Simultaneous identification of causal genes and dys-regulated pathways in complex diseases

Yoo Ah Kim; Stefan Wuchty; Teresa M. Przytycka

doi:10.1007/978-3-642-12683-3_17

Simultaneous identification of causal genes and dys-regulated pathways in complex diseases

Yoo Ah Kim, Stefan Wuchty, Teresa M. Przytycka

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

8 Scopus citations

Abstract

In complex diseases different genotypic perturbations of the cellular system often lead to the same phenotype. While characteristic genomic alterations in many cancers exist, other combinations of genomic perturbations potentially lead to the same disease, dysregulating important pathways of the cellular system. In this study, we developed novel computational methods to identify dysregulated pathways and their direct causes in individual patients or patient groups. Specifically, we introduced efficient and powerful graph theoretic algorithms to identify such dysregulated pathways and their causal genes and applied our methods to a large set of glioma specific molecular data.

Original language	English (US)
Title of host publication	Research in Computational Molecular Biology - 14th Annual International Conference, RECOMB 2010, Proceedings
Pages	263-280
Number of pages	18
DOIs	https://doi.org/10.1007/978-3-642-12683-3_17
State	Published - Dec 23 2010
Externally published	Yes
Event	14th Annual International Conference on Research in Computational Molecular Biology, RECOMB 2010 - Lisbon, Portugal Duration: Apr 25 2010 → Apr 28 2010

Publication series

Name	Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume	6044 LNBI
ISSN (Print)	0302-9743
ISSN (Electronic)	1611-3349

Other

Other	14th Annual International Conference on Research in Computational Molecular Biology, RECOMB 2010
Country/Territory	Portugal
City	Lisbon
Period	4/25/10 → 4/28/10

Keywords

Biological pathway
Complex disease
Copy number variation
Genetic variations
Glioma
Graph theoretic algorithm

ASJC Scopus subject areas

Theoretical Computer Science
Computer Science(all)

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

Access to Document

10.1007/978-3-642-12683-3_17

Cite this

Kim, Y. A., Wuchty, S., & Przytycka, T. M. (2010). Simultaneous identification of causal genes and dys-regulated pathways in complex diseases. In Research in Computational Molecular Biology - 14th Annual International Conference, RECOMB 2010, Proceedings (pp. 263-280). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 6044 LNBI). https://doi.org/10.1007/978-3-642-12683-3_17

Simultaneous identification of causal genes and dys-regulated pathways in complex diseases. / Kim, Yoo Ah; Wuchty, Stefan; Przytycka, Teresa M.

Research in Computational Molecular Biology - 14th Annual International Conference, RECOMB 2010, Proceedings. 2010. p. 263-280 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 6044 LNBI).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

Kim, YA, Wuchty, S & Przytycka, TM 2010, Simultaneous identification of causal genes and dys-regulated pathways in complex diseases. in Research in Computational Molecular Biology - 14th Annual International Conference, RECOMB 2010, Proceedings. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 6044 LNBI, pp. 263-280, 14th Annual International Conference on Research in Computational Molecular Biology, RECOMB 2010, Lisbon, Portugal, 4/25/10. https://doi.org/10.1007/978-3-642-12683-3_17

Kim YA, Wuchty S, Przytycka TM. Simultaneous identification of causal genes and dys-regulated pathways in complex diseases. In Research in Computational Molecular Biology - 14th Annual International Conference, RECOMB 2010, Proceedings. 2010. p. 263-280. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)). https://doi.org/10.1007/978-3-642-12683-3_17

Kim, Yoo Ah ; Wuchty, Stefan ; Przytycka, Teresa M. / Simultaneous identification of causal genes and dys-regulated pathways in complex diseases. Research in Computational Molecular Biology - 14th Annual International Conference, RECOMB 2010, Proceedings. 2010. pp. 263-280 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)).

@inproceedings{34e393d5623a4695bb5b69f7ca88bf3d,

title = "Simultaneous identification of causal genes and dys-regulated pathways in complex diseases",

abstract = "In complex diseases different genotypic perturbations of the cellular system often lead to the same phenotype. While characteristic genomic alterations in many cancers exist, other combinations of genomic perturbations potentially lead to the same disease, dysregulating important pathways of the cellular system. In this study, we developed novel computational methods to identify dysregulated pathways and their direct causes in individual patients or patient groups. Specifically, we introduced efficient and powerful graph theoretic algorithms to identify such dysregulated pathways and their causal genes and applied our methods to a large set of glioma specific molecular data.",

keywords = "Biological pathway, Complex disease, Copy number variation, Genetic variations, Glioma, Graph theoretic algorithm",

author = "Kim, {Yoo Ah} and Stefan Wuchty and Przytycka, {Teresa M.}",

year = "2010",

month = dec,

day = "23",

doi = "10.1007/978-3-642-12683-3_17",

language = "English (US)",

isbn = "3642126820",

series = "Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)",

pages = "263--280",

booktitle = "Research in Computational Molecular Biology - 14th Annual International Conference, RECOMB 2010, Proceedings",

note = "14th Annual International Conference on Research in Computational Molecular Biology, RECOMB 2010 ; Conference date: 25-04-2010 Through 28-04-2010",

}

TY - GEN

T1 - Simultaneous identification of causal genes and dys-regulated pathways in complex diseases

AU - Kim, Yoo Ah

AU - Wuchty, Stefan

AU - Przytycka, Teresa M.

PY - 2010/12/23

Y1 - 2010/12/23

N2 - In complex diseases different genotypic perturbations of the cellular system often lead to the same phenotype. While characteristic genomic alterations in many cancers exist, other combinations of genomic perturbations potentially lead to the same disease, dysregulating important pathways of the cellular system. In this study, we developed novel computational methods to identify dysregulated pathways and their direct causes in individual patients or patient groups. Specifically, we introduced efficient and powerful graph theoretic algorithms to identify such dysregulated pathways and their causal genes and applied our methods to a large set of glioma specific molecular data.

AB - In complex diseases different genotypic perturbations of the cellular system often lead to the same phenotype. While characteristic genomic alterations in many cancers exist, other combinations of genomic perturbations potentially lead to the same disease, dysregulating important pathways of the cellular system. In this study, we developed novel computational methods to identify dysregulated pathways and their direct causes in individual patients or patient groups. Specifically, we introduced efficient and powerful graph theoretic algorithms to identify such dysregulated pathways and their causal genes and applied our methods to a large set of glioma specific molecular data.

KW - Biological pathway

KW - Complex disease

KW - Copy number variation

KW - Genetic variations

KW - Glioma

KW - Graph theoretic algorithm

UR - http://www.scopus.com/inward/record.url?scp=78650267786&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=78650267786&partnerID=8YFLogxK

U2 - 10.1007/978-3-642-12683-3_17

DO - 10.1007/978-3-642-12683-3_17

M3 - Conference contribution

AN - SCOPUS:78650267786

SN - 3642126820

SN - 9783642126826

T3 - Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)

SP - 263

EP - 280

BT - Research in Computational Molecular Biology - 14th Annual International Conference, RECOMB 2010, Proceedings

T2 - 14th Annual International Conference on Research in Computational Molecular Biology, RECOMB 2010

Y2 - 25 April 2010 through 28 April 2010

ER -

Simultaneous identification of causal genes and dys-regulated pathways in complex diseases

Abstract

Publication series

Other

Keywords

ASJC Scopus subject areas

UN SDGs

Access to Document

Other files and links

Fingerprint

Cite this