, Michaela
A1  - Honekamp, Andrea
A1  - Winkler, Silke
A1  - Jäckel, Annemarie
A1  - Schindler, Wencke
A1  - Wenglarczyk, Anke
A1  - Weise, Stefanie
A1  - Heide, Judith
A1  - Stadie, Nicole
A1  - Schröder, Astrid
A1  - Baer-Henney, Dinah
A1  - van de Vijver, Ruben
A1  - Sauerland, Uli
A1  - Yatsushiro, Kazuko
A1  - Schöppe, Doreen
A1  - Blatter, Kristine
A1  - Faust, Verena
A1  - Jäger, Dana
A1  - Artelt, Cordula
A1  - Schneider, Wolfgang
A1  - Stanat, Petra
A1  - Bruchmüller, Wiebke
A1  - Sjöström, Saana
A1  - Schütz, Susann
A1  - Swietza, Romy
A1  - Zielina, Marie
A1  - Freymann, Marie
A1  - Hausmann, Nadin
A1  - Köntopp, Isabelle
A1  - Liebig, Johanna
A1  - Schnell, Annemarie
A1  - Wegener, Viktoria
A1  - Heinemann, Steffi
A1  - Haensel, Diana
A1  - Mürbe, Dirk
A1  - Pomnitz, Patricia
A1  - Siegmüller, Julia
ED  - Heide, Judith
ED  - Fritzsche, Tom
ED  - Meyer, Corinna B.
ED  - Ott, Susan
T1  - Spektrum Patholinguistik =  Schwerpunktthema: Schluck für Schluck: Dysphagietherapie bei Kindern und Erwachsenen
T1  - Spektrum Patholinguistik = Key issue: Sip by sip: Dysphagia therapy in children and adults
N2  - Das Herbsttreffen Patholinguistik wird seit 2007 jährlich vom Verband für Patholinguistik e.V. (vpl) durchgeführt. Die Jubiläumsveranstaltung am 19.11.2011 in Potsdam war nicht nur die 5. Auflage der Veranstaltung, sondern auch ein Fest zum 10jährigen Bestehen des Verbandes. Das Thema lautete "Schluck für Schluck: Dysphagietherapie bei Kindern und Erwachsenen". Im vorliegenden Tagungsband finden sich die Artikel der Hauptvorträge sowie die Abstracts der Posterpräsentationen.
N2  - The 'Herbsttreffen Patholinguistik' is an annual conference organized by the Association for Patholinguistics (Verband für Patholinguistik e.V./vpl) since 2007. The anniversary event on November 19th, 2011 in Potsdam marked both the 5th edition of this conference series and the 10th birthday of the vpl. The main topic of the meeting was "Sip by sip: Dysphagia therapy in children and adults". These proceedings contain the papers from the invited talks and the abstracts of the poster presentations.
T3  - Spektrum Patholinguistik - 5 
KW  - Patholinguistik
KW  - Sprachtherapie
KW  - Dysphagie
KW  - Schluckstörung
KW  - Schlucktherapie
KW  - patholinguistics
KW  - speech/language therapy
KW  - dysphagia
KW  - swallowing disorders
KW  - dysphagia therapy
Y1  - 2012
U6  - http://nbn-resolving.de/urn/resolver.pl?urn:nbn:de:kobv:517-opus-59877
SN  - 978-3-86956-199-8
SN  - 1866-9433
SN  - 1869-3822
IS  - 5
PB  - Universitätsverlag Potsdam
CY  - Potsdam
ER  -