Fluctuations in network dynamics: SMAR1 can trigger apoptosis Article Swipe

PDF

Md. Zubbair Malik , Md. Jahoor Alam , Romana Ishrat , Subhash Mohan Agarwal , R. K. Brojen Singh ·

YOU? · · 2015 · Open Access · · DOI: https://doi.org/10.48550/arxiv.1510.02718

SMAR1 is a sensitive signaling molecule in p53 regulatory network which can drive p53 network dynamics to three distinct states, namely, stabilized (two), damped and sustain oscillation states. In the interaction of p53 network with SMAR1, p53 network sees SMAR1 as a sub-network with its new complexes formed by SMAR1, where SMAR1 is the central node, and fluctuations in SMAR1 concentration is propagated as a stress signal throughout the network. Excess stress induced by SMAR1 can drive p53 network dynamics to amplitude death scenario which corresponds to apoptotic state. The permutation entropy calculated for normal state is minimum indicating self-organized behavior, whereas for apoptotic state, the value is maximum showing breakdown of self-organization. We also show that the regulation of SMAR1 togather with other signaling molecules p300 and HDAC1 in the p53 regulatory network can be engineered to extend the range of stress such that the system can be save from apoptosis.

Related Topics

Physics

Concepts

Physics

Metadata

Type: preprint
Language: en
Landing Page: http://arxiv.org/abs/1510.02718
PDF: https://arxiv.org/pdf/1510.02718
OA Status: green
References: 9
Related Works: 1
OpenAlex ID: https://openalex.org/W2336445310

All OpenAlex metadata

Raw OpenAlex JSON

OpenAlex ID: https://openalex.org/W2336445310

Canonical identifier for this work in OpenAlex
DOI: https://doi.org/10.48550/arxiv.1510.02718

Digital Object Identifier
Title: Fluctuations in network dynamics: SMAR1 can trigger apoptosis

Work title
Type: preprint

OpenAlex work type
Language: en

Primary language
Publication year: 2015

Year of publication
Publication date: 2015-10-09

Full publication date if available
Authors: Md. Zubbair Malik, Md. Jahoor Alam, Romana Ishrat, Subhash Mohan Agarwal, R. K. Brojen Singh

List of authors in order
Landing page: https://arxiv.org/abs/1510.02718

Publisher landing page
PDF URL: https://arxiv.org/pdf/1510.02718

Direct link to full text PDF
Open access: Yes

Whether a free full text is available
OA status: green

Open access status per OpenAlex
OA URL: https://arxiv.org/pdf/1510.02718

Direct OA link when available
Concepts: Physics

Top concepts (fields/topics) attached by OpenAlex
Cited by: 0

Total citation count in OpenAlex
References (count): 9

Number of works referenced by this work
Related works (count): 1

Other works algorithmically related by OpenAlex

Full payload

id	https://openalex.org/W2336445310
doi	https://doi.org/10.48550/arxiv.1510.02718
ids.doi	https://doi.org/10.48550/arxiv.1510.02718
ids.mag	2336445310
ids.openalex	https://openalex.org/W2336445310
fwci
type	preprint
title	Fluctuations in network dynamics: SMAR1 can trigger apoptosis
biblio.issue
biblio.volume
biblio.last_page
biblio.first_page
topics[0].id	https://openalex.org/T10887
topics[0].field.id	https://openalex.org/fields/13
topics[0].field.display_name	Biochemistry, Genetics and Molecular Biology
topics[0].score	0.9930999875068665
topics[0].domain.id	https://openalex.org/domains/1
topics[0].domain.display_name	Life Sciences
topics[0].subfield.id	https://openalex.org/subfields/1312
topics[0].subfield.display_name	Molecular Biology
topics[0].display_name	Bioinformatics and Genomic Networks
topics[1].id	https://openalex.org/T10044
topics[1].field.id	https://openalex.org/fields/13
topics[1].field.display_name	Biochemistry, Genetics and Molecular Biology
topics[1].score	0.9929999709129333
topics[1].domain.id	https://openalex.org/domains/1
topics[1].domain.display_name	Life Sciences
topics[1].subfield.id	https://openalex.org/subfields/1312
topics[1].subfield.display_name	Molecular Biology
topics[1].display_name	Protein Structure and Dynamics
topics[2].id	https://openalex.org/T10621
topics[2].field.id	https://openalex.org/fields/13
topics[2].field.display_name	Biochemistry, Genetics and Molecular Biology
topics[2].score	0.9830999970436096
topics[2].domain.id	https://openalex.org/domains/1
topics[2].domain.display_name	Life Sciences
topics[2].subfield.id	https://openalex.org/subfields/1312
topics[2].subfield.display_name	Molecular Biology
topics[2].display_name	Gene Regulatory Network Analysis
is_xpac	False
apc_list
apc_paid
concepts[0].id	https://openalex.org/C121332964
concepts[0].level	0
concepts[0].score	0.5512328743934631
concepts[0].wikidata	https://www.wikidata.org/wiki/Q413
concepts[0].display_name	Physics
keywords[0].id	https://openalex.org/keywords/physics
keywords[0].score	0.5512328743934631
keywords[0].display_name	Physics
language	en
locations[0].id	pmh:oai:arXiv.org:1510.02718
locations[0].is_oa	True
locations[0].source.id	https://openalex.org/S4306400194
locations[0].source.issn
locations[0].source.type	repository
locations[0].source.is_oa	True
locations[0].source.issn_l
locations[0].source.is_core	False
locations[0].source.is_in_doaj	False
locations[0].source.display_name	arXiv (Cornell University)
locations[0].source.host_organization	https://openalex.org/I205783295
locations[0].source.host_organization_name	Cornell University
locations[0].source.host_organization_lineage	https://openalex.org/I205783295
locations[0].license
locations[0].pdf_url	https://arxiv.org/pdf/1510.02718
locations[0].version	submittedVersion
locations[0].raw_type	text
locations[0].license_id
locations[0].is_accepted	False
locations[0].is_published	False
locations[0].raw_source_name
locations[0].landing_page_url	http://arxiv.org/abs/1510.02718
locations[1].id	mag:2336445310
locations[1].is_oa	True
locations[1].source.id	https://openalex.org/S4306400194
locations[1].source.issn
locations[1].source.type	repository
locations[1].source.is_oa	True
locations[1].source.issn_l
locations[1].source.is_core	False
locations[1].source.is_in_doaj	False
locations[1].source.display_name	arXiv (Cornell University)
locations[1].source.host_organization	https://openalex.org/I205783295
locations[1].source.host_organization_name	Cornell University
locations[1].source.host_organization_lineage	https://openalex.org/I205783295
locations[1].license
locations[1].pdf_url
locations[1].version	submittedVersion
locations[1].raw_type
locations[1].license_id
locations[1].is_accepted	False
locations[1].is_published	False
locations[1].raw_source_name	arXiv (Cornell University)
locations[1].landing_page_url	https://arxiv.org/pdf/1510.02718.pdf
locations[2].id	doi:10.48550/arxiv.1510.02718
locations[2].is_oa	True
locations[2].source.id	https://openalex.org/S4306400194
locations[2].source.issn
locations[2].source.type	repository
locations[2].source.is_oa	True
locations[2].source.issn_l
locations[2].source.is_core	False
locations[2].source.is_in_doaj	False
locations[2].source.display_name	arXiv (Cornell University)
locations[2].source.host_organization	https://openalex.org/I205783295
locations[2].source.host_organization_name	Cornell University
locations[2].source.host_organization_lineage	https://openalex.org/I205783295
locations[2].license
locations[2].pdf_url
locations[2].version
locations[2].raw_type	article
locations[2].license_id
locations[2].is_accepted	False
locations[2].is_published
locations[2].raw_source_name
locations[2].landing_page_url	https://doi.org/10.48550/arxiv.1510.02718
indexed_in	arxiv, datacite
authorships[0].author.id	https://openalex.org/A5078315190
authorships[0].author.orcid	https://orcid.org/0000-0001-6693-0401
authorships[0].author.display_name	Md. Zubbair Malik
authorships[0].author_position	first
authorships[0].raw_author_name	Md. Zubbair Malik
authorships[0].is_corresponding	False
authorships[1].author.id	https://openalex.org/A5043112650
authorships[1].author.orcid	https://orcid.org/0000-0003-0144-6517
authorships[1].author.display_name	Md. Jahoor Alam
authorships[1].author_position	middle
authorships[1].raw_author_name	Md. Jahoor Alam
authorships[1].is_corresponding	False
authorships[2].author.id	https://openalex.org/A5027913973
authorships[2].author.orcid	https://orcid.org/0000-0001-9744-9047
authorships[2].author.display_name	Romana Ishrat
authorships[2].author_position	middle
authorships[2].raw_author_name	Romana Ishrat
authorships[2].is_corresponding	False
authorships[3].author.id	https://openalex.org/A5005944554
authorships[3].author.orcid	https://orcid.org/0000-0001-6685-789X
authorships[3].author.display_name	Subhash Mohan Agarwal
authorships[3].author_position	middle
authorships[3].raw_author_name	Subhash M. Agarwal
authorships[3].is_corresponding	False
authorships[4].author.id	https://openalex.org/A5026145538
authorships[4].author.orcid	https://orcid.org/0000-0001-6856-5655
authorships[4].author.display_name	R. K. Brojen Singh
authorships[4].author_position	last
authorships[4].raw_author_name	R.K. Brojen Singh
authorships[4].is_corresponding	False
has_content.pdf	False
has_content.grobid_xml	False
is_paratext	False
open_access.is_oa	True
open_access.oa_url	https://arxiv.org/pdf/1510.02718
open_access.oa_status	green
open_access.any_repository_has_fulltext	False
created_date	2025-10-10T00:00:00
display_name	Fluctuations in network dynamics: SMAR1 can trigger apoptosis
has_fulltext	False
is_retracted	False
updated_date	2025-11-06T06:51:31.235846
primary_topic.id	https://openalex.org/T10887
primary_topic.field.id	https://openalex.org/fields/13
primary_topic.field.display_name	Biochemistry, Genetics and Molecular Biology
primary_topic.score	0.9930999875068665
primary_topic.domain.id	https://openalex.org/domains/1
primary_topic.domain.display_name	Life Sciences
primary_topic.subfield.id	https://openalex.org/subfields/1312
primary_topic.subfield.display_name	Molecular Biology
primary_topic.display_name	Bioinformatics and Genomic Networks
related_works	https://openalex.org/W2950867010
cited_by_count	0
locations_count	3
best_oa_location.id	pmh:oai:arXiv.org:1510.02718
best_oa_location.is_oa	True
best_oa_location.source.id	https://openalex.org/S4306400194
best_oa_location.source.issn
best_oa_location.source.type	repository
best_oa_location.source.is_oa	True
best_oa_location.source.issn_l
best_oa_location.source.is_core	False
best_oa_location.source.is_in_doaj	False
best_oa_location.source.display_name	arXiv (Cornell University)
best_oa_location.source.host_organization	https://openalex.org/I205783295
best_oa_location.source.host_organization_name	Cornell University
best_oa_location.source.host_organization_lineage	https://openalex.org/I205783295
best_oa_location.license
best_oa_location.pdf_url	https://arxiv.org/pdf/1510.02718
best_oa_location.version	submittedVersion
best_oa_location.raw_type	text
best_oa_location.license_id
best_oa_location.is_accepted	False
best_oa_location.is_published	False
best_oa_location.raw_source_name
best_oa_location.landing_page_url	http://arxiv.org/abs/1510.02718
primary_location.id	pmh:oai:arXiv.org:1510.02718
primary_location.is_oa	True
primary_location.source.id	https://openalex.org/S4306400194
primary_location.source.issn
primary_location.source.type	repository
primary_location.source.is_oa	True
primary_location.source.issn_l
primary_location.source.is_core	False
primary_location.source.is_in_doaj	False
primary_location.source.display_name	arXiv (Cornell University)
primary_location.source.host_organization	https://openalex.org/I205783295
primary_location.source.host_organization_name	Cornell University
primary_location.source.host_organization_lineage	https://openalex.org/I205783295
primary_location.license
primary_location.pdf_url	https://arxiv.org/pdf/1510.02718
primary_location.version	submittedVersion
primary_location.raw_type	text
primary_location.license_id
primary_location.is_accepted	False
primary_location.is_published	False
primary_location.raw_source_name
primary_location.landing_page_url	http://arxiv.org/abs/1510.02718
publication_date	2015-10-09
publication_year	2015
referenced_works	https://openalex.org/W2075835338, https://openalex.org/W2091041925, https://openalex.org/W2088058499, https://openalex.org/W2042704778, https://openalex.org/W2014683958, https://openalex.org/W2184915239, https://openalex.org/W2041815640, https://openalex.org/W2165179185, https://openalex.org/W2137124052
referenced_works_count	9
abstract_inverted_index.a	2, 41, 64
abstract_inverted_index.In	28
abstract_inverted_index.We	113
abstract_inverted_index.as	40, 63
abstract_inverted_index.be	135, 148
abstract_inverted_index.by	48, 73
abstract_inverted_index.in	6, 58, 129
abstract_inverted_index.is	1, 52, 61, 96, 107
abstract_inverted_index.of	31, 111, 119, 141
abstract_inverted_index.to	16, 80, 86, 137
abstract_inverted_index.The	89
abstract_inverted_index.and	24, 56, 127
abstract_inverted_index.can	11, 75, 134, 147
abstract_inverted_index.for	93, 102
abstract_inverted_index.its	44
abstract_inverted_index.new	45
abstract_inverted_index.p53	7, 13, 32, 36, 77, 131
abstract_inverted_index.the	29, 53, 68, 105, 117, 130, 139, 145
abstract_inverted_index.also	114
abstract_inverted_index.from	150
abstract_inverted_index.p300	126
abstract_inverted_index.save	149
abstract_inverted_index.sees	38
abstract_inverted_index.show	115
abstract_inverted_index.such	143
abstract_inverted_index.that	116, 144
abstract_inverted_index.with	34, 43, 122
abstract_inverted_index.HDAC1	128
abstract_inverted_index.SMAR1	0, 39, 51, 59, 74, 120
abstract_inverted_index.death	82
abstract_inverted_index.drive	12, 76
abstract_inverted_index.node,	55
abstract_inverted_index.other	123
abstract_inverted_index.range	140
abstract_inverted_index.state	95
abstract_inverted_index.three	17
abstract_inverted_index.value	106
abstract_inverted_index.where	50
abstract_inverted_index.which	10, 84
abstract_inverted_index.(two),	22
abstract_inverted_index.Excess	70
abstract_inverted_index.SMAR1,	35, 49
abstract_inverted_index.damped	23
abstract_inverted_index.extend	138
abstract_inverted_index.formed	47
abstract_inverted_index.normal	94
abstract_inverted_index.signal	66
abstract_inverted_index.state,	104
abstract_inverted_index.state.	88
abstract_inverted_index.stress	65, 71, 142
abstract_inverted_index.system	146
abstract_inverted_index.central	54
abstract_inverted_index.entropy	91
abstract_inverted_index.induced	72
abstract_inverted_index.maximum	108
abstract_inverted_index.minimum	97
abstract_inverted_index.namely,	20
abstract_inverted_index.network	9, 14, 33, 37, 78, 133
abstract_inverted_index.showing	109
abstract_inverted_index.states,	19
abstract_inverted_index.states.	27
abstract_inverted_index.sustain	25
abstract_inverted_index.whereas	101
abstract_inverted_index.distinct	18
abstract_inverted_index.dynamics	15, 79
abstract_inverted_index.molecule	5
abstract_inverted_index.network.	69
abstract_inverted_index.scenario	83
abstract_inverted_index.togather	121
abstract_inverted_index.amplitude	81
abstract_inverted_index.apoptotic	87, 103
abstract_inverted_index.behavior,	100
abstract_inverted_index.breakdown	110
abstract_inverted_index.complexes	46
abstract_inverted_index.molecules	125
abstract_inverted_index.sensitive	3
abstract_inverted_index.signaling	4, 124
abstract_inverted_index.apoptosis.	151
abstract_inverted_index.calculated	92
abstract_inverted_index.engineered	136
abstract_inverted_index.indicating	98
abstract_inverted_index.propagated	62
abstract_inverted_index.regulation	118
abstract_inverted_index.regulatory	8, 132
abstract_inverted_index.stabilized	21
abstract_inverted_index.throughout	67
abstract_inverted_index.corresponds	85
abstract_inverted_index.interaction	30
abstract_inverted_index.oscillation	26
abstract_inverted_index.permutation	90
abstract_inverted_index.sub-network	42
abstract_inverted_index.fluctuations	57
abstract_inverted_index.concentration	60
abstract_inverted_index.self-organized	99
abstract_inverted_index.self-organization.	112
cited_by_percentile_year
countries_distinct_count	0
institutions_distinct_count	5
sustainable_development_goals[0].id	https://metadata.un.org/sdg/12
sustainable_development_goals[0].score	0.4099999964237213
sustainable_development_goals[0].display_name	Responsible consumption and production
citation_normalized_percentile