skip to content
The role of canalization in the spreading of perturbations in Boolean networks Preview this item
ClosePreview this item
Checking...

The role of canalization in the spreading of perturbations in Boolean networks

Author: Santosh Venkatiah Sudharshan Manicka; Indiana University, Bloomington. School of Informatics and Computing.; Indiana University, Bloomington,
Publisher: [Bloomington, Indiana] : Indiana University ; Ann Arbor, MI : ProQuest, UMI Dissertations Publishing, 2017.
Dissertation: Ph. D. Indiana University 2017
Edition/Format:   Thesis/dissertation : Document : Thesis/dissertation : eBook   Computer File : English
Publication:Dissertation Abstracts International, 78-10B(E)
Summary:
Canalization is a property of Boolean automata that characterizes the extent to which subsets of inputs determine (canalize) the output. Here, we investigate the role of canalization as a characteristic of perturbation-spreading in random Boolean networks (BN) with homogeneous connectivity via numerical simulations. We consider two different measures of canalization introduced by Marques-Pita and Rocha, namely  Read more...
Rating:

(not yet rated) 0 with reviews - Be the first.

Subjects
More like this

Find a copy online

Find a copy in the library

&AllPage.SpinnerRetrieving; Finding libraries that hold this item...

Details

Genre/Form: Academic theses
Material Type: Document, Thesis/dissertation, Internet resource
Document Type: Internet Resource, Computer File
All Authors / Contributors: Santosh Venkatiah Sudharshan Manicka; Indiana University, Bloomington. School of Informatics and Computing.; Indiana University, Bloomington,
ISBN: 9781369768244 1369768249
OCLC Number: 1029055569
Notes: "School of Informatics and Computing, Indiana University."
Source: Dissertation Abstracts International, Volume: 78-10(E), Section: B.
Advisor: Luis M. Rocha.
Description: 1 online resource (x, 209 pages) : illustrations, charts
Responsibility: Santosh Venkatiah Sudharshan Manicka.

Abstract:

Canalization is a property of Boolean automata that characterizes the extent to which subsets of inputs determine (canalize) the output. Here, we investigate the role of canalization as a characteristic of perturbation-spreading in random Boolean networks (BN) with homogeneous connectivity via numerical simulations. We consider two different measures of canalization introduced by Marques-Pita and Rocha, namely `effective connectivity' and `input symmetry', in a three-pronged approach. First, we show that the mean `effective connectivity', a measure of the true mean in-degree of a BN, is a better predictor of the dynamical regime (order or chaos) of the BN than the mean in-degree. Next, we combine effective connectivity and input symmetry in a single measure of `unified canalization' by using a common yardstick of Boolean hypercube ``dimension", a form of fractal dimension. We show that the unified measure is a better predictor of dynamical regime than effective connectivity alone for BNs with large in-degrees. When considered separately, the relative contributions of the two components of the unified measure changes systematically with the mean in-degree, where input symmetry becomes increasingly more dominant with larger in-degrees. As an application, we show that the said measures of canalization characterize the dynamical regimes of a suite of Systems biology models better than the in-degree. Finally, we introduce `integrated effective connectivity' as an extension of effective connectivity that characterizes the canalization present in BNs with arbitrary timescales obtained by iteratively composing a BN with itself. We show that the integrated measure is a better predictor of long-term dynamical regime than just effective connectivity for a small class of BNs known as the elementary cellular automata. This dissertation will advance theoretical understanding of BNs, allowing us to more accurately predict their short-term and long-term dynamic character, based on canalization. As BNs are generic models of complex systems, combining interaction graphs with multivariate dynamics, these results contribute to the complex networks and systems field. Moreover, as BNs are important models of choice in Systems biology, our methods contribute to the burgeoning toolkit of the field.

Reviews

User-contributed reviews
Retrieving GoodReads reviews...
Retrieving DOGObooks reviews...

Tags

Be the first.
Confirm this request

You may have already requested this item. Please select Ok if you would like to proceed with this request anyway.

Linked Data


Primary Entity

<http://www.worldcat.org/oclc/1029055569> # The role of canalization in the spreading of perturbations in Boolean networks
    a schema:MediaObject, bgn:Thesis, schema:Book, pto:Web_document, schema:CreativeWork ;
    bgn:inSupportOf "" ;
    library:oclcnum "1029055569" ;
    library:placeOfPublication <http://id.loc.gov/vocabulary/countries/inu> ;
    schema:about <http://experiment.worldcat.org/entity/work/data/4836982906#Topic/information_science> ; # Information science
    schema:about <http://experiment.worldcat.org/entity/work/data/4836982906#Topic/perturbation_quantum_dynamics> ; # Perturbation (Quantum dynamics)
    schema:about <http://experiment.worldcat.org/entity/work/data/4836982906#Topic/system_theory> ; # System theory
    schema:about <http://experiment.worldcat.org/entity/work/data/4836982906#Topic/dynamics> ; # Dynamics
    schema:about <http://experiment.worldcat.org/entity/work/data/4836982906#Topic/systems_biology> ; # Systems biology
    schema:about <http://experiment.worldcat.org/entity/work/data/4836982906#Topic/computer_science> ; # Computer science
    schema:about <http://experiment.worldcat.org/entity/work/data/4836982906#Topic/algebra_boolean> ; # Algebra, Boolean
    schema:author <http://experiment.worldcat.org/entity/work/data/4836982906#Person/manicka_santosh_venkatiah_sudharshan> ; # Santosh Venkatiah Sudharshan Manicka
    schema:contributor <http://experiment.worldcat.org/entity/work/data/4836982906#Organization/indiana_university_bloomington> ; # Indiana University, Bloomington,
    schema:contributor <http://experiment.worldcat.org/entity/work/data/4836982906#Organization/indiana_university_bloomington_school_of_informatics_and_computing> ; # Indiana University, Bloomington. School of Informatics and Computing.
    schema:datePublished "2017" ;
    schema:description "Canalization is a property of Boolean automata that characterizes the extent to which subsets of inputs determine (canalize) the output. Here, we investigate the role of canalization as a characteristic of perturbation-spreading in random Boolean networks (BN) with homogeneous connectivity via numerical simulations. We consider two different measures of canalization introduced by Marques-Pita and Rocha, namely `effective connectivity' and `input symmetry', in a three-pronged approach. First, we show that the mean `effective connectivity', a measure of the true mean in-degree of a BN, is a better predictor of the dynamical regime (order or chaos) of the BN than the mean in-degree. Next, we combine effective connectivity and input symmetry in a single measure of `unified canalization' by using a common yardstick of Boolean hypercube ``dimension", a form of fractal dimension. We show that the unified measure is a better predictor of dynamical regime than effective connectivity alone for BNs with large in-degrees. When considered separately, the relative contributions of the two components of the unified measure changes systematically with the mean in-degree, where input symmetry becomes increasingly more dominant with larger in-degrees. As an application, we show that the said measures of canalization characterize the dynamical regimes of a suite of Systems biology models better than the in-degree. Finally, we introduce `integrated effective connectivity' as an extension of effective connectivity that characterizes the canalization present in BNs with arbitrary timescales obtained by iteratively composing a BN with itself. We show that the integrated measure is a better predictor of long-term dynamical regime than just effective connectivity for a small class of BNs known as the elementary cellular automata. This dissertation will advance theoretical understanding of BNs, allowing us to more accurately predict their short-term and long-term dynamic character, based on canalization. As BNs are generic models of complex systems, combining interaction graphs with multivariate dynamics, these results contribute to the complex networks and systems field. Moreover, as BNs are important models of choice in Systems biology, our methods contribute to the burgeoning toolkit of the field."@en ;
    schema:exampleOfWork <http://worldcat.org/entity/work/id/4836982906> ;
    schema:genre "Academic theses"@en ;
    schema:inLanguage "en" ;
    schema:name "The role of canalization in the spreading of perturbations in Boolean networks"@en ;
    schema:productID "1029055569" ;
    schema:url <http://hdl.handle.net/2022/21446> ;
    schema:url <http://gateway.proquest.com/openurl?url_ver=Z39.88-2004&rft_val_fmt=info:ofi/fmt:kev:mtx:dissertation&res_dat=xri:pqm&rft_dat=xri:pqdiss:10277023> ;
    schema:workExample <http://worldcat.org/isbn/9781369768244> ;
    wdrs:describedby <http://www.worldcat.org/title/-/oclc/1029055569> ;
    .


Related Entities

<http://experiment.worldcat.org/entity/work/data/4836982906#Organization/indiana_university_bloomington> # Indiana University, Bloomington,
    a schema:Organization ;
    schema:name "Indiana University, Bloomington," ;
    .

<http://experiment.worldcat.org/entity/work/data/4836982906#Organization/indiana_university_bloomington_school_of_informatics_and_computing> # Indiana University, Bloomington. School of Informatics and Computing.
    a schema:Organization ;
    schema:name "Indiana University, Bloomington. School of Informatics and Computing." ;
    .

<http://experiment.worldcat.org/entity/work/data/4836982906#Person/manicka_santosh_venkatiah_sudharshan> # Santosh Venkatiah Sudharshan Manicka
    a schema:Person ;
    schema:familyName "Manicka" ;
    schema:givenName "Santosh Venkatiah Sudharshan" ;
    schema:name "Santosh Venkatiah Sudharshan Manicka" ;
    .

<http://experiment.worldcat.org/entity/work/data/4836982906#Topic/information_science> # Information science
    a schema:Intangible ;
    schema:name "Information science"@en ;
    .

<http://experiment.worldcat.org/entity/work/data/4836982906#Topic/perturbation_quantum_dynamics> # Perturbation (Quantum dynamics)
    a schema:Intangible ;
    schema:name "Perturbation (Quantum dynamics)"@en ;
    .

<http://worldcat.org/isbn/9781369768244>
    a schema:ProductModel ;
    schema:isbn "1369768249" ;
    schema:isbn "9781369768244" ;
    .

<http://www.worldcat.org/title/-/oclc/1029055569>
    a genont:InformationResource, genont:ContentTypeGenericResource ;
    schema:about <http://www.worldcat.org/oclc/1029055569> ; # The role of canalization in the spreading of perturbations in Boolean networks
    schema:dateModified "2019-04-29" ;
    void:inDataset <http://purl.oclc.org/dataset/WorldCat> ;
    .


Content-negotiable representations

Close Window

Please sign in to WorldCat 

Don't have an account? You can easily create a free account.