Download
Foraita-et-al_2020_Causal discovery of gene regulation.pdf 1,10MB
WeightNameValue
1000 Titel
  • Causal discovery of gene regulation with incomplete data
1000 Autor/in
  1. Foraita, Ronja |
  2. Friemel, Juliane |
  3. Günther, Kathrin |
  4. Behrens, Thomas |
  5. Bullerdiek, Jörn |
  6. Nimzyk, Rolf |
  7. Ahrens, Wolfgang |
  8. Didelez, Vanessa |
1000 Erscheinungsjahr 2020
1000 LeibnizOpen
1000 Publikationstyp
  1. Artikel |
1000 Online veröffentlicht
  • 2020-04-18
1000 Erschienen in
1000 Quellenangabe
  • 183(4):1747-1775
1000 FRL-Sammlung
1000 Copyrightjahr
  • 2020
1000 Lizenz
1000 Verlagsversion
  • https://doi.org/10.1111/rssa.12565 |
1000 Ergänzendes Material
  • https://rss.onlinelibrary.wiley.com/doi/10.1111/rssa.12565#rssa12565-app-0001-title |
1000 Publikationsstatus
1000 Begutachtungsstatus
1000 Sprache der Publikation
1000 Abstract/Summary
  • Causal discovery algorithms aim to identify causal relations from observational data and have become a popular tool for analysing genetic regulatory systems. In this work, we applied causal discovery to obtain novel insights into the genetic regulation underlying head‐and‐neck squamous cell carcinoma. Some methodological challenges needed to be resolved first. The available data contained missing values, but most approaches to causal discovery require complete data. Hence, we propose a new procedure combining constraint‐based causal discovery with multiple imputation. This is based on using Rubin's rules for pooling tests of conditional independence. A second challenge was that causal discovery relies on strong assumptions and can be rather unstable. To assess the robustness of our results, we supplemented our investigation with sensitivity analyses, including a non‐parametric bootstrap to quantify the variability of the estimated causal structures. We applied these methods to investigate how the high mobility group AT‐Hook 2 (HMGA2) gene is incorporated in the protein 53 signalling pathway playing an important role in head‐and‐neck squamous cell carcinoma. Our results were quite stable and found direct associations between HMGA2 and other relevant proteins, but they did not provide clear support for the claim that HMGA2 itself is a key regulator gene.
1000 Sacherschließung
lokal Protein 53 signalling pathway
lokal HMGA2 gene
lokal PC algorithm
lokal Head‐and‐neck squamous cell carcinoma
lokal Gene expression
lokal Graphical models
lokal Human papilloma‐virus
1000 Fächerklassifikation (DDC)
1000 Liste der Beteiligten
  1. https://orcid.org/0000-0003-2216-6653|https://frl.publisso.de/adhoc/uri/RnJpZW1lbCwgSnVsaWFuZQ==|https://orcid.org/0000-0001-6347-7154|https://frl.publisso.de/adhoc/uri/QmVocmVucywgVGhvbWFz|https://frl.publisso.de/adhoc/uri/QnVsbGVyZGllaywgSsO2cm4=|https://frl.publisso.de/adhoc/uri/TmltenlrLCBSb2xm|https://orcid.org/0000-0003-3777-570X|https://orcid.org/0000-0001-8587-7706
1000 Label
1000 Förderer
  1. Project DEAL |
  2. FP7 Health |
1000 Fördernummer
  1. -
  2. 2011‐282562
1000 Förderprogramm
  1. Open Access Funding
  2. HPV‐AHEAD
1000 Dateien
  1. Causal discovery of gene regulation with incomplete data
1000 Förderung
  1. 1000 joinedFunding-child
    1000 Förderer Project DEAL |
    1000 Förderprogramm Open Access Funding
    1000 Fördernummer -
  2. 1000 joinedFunding-child
    1000 Förderer FP7 Health |
    1000 Förderprogramm HPV‐AHEAD
    1000 Fördernummer 2011‐282562
1000 Objektart article
1000 Beschrieben durch
1000 @id frl:6424672.rdf
1000 Erstellt am 2020-12-09T12:32:22.722+0100
1000 Erstellt von 266
1000 beschreibt frl:6424672
1000 Bearbeitet von 122
1000 Zuletzt bearbeitet Fri Dec 18 15:16:43 CET 2020
1000 Objekt bearb. Fri Dec 18 15:13:33 CET 2020
1000 Vgl. frl:6424672
1000 Oai Id
  1. oai:frl.publisso.de:frl:6424672 |
1000 Sichtbarkeit Metadaten public
1000 Sichtbarkeit Daten public
1000 Gegenstand von

View source