---
_id: '1077'
abstract:
- lang: eng
text: Viral capsids are structurally constrained by interactions among the amino
acids (AAs) of their constituent proteins. Therefore, epistasis is expected to
evolve among physically interacting sites and to influence the rates of substitution.
To study the evolution of epistasis, we focused on the major structural protein
of the fX174 phage family by first reconstructing the ancestral protein sequences
of 18 species using a Bayesian statistical framework. The inferred ancestral reconstruction
differed at eight AAs, for a total of 256 possible ancestral haplotypes. For each
ancestral haplotype and the extant species, we estimated, in silico, the distribution
of free energies and epistasis of the capsid structure. We found that free energy
has not significantly increased but epistasis has. We decomposed epistasis up
to fifth order and found that higher-order epistasis sometimes compensates pairwise
interactions making the free energy seem additive. The dN/dS ratio is low, suggesting
strong purifying selection, and that structure is under stabilizing selection.
We synthesized phages carrying ancestral haplotypes of the coat protein gene and
measured their fitness experimentally. Our findings indicate that stabilizing
mutations can have higher fitness, and that fitness optima do not necessarily
coincide with energy minima.
article_number: '20160139'
article_processing_charge: Yes (in subscription journal)
author:
- first_name: Rodrigo A
full_name: Fernandes Redondo, Rodrigo A
id: 409D5C96-F248-11E8-B48F-1D18A9856A87
last_name: Fernandes Redondo
orcid: 0000-0002-5837-2793
- first_name: Harold
full_name: Vladar, Harold
id: 2A181218-F248-11E8-B48F-1D18A9856A87
last_name: Vladar
orcid: 0000-0002-5985-7653
- first_name: Tomasz
full_name: Włodarski, Tomasz
last_name: Włodarski
- first_name: Jonathan P
full_name: Bollback, Jonathan P
id: 2C6FA9CC-F248-11E8-B48F-1D18A9856A87
last_name: Bollback
orcid: 0000-0002-4624-4612
citation:
ama: Fernandes Redondo RA, de Vladar H, Włodarski T, Bollback JP. Evolutionary interplay
between structure, energy and epistasis in the coat protein of the ϕX174 phage
family. Journal of the Royal Society Interface. 2017;14(126). doi:10.1098/rsif.2016.0139
apa: Fernandes Redondo, R. A., de Vladar, H., Włodarski, T., & Bollback, J.
P. (2017). Evolutionary interplay between structure, energy and epistasis in the
coat protein of the ϕX174 phage family. Journal of the Royal Society Interface.
Royal Society of London. https://doi.org/10.1098/rsif.2016.0139
chicago: Fernandes Redondo, Rodrigo A, Harold de Vladar, Tomasz Włodarski, and Jonathan
P Bollback. “Evolutionary Interplay between Structure, Energy and Epistasis in
the Coat Protein of the ΦX174 Phage Family.” Journal of the Royal Society Interface.
Royal Society of London, 2017. https://doi.org/10.1098/rsif.2016.0139.
ieee: R. A. Fernandes Redondo, H. de Vladar, T. Włodarski, and J. P. Bollback, “Evolutionary
interplay between structure, energy and epistasis in the coat protein of the ϕX174
phage family,” Journal of the Royal Society Interface, vol. 14, no. 126.
Royal Society of London, 2017.
ista: Fernandes Redondo RA, de Vladar H, Włodarski T, Bollback JP. 2017. Evolutionary
interplay between structure, energy and epistasis in the coat protein of the ϕX174
phage family. Journal of the Royal Society Interface. 14(126), 20160139.
mla: Fernandes Redondo, Rodrigo A., et al. “Evolutionary Interplay between Structure,
Energy and Epistasis in the Coat Protein of the ΦX174 Phage Family.” Journal
of the Royal Society Interface, vol. 14, no. 126, 20160139, Royal Society
of London, 2017, doi:10.1098/rsif.2016.0139.
short: R.A. Fernandes Redondo, H. de Vladar, T. Włodarski, J.P. Bollback, Journal
of the Royal Society Interface 14 (2017).
date_created: 2018-12-11T11:50:01Z
date_published: 2017-01-04T00:00:00Z
date_updated: 2025-05-28T11:42:51Z
day: '04'
ddc:
- '570'
department:
- _id: NiBa
- _id: JoBo
doi: 10.1098/rsif.2016.0139
ec_funded: 1
external_id:
isi:
- '000393380400001'
file:
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content_type: application/pdf
creator: dernst
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date_updated: 2019-01-18T09:14:02Z
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file_name: 2017_JRSI_Redondo.pdf
file_size: 1092015
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file_date_updated: 2019-01-18T09:14:02Z
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intvolume: ' 14'
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issue: '126'
language:
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month: '01'
oa: 1
oa_version: Published Version
project:
- _id: 25B07788-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '250152'
name: Limits to selection in biology and in evolutionary computation
- _id: 2578D616-B435-11E9-9278-68D0E5697425
call_identifier: H2020
grant_number: '648440'
name: Selective Barriers to Horizontal Gene Transfer
publication: Journal of the Royal Society Interface
publication_identifier:
issn:
- '17425689'
publication_status: published
publisher: Royal Society of London
publist_id: '6303'
quality_controlled: '1'
related_material:
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relation: research_data
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scopus_import: '1'
status: public
title: Evolutionary interplay between structure, energy and epistasis in the coat
protein of the ϕX174 phage family
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: c635000d-4b10-11ee-a964-aac5a93f6ac1
volume: 14
year: '2017'
...
---
_id: '9864'
abstract:
- lang: eng
text: Viral capsids are structurally constrained by interactions among the amino
acids (AAs) of their constituent proteins. Therefore, epistasis is expected to
evolve among physically interacting sites and to influence the rates of substitution.
To study the evolution of epistasis, we focused on the major structural protein
of the ϕX174 phage family by, first, reconstructing the ancestral protein sequences
of 18 species using a Bayesian statistical framework. The inferred ancestral reconstruction
differed at eight AAs, for a total of 256 possible ancestral haplotypes. For each
ancestral haplotype and the extant species, we estimated, in silico, the distribution
of free energies and epistasis of the capsid structure. We found that free energy
has not significantly increased but epistasis has. We decomposed epistasis up
to fifth order and found that higher-order epistasis sometimes compensates pairwise
interactions making the free energy seem additive. The dN/dS ratio is low, suggesting
strong purifying selection, and that structure is under stabilizing selection.
We synthesized phages carrying ancestral haplotypes of the coat protein gene and
measured their fitness experimentally. Our findings indicate that stabilizing
mutations can have higher fitness, and that fitness optima do not necessarily
coincide with energy minima.
article_processing_charge: No
author:
- first_name: Rodrigo A
full_name: Fernandes Redondo, Rodrigo A
id: 409D5C96-F248-11E8-B48F-1D18A9856A87
last_name: Fernandes Redondo
orcid: 0000-0002-5837-2793
- first_name: Harold
full_name: de Vladar, Harold
id: 2A181218-F248-11E8-B48F-1D18A9856A87
last_name: de Vladar
orcid: 0000-0002-5985-7653
- first_name: Tomasz
full_name: Włodarski, Tomasz
last_name: Włodarski
- first_name: Jonathan P
full_name: Bollback, Jonathan P
id: 2C6FA9CC-F248-11E8-B48F-1D18A9856A87
last_name: Bollback
orcid: 0000-0002-4624-4612
citation:
ama: Fernandes Redondo RA, de Vladar H, Włodarski T, Bollback JP. Data from evolutionary
interplay between structure, energy and epistasis in the coat protein of the ϕX174
phage family. 2016. doi:10.6084/m9.figshare.4315652.v1
apa: Fernandes Redondo, R. A., de Vladar, H., Włodarski, T., & Bollback, J.
P. (2016). Data from evolutionary interplay between structure, energy and epistasis
in the coat protein of the ϕX174 phage family. The Royal Society. https://doi.org/10.6084/m9.figshare.4315652.v1
chicago: Fernandes Redondo, Rodrigo A, Harold de Vladar, Tomasz Włodarski, and Jonathan
P Bollback. “Data from Evolutionary Interplay between Structure, Energy and Epistasis
in the Coat Protein of the ΦX174 Phage Family.” The Royal Society, 2016. https://doi.org/10.6084/m9.figshare.4315652.v1.
ieee: R. A. Fernandes Redondo, H. de Vladar, T. Włodarski, and J. P. Bollback, “Data
from evolutionary interplay between structure, energy and epistasis in the coat
protein of the ϕX174 phage family.” The Royal Society, 2016.
ista: Fernandes Redondo RA, de Vladar H, Włodarski T, Bollback JP. 2016. Data from
evolutionary interplay between structure, energy and epistasis in the coat protein
of the ϕX174 phage family, The Royal Society, 10.6084/m9.figshare.4315652.v1.
mla: Fernandes Redondo, Rodrigo A., et al. Data from Evolutionary Interplay between
Structure, Energy and Epistasis in the Coat Protein of the ΦX174 Phage Family.
The Royal Society, 2016, doi:10.6084/m9.figshare.4315652.v1.
short: R.A. Fernandes Redondo, H. de Vladar, T. Włodarski, J.P. Bollback, (2016).
date_created: 2021-08-10T08:29:47Z
date_published: 2016-12-14T00:00:00Z
date_updated: 2025-05-28T11:57:06Z
day: '14'
department:
- _id: NiBa
- _id: JoBo
doi: 10.6084/m9.figshare.4315652.v1
main_file_link:
- open_access: '1'
url: https://doi.org/10.6084/m9.figshare.4315652.v1
month: '12'
oa: 1
oa_version: Published Version
publisher: The Royal Society
related_material:
record:
- id: '1077'
relation: used_in_publication
status: public
status: public
title: Data from evolutionary interplay between structure, energy and epistasis in
the coat protein of the ϕX174 phage family
type: research_data_reference
user_id: 6785fbc1-c503-11eb-8a32-93094b40e1cf
year: '2016'
...
---
_id: '2917'
abstract:
- lang: eng
text: 'The search for extra-terrestrial intelligence (SETI) has been performed principally
as a one-way survey, listening of radio frequencies across the Milky Way and other
galaxies. However, scientists have engaged in an active messaging only rarely.
This suggests the simple rationale that if other civilizations exist and take
a similar approach to ours, namely listening but not broadcasting, the result
is a silent universe. A simple game theoretical model, the prisoner''s dilemma,
explains this situation: each player (civilization) can passively search (defect),
or actively search and broadcast (cooperate). In order to maximize the payoff
(or, equivalently, minimize the risks) the best strategy is not to broadcast.
In fact, the active search has been opposed on the basis that it might be dangerous
to expose ourselves. However, most of these ideas have not been based on objective
arguments, and ignore accounting of the possible gains and losses. Thus, the question
stands: should we perform an active search? I develop a game-theoretical framework
where civilizations can be of different types, and explicitly apply it to a situation
where societies are either interested in establishing a two-way communication
or belligerent and in urge to exploit ours. The framework gives a quantitative
solution (a mixed-strategy), which is how frequent we should perform the active
SETI. This frequency is roughly proportional to the inverse of the risk, and can
be extremely small. However, given the immense amount of stars being scanned,
it supports active SETI. The model is compared with simulations, and the possible
actions are evaluated through the San Marino scale, measuring the risks of messaging.'
author:
- first_name: Harold
full_name: Vladar, Harold
id: 2A181218-F248-11E8-B48F-1D18A9856A87
last_name: Vladar
orcid: 0000-0002-5985-7653
citation:
ama: de Vladar H. The game of active search for extra terrestrial intelligence Breaking
the Great Silence . International Journal of Astrobiology. 2012;12(1):53-62.
doi:10.1017/S1473550412000407
apa: de Vladar, H. (2012). The game of active search for extra terrestrial intelligence
Breaking the Great Silence . International Journal of Astrobiology. Cambridge
University Press. https://doi.org/10.1017/S1473550412000407
chicago: Vladar, Harold de. “The Game of Active Search for Extra Terrestrial Intelligence
Breaking the Great Silence .” International Journal of Astrobiology. Cambridge
University Press, 2012. https://doi.org/10.1017/S1473550412000407.
ieee: H. de Vladar, “The game of active search for extra terrestrial intelligence
Breaking the Great Silence ,” International Journal of Astrobiology, vol.
12, no. 1. Cambridge University Press, pp. 53–62, 2012.
ista: de Vladar H. 2012. The game of active search for extra terrestrial intelligence
Breaking the Great Silence . International Journal of Astrobiology. 12(1), 53–62.
mla: de Vladar, Harold. “The Game of Active Search for Extra Terrestrial Intelligence
Breaking the Great Silence .” International Journal of Astrobiology, vol.
12, no. 1, Cambridge University Press, 2012, pp. 53–62, doi:10.1017/S1473550412000407.
short: H. de Vladar, International Journal of Astrobiology 12 (2012) 53–62.
date_created: 2018-12-11T12:00:19Z
date_published: 2012-11-06T00:00:00Z
date_updated: 2021-01-12T07:00:41Z
day: '06'
department:
- _id: NiBa
doi: 10.1017/S1473550412000407
intvolume: ' 12'
issue: '1'
language:
- iso: eng
month: '11'
oa_version: None
page: 53 - 62
publication: International Journal of Astrobiology
publication_status: published
publisher: Cambridge University Press
publist_id: '3821'
quality_controlled: '1'
scopus_import: 1
status: public
title: 'The game of active search for extra terrestrial intelligence Breaking the
Great Silence '
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 12
year: '2012'
...
---
_id: '3166'
abstract:
- lang: eng
text: 'There is evidence that the genetic code was established prior to the existence
of proteins, when metabolism was powered by ribozymes. Also, early proto-organisms
had to rely on simple anaerobic bioenergetic processes. In this work I propose
that amino acid fermentation powered metabolism in the RNA world, and that this
was facilitated by proto-adapters, the precursors of the tRNAs. Amino acids were
used as carbon sources rather than as catalytic or structural elements. In modern
bacteria, amino acid fermentation is known as the Stickland reaction. This pathway
involves two amino acids: the first undergoes oxidative deamination, and the second
acts as an electron acceptor through reductive deamination. This redox reaction
results in two keto acids that are employed to synthesise ATP via substrate-level
phosphorylation. The Stickland reaction is the basic bioenergetic pathway of some
bacteria of the genus Clostridium. Two other facts support Stickland fermentation
in the RNA world. First, several Stickland amino acid pairs are synthesised in
abiotic amino acid synthesis. This suggests that amino acids that could be used
as an energy substrate were freely available. Second, anticodons that have complementary
sequences often correspond to amino acids that form Stickland pairs. The main
hypothesis of this paper is that pairs of complementary proto-adapters were assigned
to Stickland amino acids pairs. There are signatures of this hypothesis in the
genetic code. Furthermore, it is argued that the proto-adapters formed double
strands that brought amino acid pairs into proximity to facilitate their mutual
redox reaction, structurally constraining the anticodon pairs that are assigned
to these amino acid pairs. Significance tests which randomise the code are performed
to study the extent of the variability of the energetic (ATP) yield. Random assignments
can lead to a substantial yield of ATP and maintain enough variability, thus selection
can act and refine the assignments into a proto-code that optimises the energetic
yield. Monte Carlo simulations are performed to evaluate the establishment of
these simple proto-codes, based on amino acid substitutions and codon swapping.
In all cases, donor amino acids are assigned to anticodons composed of U+G, and
have low redundancy (1-2 codons), whereas acceptor amino acids are assigned to
the the remaining codons. These bioenergetic and structural constraints allow
for a metabolic role for amino acids before their co-option as catalyst cofactors.
Reviewers: this article was reviewed by Prof. William Martin, Prof. Eors Szathmary
(nominated by Dr. Gaspar Jekely) and Dr. Adam Kun (nominated by Dr. Sandor Pongor)'
acknowledgement: 'The author was supported by the ERC-2009-AdG Grant for project 250152
SELECTIONINFORMATION. '
article_number: '6'
author:
- first_name: Harold
full_name: Vladar, Harold
id: 2A181218-F248-11E8-B48F-1D18A9856A87
last_name: Vladar
orcid: 0000-0002-5985-7653
citation:
ama: de Vladar H. Amino acid fermentation at the origin of the genetic code. Biology
Direct. 2012;7. doi:10.1186/1745-6150-7-6
apa: de Vladar, H. (2012). Amino acid fermentation at the origin of the genetic
code. Biology Direct. BioMed Central. https://doi.org/10.1186/1745-6150-7-6
chicago: Vladar, Harold de. “Amino Acid Fermentation at the Origin of the Genetic
Code.” Biology Direct. BioMed Central, 2012. https://doi.org/10.1186/1745-6150-7-6.
ieee: H. de Vladar, “Amino acid fermentation at the origin of the genetic code,”
Biology Direct, vol. 7. BioMed Central, 2012.
ista: de Vladar H. 2012. Amino acid fermentation at the origin of the genetic code.
Biology Direct. 7, 6.
mla: de Vladar, Harold. “Amino Acid Fermentation at the Origin of the Genetic Code.”
Biology Direct, vol. 7, 6, BioMed Central, 2012, doi:10.1186/1745-6150-7-6.
short: H. de Vladar, Biology Direct 7 (2012).
date_created: 2018-12-11T12:01:46Z
date_published: 2012-02-10T00:00:00Z
date_updated: 2021-01-12T07:41:31Z
day: '10'
ddc:
- '570'
- '576'
department:
- _id: NiBa
doi: 10.1186/1745-6150-7-6
ec_funded: 1
file:
- access_level: open_access
checksum: e511e401e239ef608a7fd79b21a06d78
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:15:44Z
date_updated: 2020-07-14T12:46:02Z
file_id: '5166'
file_name: IST-2012-99-v1+1_1745-6150-7-6.pdf
file_size: 4099536
relation: main_file
file_date_updated: 2020-07-14T12:46:02Z
has_accepted_license: '1'
intvolume: ' 7'
language:
- iso: eng
month: '02'
oa: 1
oa_version: Published Version
project:
- _id: 25B07788-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '250152'
name: Limits to selection in biology and in evolutionary computation
publication: Biology Direct
publication_status: published
publisher: BioMed Central
publist_id: '3518'
pubrep_id: '99'
quality_controlled: '1'
status: public
title: Amino acid fermentation at the origin of the genetic code
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 7
year: '2012'
...
---
_id: '3277'
abstract:
- lang: eng
text: The problem of the origin of metazoa is becoming more urgent in the context
of astrobiology. By now it is clear that clues to the understanding of this crucial
transition in the evolution of life can arise in a fourth pathway besides the
three possibilities in the quest for simplicity outlined by Bonner in his classical
book. In other words, solar system exploration seems to be one way in the long-term
to elucidate the simplicity of evolutionary development. We place these ideas
in the context of different inheritance systems, namely the genotypic and phenotypic
replicators with limited or unlimited heredity, and ask which of these can support
multicellular development, and to which degree of complexity. However, the quest
for evidence on the evolution of biotas from planets around other stars does not
seem to be feasible with present technology with direct visualization of living
organisms on exoplanets. But this may be attempted on the Galilean moons of Jupiter
where there is a possibility of detecting reliable biomarkers in the next decade
with the Europa Jupiter System Mission, in view of recent progress by landing
micropenetrators on planetary, or satellite surfaces. Mars is a second possibility
in the inner Solar System, in spite of the multiple difficulties faced by the
fleet of past, present and future missions. We discuss a series of preliminary
ideas for elucidating the origin of metazoan analogues with available instrumentation
in potential payloads of feasible space missions to the Galilean moons.
alternative_title:
- Cellular Origin, Life in Extreme Habitats and Astrobiology
author:
- first_name: Harold
full_name: de Vladar, Harold
id: 2A181218-F248-11E8-B48F-1D18A9856A87
last_name: de Vladar
orcid: 0000-0002-5985-7653
- first_name: Julian
full_name: Chela Flores, Julian
last_name: Chela Flores
citation:
ama: 'de Vladar H, Chela Flores J. Can the evolution of multicellularity be anticipated
in the exploration of the solar system? In: Life on Earth and Other Planetary
Bodies. Vol 24. Springer; 2012:387-405. doi:10.1007/978-94-007-4966-5_22'
apa: de Vladar, H., & Chela Flores, J. (2012). Can the evolution of multicellularity
be anticipated in the exploration of the solar system? In Life on Earth and
other planetary bodies (Vol. 24, pp. 387–405). Springer. https://doi.org/10.1007/978-94-007-4966-5_22
chicago: Vladar, Harold de, and Julian Chela Flores. “Can the Evolution of Multicellularity
Be Anticipated in the Exploration of the Solar System?” In Life on Earth and
Other Planetary Bodies, 24:387–405. Springer, 2012. https://doi.org/10.1007/978-94-007-4966-5_22.
ieee: H. de Vladar and J. Chela Flores, “Can the evolution of multicellularity be
anticipated in the exploration of the solar system?,” in Life on Earth and
other planetary bodies, vol. 24, Springer, 2012, pp. 387–405.
ista: 'de Vladar H, Chela Flores J. 2012.Can the evolution of multicellularity be
anticipated in the exploration of the solar system? In: Life on Earth and other
planetary bodies. Cellular Origin, Life in Extreme Habitats and Astrobiology,
vol. 24, 387–405.'
mla: de Vladar, Harold, and Julian Chela Flores. “Can the Evolution of Multicellularity
Be Anticipated in the Exploration of the Solar System?” Life on Earth and Other
Planetary Bodies, vol. 24, Springer, 2012, pp. 387–405, doi:10.1007/978-94-007-4966-5_22.
short: H. de Vladar, J. Chela Flores, in:, Life on Earth and Other Planetary Bodies,
Springer, 2012, pp. 387–405.
date_created: 2018-12-11T12:02:25Z
date_published: 2012-01-01T00:00:00Z
date_updated: 2021-01-12T07:42:20Z
day: '01'
department:
- _id: NiBa
doi: 10.1007/978-94-007-4966-5_22
intvolume: ' 24'
language:
- iso: eng
month: '01'
oa_version: None
page: 387 - 405
publication: Life on Earth and other planetary bodies
publication_status: published
publisher: Springer
publist_id: '3369'
quality_controlled: '1'
status: public
title: Can the evolution of multicellularity be anticipated in the exploration of
the solar system?
type: book_chapter
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 24
year: '2012'
...
---
_id: '3375'
abstract:
- lang: eng
text: 'By exploiting an analogy between population genetics and statistical mechanics,
we study the evolution of a polygenic trait under stabilizing selection, mutation
and genetic drift. This requires us to track only four macroscopic variables,
instead of the distribution of all the allele frequencies that influence the trait.
These macroscopic variables are the expectations of: the trait mean and its square,
the genetic variance, and of a measure of heterozygosity, and are derived from
a generating function that is in turn derived by maximizing an entropy measure.
These four macroscopics are enough to accurately describe the dynamics of the
trait mean and of its genetic variance (and in principle of any other quantity).
Unlike previous approaches that were based on an infinite series of moments or
cumulants, which had to be truncated arbitrarily, our calculations provide a well-defined
approximation procedure. We apply the framework to abrupt and gradual changes
in the optimum, as well as to changes in the strength of stabilizing selection.
Our approximations are surprisingly accurate, even for systems with as few as
five loci. We find that when the effects of drift are included, the expected genetic
variance is hardly altered by directional selection, even though it fluctuates
in any particular instance. We also find hysteresis, showing that even after averaging
over the microscopic variables, the macroscopic trajectories retain a memory of
the underlying genetic states.'
article_processing_charge: No
article_type: original
author:
- first_name: Harold
full_name: de Vladar, Harold
id: 2A181218-F248-11E8-B48F-1D18A9856A87
last_name: de Vladar
orcid: 0000-0002-5985-7653
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: de Vladar H, Barton NH. The statistical mechanics of a polygenic character
under stabilizing selection mutation and drift. Journal of the Royal Society
Interface. 2011;8(58):720-739. doi:10.1098/rsif.2010.0438
apa: de Vladar, H., & Barton, N. H. (2011). The statistical mechanics of a polygenic
character under stabilizing selection mutation and drift. Journal of the Royal
Society Interface. The Royal Society. https://doi.org/10.1098/rsif.2010.0438
chicago: Vladar, Harold de, and Nicholas H Barton. “The Statistical Mechanics of
a Polygenic Character under Stabilizing Selection Mutation and Drift.” Journal
of the Royal Society Interface. The Royal Society, 2011. https://doi.org/10.1098/rsif.2010.0438.
ieee: H. de Vladar and N. H. Barton, “The statistical mechanics of a polygenic character
under stabilizing selection mutation and drift,” Journal of the Royal Society
Interface, vol. 8, no. 58. The Royal Society, pp. 720–739, 2011.
ista: de Vladar H, Barton NH. 2011. The statistical mechanics of a polygenic character
under stabilizing selection mutation and drift. Journal of the Royal Society Interface.
8(58), 720–739.
mla: de Vladar, Harold, and Nicholas H. Barton. “The Statistical Mechanics of a
Polygenic Character under Stabilizing Selection Mutation and Drift.” Journal
of the Royal Society Interface, vol. 8, no. 58, The Royal Society, 2011, pp.
720–39, doi:10.1098/rsif.2010.0438.
short: H. de Vladar, N.H. Barton, Journal of the Royal Society Interface 8 (2011)
720–739.
date_created: 2018-12-11T12:02:58Z
date_published: 2011-05-01T00:00:00Z
date_updated: 2025-05-28T11:42:45Z
day: '01'
department:
- _id: NiBa
doi: 10.1098/rsif.2010.0438
ec_funded: 1
external_id:
pmid:
- '21084341'
intvolume: ' 8'
issue: '58'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3061091/
month: '05'
oa: 1
oa_version: Submitted Version
page: 720 - 739
pmid: 1
project:
- _id: 25B07788-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '250152'
name: Limits to selection in biology and in evolutionary computation
publication: Journal of the Royal Society Interface
publication_status: published
publisher: The Royal Society
publist_id: '3232'
quality_controlled: '1'
scopus_import: '1'
status: public
title: The statistical mechanics of a polygenic character under stabilizing selection
mutation and drift
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 8
year: '2011'
...
---
_id: '3391'
abstract:
- lang: eng
text: 'Evolutionary biology shares many concepts with statistical physics: both
deal with populations, whether of molecules or organisms, and both seek to simplify
evolution in very many dimensions. Often, methodologies have undergone parallel
and independent development, as with stochastic methods in population genetics.
Here, we discuss aspects of population genetics that have embraced methods from
physics: non-equilibrium statistical mechanics, travelling waves and Monte-Carlo
methods, among others, have been used to study polygenic evolution, rates of adaptation
and range expansions. These applications indicate that evolutionary biology can
further benefit from interactions with other areas of statistical physics; for
example, by following the distribution of paths taken by a population through
time'
author:
- first_name: Harold
full_name: de Vladar, Harold
id: 2A181218-F248-11E8-B48F-1D18A9856A87
last_name: de Vladar
orcid: 0000-0002-5985-7653
- first_name: Nicholas H
full_name: Barton, Nicholas H
id: 4880FE40-F248-11E8-B48F-1D18A9856A87
last_name: Barton
orcid: 0000-0002-8548-5240
citation:
ama: de Vladar H, Barton NH. The contribution of statistical physics to evolutionary
biology. Trends in Ecology and Evolution. 2011;26(8):424-432. doi:10.1016/j.tree.2011.04.002
apa: de Vladar, H., & Barton, N. H. (2011). The contribution of statistical
physics to evolutionary biology. Trends in Ecology and Evolution. Cell
Press. https://doi.org/10.1016/j.tree.2011.04.002
chicago: Vladar, Harold de, and Nicholas H Barton. “The Contribution of Statistical
Physics to Evolutionary Biology.” Trends in Ecology and Evolution. Cell
Press, 2011. https://doi.org/10.1016/j.tree.2011.04.002.
ieee: H. de Vladar and N. H. Barton, “The contribution of statistical physics to
evolutionary biology,” Trends in Ecology and Evolution, vol. 26, no. 8.
Cell Press, pp. 424–432, 2011.
ista: de Vladar H, Barton NH. 2011. The contribution of statistical physics to evolutionary
biology. Trends in Ecology and Evolution. 26(8), 424–432.
mla: de Vladar, Harold, and Nicholas H. Barton. “The Contribution of Statistical
Physics to Evolutionary Biology.” Trends in Ecology and Evolution, vol.
26, no. 8, Cell Press, 2011, pp. 424–32, doi:10.1016/j.tree.2011.04.002.
short: H. de Vladar, N.H. Barton, Trends in Ecology and Evolution 26 (2011) 424–432.
date_created: 2018-12-11T12:03:04Z
date_published: 2011-08-01T00:00:00Z
date_updated: 2021-01-12T07:43:10Z
day: '01'
department:
- _id: NiBa
doi: 10.1016/j.tree.2011.04.002
ec_funded: 1
intvolume: ' 26'
issue: '8'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1104.2854
month: '08'
oa: 1
oa_version: Submitted Version
page: 424 - 432
project:
- _id: 25B07788-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '250152'
name: Limits to selection in biology and in evolutionary computation
publication: Trends in Ecology and Evolution
publication_status: published
publisher: Cell Press
publist_id: '3216'
quality_controlled: '1'
scopus_import: 1
status: public
title: The contribution of statistical physics to evolutionary biology
type: journal_article
user_id: 4435EBFC-F248-11E8-B48F-1D18A9856A87
volume: 26
year: '2011'
...
---
_id: '4232'
author:
- first_name: Harold
full_name: Harold Vladar
id: 2A181218-F248-11E8-B48F-1D18A9856A87
last_name: Vladar
orcid: 0000-0002-5985-7653
citation:
ama: de Vladar H. Stochasticity and Variability in the dynamics and genetics of
populations. 2009. doi:3811
apa: de Vladar, H. (2009). Stochasticity and Variability in the dynamics and
genetics of populations. Faculty of mathematical and natural sciences, University
of Groningen. https://doi.org/3811
chicago: Vladar, Harold de. “Stochasticity and Variability in the Dynamics and Genetics
of Populations.” Faculty of mathematical and natural sciences, University of Groningen,
2009. https://doi.org/3811.
ieee: H. de Vladar, “Stochasticity and Variability in the dynamics and genetics
of populations,” Faculty of mathematical and natural sciences, University of Groningen,
2009.
ista: de Vladar H. 2009. Stochasticity and Variability in the dynamics and genetics
of populations. Faculty of mathematical and natural sciences, University of Groningen.
mla: de Vladar, Harold. Stochasticity and Variability in the Dynamics and Genetics
of Populations. Faculty of mathematical and natural sciences, University of
Groningen, 2009, doi:3811.
short: H. de Vladar, Stochasticity and Variability in the Dynamics and Genetics
of Populations, Faculty of mathematical and natural sciences, University of Groningen,
2009.
date_created: 2018-12-11T12:07:44Z
date_published: 2009-01-01T00:00:00Z
date_updated: 2021-01-12T07:55:29Z
day: '01'
doi: '3811'
extern: 1
month: '01'
publication_status: published
publisher: Faculty of mathematical and natural sciences, University of Groningen
publist_id: '1883'
quality_controlled: 0
status: public
title: Stochasticity and Variability in the dynamics and genetics of populations
type: dissertation
year: '2009'
...
---
_id: '4233'
author:
- first_name: Harold
full_name: Harold Vladar
id: 2A181218-F248-11E8-B48F-1D18A9856A87
last_name: Vladar
orcid: 0000-0002-5985-7653
citation:
ama: 'de Vladar H. Alternativas prebióticas para la síntesis de amino- ácidos y
otras moléculas relacionadas. In: Falcón N, Loyo De Sardi Y, eds. Consejo de Desarrollo
Cientifico y Tecnologico; 2007:91-109. doi:3808'
apa: 'de Vladar, H. (2007). Alternativas prebióticas para la síntesis de amino-
ácidos y otras moléculas relacionadas. In N. Falcón & Y. Loyo De Sardi (Eds.)
(pp. 91–109). Presented at the Ab Initio: Orígenes Del Universo, La Vida, Y La
Inteligencia, Consejo de Desarrollo Cientifico y Tecnologico. https://doi.org/3808'
chicago: Vladar, Harold de. “Alternativas Prebióticas Para La Síntesis de Amino-
Ácidos y Otras Moléculas Relacionadas.” edited by N. Falcón and Y. Loyo De Sardi,
91–109. Consejo de Desarrollo Cientifico y Tecnologico, 2007. https://doi.org/3808.
ieee: 'H. de Vladar, “Alternativas prebióticas para la síntesis de amino- ácidos
y otras moléculas relacionadas,” presented at the Ab Initio: Orígenes Del Universo,
La Vida, Y La Inteligencia, 2007, pp. 91–109.'
ista: 'de Vladar H. 2007. Alternativas prebióticas para la síntesis de amino- ácidos
y otras moléculas relacionadas. Ab Initio: Orígenes Del Universo, La Vida, Y La
Inteligencia, 91–109.'
mla: de Vladar, Harold. Alternativas Prebióticas Para La Síntesis de Amino- Ácidos
y Otras Moléculas Relacionadas. Edited by N. Falcón and Y. Loyo De Sardi,
Consejo de Desarrollo Cientifico y Tecnologico, 2007, pp. 91–109, doi:3808.
short: H. de Vladar, in:, N. Falcón, Y. Loyo De Sardi (Eds.), Consejo de Desarrollo
Cientifico y Tecnologico, 2007, pp. 91–109.
conference:
name: 'Ab Initio: Orígenes Del Universo, La Vida, Y La Inteligencia'
date_created: 2018-12-11T12:07:45Z
date_published: 2007-01-01T00:00:00Z
date_updated: 2021-01-12T07:55:29Z
day: '01'
doi: '3808'
editor:
- first_name: N.
full_name: Falcón,N.
last_name: Falcón
- first_name: Y.
full_name: Loyo de Sardi,Y.
last_name: Loyo De Sardi
extern: 1
month: '01'
page: 91 - 109
publication_status: published
publisher: Consejo de Desarrollo Cientifico y Tecnologico
publist_id: '1880'
quality_controlled: 0
status: public
title: Alternativas prebióticas para la síntesis de amino- ácidos y otras moléculas
relacionadas
type: conference
year: '2007'
...
---
_id: '4234'
abstract:
- lang: eng
text: We study a generalised model of population growth in which the state variable
is population growth rate instead of population size. Stochastic parametric perturbations,
modelling phenotypic variability, lead to a Langevin system with two sources of
multiplicative noise. The stationary probability distributions have two characteristic
power-law scales. Numerical simulations show that noise suppresses the explosion
of the growth rate which occurs in the deterministic counterpart. Instead, in
different parameter regimes populations will grow with "anomalous" stochastic
rates and (i) stabilise at "random carrying capacities", or (ii) go
extinct in random times. Using logistic fits to reconstruct the simulated data,
we find that even highly significant estimations do not recover or reflect information
about the deterministic part of the process. Therefore, the logistic interpretation
is not biologically meaningful. These results have implications for distinct model-aided
calculations in biological situations because these kinds of estimations could
lead to spurious conclusions. (c) 2006 Elsevier B.V. All rights reserved.
article_processing_charge: No
arxiv: 1
author:
- first_name: Harold
full_name: de Vladar, Harold
id: 2A181218-F248-11E8-B48F-1D18A9856A87
last_name: de Vladar
orcid: 0000-0002-5985-7653
- first_name: I.
full_name: Pen, I.
last_name: Pen
citation:
ama: de Vladar H, Pen I. Determinism, noise, and spurious estimations in a generalised
model of population growth. Physica A. 2007;373:477-485. doi:10.1016/j.physa.2006.06.025
apa: de Vladar, H., & Pen, I. (2007). Determinism, noise, and spurious estimations
in a generalised model of population growth. Physica A. Elsevier. https://doi.org/10.1016/j.physa.2006.06.025
chicago: Vladar, Harold de, and I. Pen. “Determinism, Noise, and Spurious Estimations
in a Generalised Model of Population Growth.” Physica A. Elsevier, 2007.
https://doi.org/10.1016/j.physa.2006.06.025.
ieee: H. de Vladar and I. Pen, “Determinism, noise, and spurious estimations in
a generalised model of population growth,” Physica A, vol. 373. Elsevier,
pp. 477–485, 2007.
ista: de Vladar H, Pen I. 2007. Determinism, noise, and spurious estimations in
a generalised model of population growth. Physica A. 373, 477–485.
mla: de Vladar, Harold, and I. Pen. “Determinism, Noise, and Spurious Estimations
in a Generalised Model of Population Growth.” Physica A, vol. 373, Elsevier,
2007, pp. 477–85, doi:10.1016/j.physa.2006.06.025.
short: H. de Vladar, I. Pen, Physica A 373 (2007) 477–485.
date_created: 2018-12-11T12:07:45Z
date_published: 2007-01-01T00:00:00Z
date_updated: 2021-01-12T07:55:30Z
day: '01'
doi: 10.1016/j.physa.2006.06.025
extern: '1'
external_id:
arxiv:
- abs/q-bio/0602018
intvolume: ' 373'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/q-bio/0602018
month: '01'
oa: 1
oa_version: Preprint
page: 477 - 485
publication: Physica A
publication_status: published
publisher: Elsevier
publist_id: '1881'
status: public
title: Determinism, noise, and spurious estimations in a generalised model of population
growth
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 373
year: '2007'
...
---
_id: '4235'
author:
- first_name: Harold
full_name: Harold Vladar
id: 2A181218-F248-11E8-B48F-1D18A9856A87
last_name: Vladar
orcid: 0000-0002-5985-7653
- first_name: J.
full_name: González,J. A
last_name: González
citation:
ama: de Vladar H, González J. Dynamic response of cancer under the influence of
immunological activity and therapy. Journal of Theoretical Biology. 2006:91-109.
apa: de Vladar, H., & González, J. (2006). Dynamic response of cancer under
the influence of immunological activity and therapy. Journal of Theoretical
Biology. Elsevier.
chicago: Vladar, Harold de, and J. González. “Dynamic Response of Cancer under the
Influence of Immunological Activity and Therapy.” Journal of Theoretical Biology.
Elsevier, 2006.
ieee: H. de Vladar and J. González, “Dynamic response of cancer under the influence
of immunological activity and therapy,” Journal of Theoretical Biology.
Elsevier, pp. 91–109, 2006.
ista: de Vladar H, González J. 2006. Dynamic response of cancer under the influence
of immunological activity and therapy. Journal of Theoretical Biology., 91–109.
mla: de Vladar, Harold, and J. González. “Dynamic Response of Cancer under the Influence
of Immunological Activity and Therapy.” Journal of Theoretical Biology,
Elsevier, 2006, pp. 91–109.
short: H. de Vladar, J. González, Journal of Theoretical Biology (2006) 91–109.
date_created: 2018-12-11T12:07:45Z
date_published: 2006-01-01T00:00:00Z
date_updated: 2021-01-12T07:55:30Z
day: '01'
extern: 1
month: '01'
page: 91 - 109
publication: Journal of Theoretical Biology
publication_status: published
publisher: Elsevier
publist_id: '1879'
quality_controlled: 0
status: public
title: Dynamic response of cancer under the influence of immunological activity and
therapy
type: journal_article
year: '2006'
...
---
_id: '4237'
abstract:
- lang: eng
text: The growth function of populations is central in biomathematics. The main
dogma is the existence of density-dependence mechanisms, which can be modelled
with distinct functional forms that depend on the size of the Population. One
important class of regulatory functions is the theta-logistic, which generalizes
the logistic equation. Using this model as a motivation, this paper introduces
a simple dynamical reformulation that generalizes many growth functions. The reformulation
consists of two equations, one for population size, and one for the growth rate.
Furthermore, the model shows that although population is density-dependent, the
dynamics of the growth rate does not depend either on population size, nor on
the carrying capacity. Actually, the growth equation is uncoupled from the population
size equation, and the model has only two parameters, a Malthusian parameter rho
and a competition coefficient theta. Distinct sign combinations of these parameters
reproduce not only the family of theta-logistics, but also the van Bertalanffy,
Gompertz and Potential Growth equations, among other possibilities. It is also
shown that, except for two critical points, there is a general size-scaling relation
that includes those appearing in the most important allometric theories, including
the recently proposed Metabolic Theory of Ecology. With this model, several issues
of general interest are discussed such as the growth of animal population, extinctions,
cell growth and allometry, and the effect of environment over a population. (c)
2005 Elsevier Ltd. All rights reserved.
article_processing_charge: No
author:
- first_name: Harold
full_name: de Vladar, Harold
id: 2A181218-F248-11E8-B48F-1D18A9856A87
last_name: de Vladar
orcid: 0000-0002-5985-7653
citation:
ama: de Vladar H. Density-dependence as a size-independent regulatory mechanism.
Journal of Theoretical Biology. 2006;238(2):245-256. doi:3802
apa: de Vladar, H. (2006). Density-dependence as a size-independent regulatory mechanism.
Journal of Theoretical Biology. Elsevier. https://doi.org/3802
chicago: Vladar, Harold de. “Density-Dependence as a Size-Independent Regulatory
Mechanism.” Journal of Theoretical Biology. Elsevier, 2006. https://doi.org/3802.
ieee: H. de Vladar, “Density-dependence as a size-independent regulatory mechanism,”
Journal of Theoretical Biology, vol. 238, no. 2. Elsevier, pp. 245–256,
2006.
ista: de Vladar H. 2006. Density-dependence as a size-independent regulatory mechanism.
Journal of Theoretical Biology. 238(2), 245–256.
mla: de Vladar, Harold. “Density-Dependence as a Size-Independent Regulatory Mechanism.”
Journal of Theoretical Biology, vol. 238, no. 2, Elsevier, 2006, pp. 245–56,
doi:3802.
short: H. de Vladar, Journal of Theoretical Biology 238 (2006) 245–256.
date_created: 2018-12-11T12:07:46Z
date_published: 2006-01-01T00:00:00Z
date_updated: 2021-01-12T07:55:31Z
day: '01'
doi: '3802'
extern: '1'
intvolume: ' 238'
issue: '2'
language:
- iso: eng
month: '01'
oa_version: None
page: 245 - 256
publication: Journal of Theoretical Biology
publication_status: published
publisher: Elsevier
publist_id: '1878'
status: public
title: Density-dependence as a size-independent regulatory mechanism
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 238
year: '2006'
...
---
_id: '4230'
alternative_title:
- Cellular Origin and Life in Extreme Habitats and Astrobiology
author:
- first_name: Harold
full_name: Harold Vladar
id: 2A181218-F248-11E8-B48F-1D18A9856A87
last_name: Vladar
orcid: 0000-0002-5985-7653
- first_name: Roberto
full_name: Cipriani, Roberto
last_name: Cipriani
- first_name: Benjamin
full_name: Scharifker, Benjamin
last_name: Scharifker
- first_name: Jose
full_name: Bubis, Jose
last_name: Bubis
citation:
ama: 'de Vladar H, Cipriani R, Scharifker B, Bubis J. A mechanism for the prebiotic
emergence of proteins. In: Hanslmeier A, Kempe S, Seckbach J, eds. Life in
the Universe From the Miller Experiment to the Search for Life on Other Worlds.
Springer; 2004:83-87.'
apa: de Vladar, H., Cipriani, R., Scharifker, B., & Bubis, J. (2004). A mechanism
for the prebiotic emergence of proteins. In A. Hanslmeier, S. Kempe, & J.
Seckbach (Eds.), Life in the Universe From the Miller Experiment to the Search
for Life on Other Worlds (pp. 83–87). Springer.
chicago: Vladar, Harold de, Roberto Cipriani, Benjamin Scharifker, and Jose Bubis.
“A Mechanism for the Prebiotic Emergence of Proteins.” In Life in the Universe
From the Miller Experiment to the Search for Life on Other Worlds, edited
by A. Hanslmeier, S. Kempe, and J. Seckbach, 83–87. Springer, 2004.
ieee: H. de Vladar, R. Cipriani, B. Scharifker, and J. Bubis, “A mechanism for the
prebiotic emergence of proteins,” in Life in the Universe From the Miller Experiment
to the Search for Life on Other Worlds, A. Hanslmeier, S. Kempe, and J. Seckbach,
Eds. Springer, 2004, pp. 83–87.
ista: 'de Vladar H, Cipriani R, Scharifker B, Bubis J. 2004.A mechanism for the
prebiotic emergence of proteins. In: Life in the Universe From the Miller Experiment
to the Search for Life on Other Worlds. Cellular Origin and Life in Extreme Habitats
and Astrobiology, , 83–87.'
mla: de Vladar, Harold, et al. “A Mechanism for the Prebiotic Emergence of Proteins.”
Life in the Universe From the Miller Experiment to the Search for Life on Other
Worlds, edited by A. Hanslmeier et al., Springer, 2004, pp. 83–87.
short: H. de Vladar, R. Cipriani, B. Scharifker, J. Bubis, in:, A. Hanslmeier, S.
Kempe, J. Seckbach (Eds.), Life in the Universe From the Miller Experiment to
the Search for Life on Other Worlds, Springer, 2004, pp. 83–87.
date_created: 2018-12-11T12:07:44Z
date_published: 2004-12-31T00:00:00Z
date_updated: 2021-01-12T07:55:28Z
day: '31'
editor:
- first_name: A.
full_name: Hanslmeier,A.
last_name: Hanslmeier
- first_name: S.
full_name: Kempe,S.
last_name: Kempe
- first_name: J.
full_name: Seckbach,J.
last_name: Seckbach
extern: 1
month: '12'
page: 83 - 87
publication: Life in the Universe From the Miller Experiment to the Search for Life
on Other Worlds
publication_status: published
publisher: Springer
publist_id: '1884'
quality_controlled: 0
status: public
title: A mechanism for the prebiotic emergence of proteins
type: book_chapter
year: '2004'
...
---
_id: '4236'
article_processing_charge: No
author:
- first_name: Harold
full_name: de Vladar, Harold
id: 2A181218-F248-11E8-B48F-1D18A9856A87
last_name: de Vladar
orcid: 0000-0002-5985-7653
citation:
ama: de Vladar H. Métodos no lineales y sus aplicaciones en dinámicas aleatorias
de poblaciones celulares. 2004. doi:3810
apa: de Vladar, H. (2004). Métodos no lineales y sus aplicaciones en dinámicas
aleatorias de poblaciones celulares. Centro de estudios avazados, IVIC. https://doi.org/3810
chicago: Vladar, Harold de. “Métodos No Lineales y Sus Aplicaciones En Dinámicas
Aleatorias de Poblaciones Celulares.” Centro de estudios avazados, IVIC, 2004.
https://doi.org/3810.
ieee: H. de Vladar, “Métodos no lineales y sus aplicaciones en dinámicas aleatorias
de poblaciones celulares,” Centro de estudios avazados, IVIC, 2004.
ista: de Vladar H. 2004. Métodos no lineales y sus aplicaciones en dinámicas aleatorias
de poblaciones celulares. Centro de estudios avazados, IVIC.
mla: de Vladar, Harold. Métodos No Lineales y Sus Aplicaciones En Dinámicas Aleatorias
de Poblaciones Celulares. Centro de estudios avazados, IVIC, 2004, doi:3810.
short: H. de Vladar, Métodos No Lineales y Sus Aplicaciones En Dinámicas Aleatorias
de Poblaciones Celulares, Centro de estudios avazados, IVIC, 2004.
date_created: 2018-12-11T12:07:46Z
date_published: 2004-01-01T00:00:00Z
date_updated: 2021-01-12T07:55:30Z
day: '01'
doi: '3810'
extern: '1'
language:
- iso: eng
month: '01'
oa_version: None
publication_status: published
publisher: Centro de estudios avazados, IVIC
publist_id: '1877'
status: public
title: Métodos no lineales y sus aplicaciones en dinámicas aleatorias de poblaciones
celulares
type: dissertation
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2004'
...
---
_id: '4238'
abstract:
- lang: eng
text: The dynamical basis of tumoral growth has been controversial. Many models
have been proposed to explain cancer development. The descriptions employ exponential,
potential, logistic or Gompertzian growth laws. Some of these models are concerned
with the interaction between cancer and the immunological, system. Among other
properties, these models are concerned with the microscopic behavior of tumors
and the emergence of cancer. We propose a modification of a previous model by
Stepanova, which describes the specific immunological response against cancer.
The modification consists of the substitution of a Gompertian law for the exponential
rate used for tumoral growth. This modification is motivated by the numerous works
confirming that Gompertz's equation correctly describes solid tumor growth. The
modified model predicts that near zero, tumors always tend to grow. Immunological
contraposition never suffices to induce a complete regression of the tumor. Instead,
a stable microscopic equilibrium between cancer and immunological activity can
be attained. In other words, our model predicts that the theory of immune surveillance
is plausible. A macroscopic equilibrium in which the system develops cancer is
also possible. In this case, immunological activity is depleted. This is consistent
with the phenomena of cancer tolerance. Both equilibrium points can coexist or
can exist without the other. In all cases the fixed point at zero tumor size is
unstable. Since immunity cannot induce a complete tumor regression, a therapy
is required. We include constant-dose therapies and show that they are insufficient.
Final levels of immunocompetent cells and tumoral cells are finite, thus post-treatment
regrowth of the tumor is certain. We also evaluate late-intensification therapies
which are successful. They induce an asymptotic regression to zero tumor size.
Immune response is also suppressed by the therapy, and thus plays a negligible
role in the remission. We conclude that treatment evaluation should be successful
without taking into account immunological effects. (C) 2003 Elsevier Ltd. All
rights reserved.
article_processing_charge: No
author:
- first_name: Harold
full_name: de Vladar, Harold
id: 2A181218-F248-11E8-B48F-1D18A9856A87
last_name: de Vladar
orcid: 0000-0002-5985-7653
- first_name: J.
full_name: González, J.
last_name: González
citation:
ama: de Vladar H, González J. Dynamic response of cancer under the influence of
immunological activity and therapy. Journal of Theoretical Biology. 2004;227(3):335-348.
doi:3801
apa: de Vladar, H., & González, J. (2004). Dynamic response of cancer under
the influence of immunological activity and therapy. Journal of Theoretical
Biology. Elsevier. https://doi.org/3801
chicago: Vladar, Harold de, and J. González. “Dynamic Response of Cancer under the
Influence of Immunological Activity and Therapy.” Journal of Theoretical Biology.
Elsevier, 2004. https://doi.org/3801.
ieee: H. de Vladar and J. González, “Dynamic response of cancer under the influence
of immunological activity and therapy,” Journal of Theoretical Biology,
vol. 227, no. 3. Elsevier, pp. 335–348, 2004.
ista: de Vladar H, González J. 2004. Dynamic response of cancer under the influence
of immunological activity and therapy. Journal of Theoretical Biology. 227(3),
335–348.
mla: de Vladar, Harold, and J. González. “Dynamic Response of Cancer under the Influence
of Immunological Activity and Therapy.” Journal of Theoretical Biology,
vol. 227, no. 3, Elsevier, 2004, pp. 335–48, doi:3801.
short: H. de Vladar, J. González, Journal of Theoretical Biology 227 (2004) 335–348.
date_created: 2018-12-11T12:07:46Z
date_published: 2004-01-01T00:00:00Z
date_updated: 2021-01-12T07:55:31Z
day: '01'
doi: '3801'
extern: '1'
intvolume: ' 227'
issue: '3'
language:
- iso: eng
month: '01'
oa_version: None
page: 335 - 348
publication: Journal of Theoretical Biology
publication_status: published
publisher: Elsevier
publist_id: '1876'
status: public
title: Dynamic response of cancer under the influence of immunological activity and
therapy
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 227
year: '2004'
...
---
_id: '4239'
alternative_title:
- Cellular Origin, Life in Extreme Habitats and Astrobiology
author:
- first_name: Harold
full_name: Harold Vladar
id: 2A181218-F248-11E8-B48F-1D18A9856A87
last_name: Vladar
orcid: 0000-0002-5985-7653
- first_name: Roberto
full_name: 'Cipriani, Roberto '
last_name: Cipriani
- first_name: Benjamin
full_name: Scharifker, Benjamin
last_name: Scharifker
- first_name: Jose
full_name: Bubis, Jose
last_name: Bubis
citation:
ama: 'de Vladar H, Cipriani R, Scharifker B, Bubis J. A Mechanism for the Prebiotic
Emergence of Proteins. In: Seckbach J, Chela Flores J, Owen T, Raulin F, eds.
Life in the Universe From the Miller Experiment to the Search for Life on Other
Worlds. Vol 7. Springer; 2004:83-87. doi:3807'
apa: de Vladar, H., Cipriani, R., Scharifker, B., & Bubis, J. (2004). A Mechanism
for the Prebiotic Emergence of Proteins. In J. Seckbach, J. Chela Flores, T. Owen,
& F. Raulin (Eds.), Life in the Universe From the Miller Experiment to
the Search for Life on Other Worlds (Vol. 7, pp. 83–87). Springer. https://doi.org/3807
chicago: Vladar, Harold de, Roberto Cipriani, Benjamin Scharifker, and Jose Bubis.
“A Mechanism for the Prebiotic Emergence of Proteins.” In Life in the Universe
From the Miller Experiment to the Search for Life on Other Worlds, edited
by J. Seckbach, J. Chela Flores, T. Owen, and F. Raulin, 7:83–87. Springer, 2004.
https://doi.org/3807.
ieee: H. de Vladar, R. Cipriani, B. Scharifker, and J. Bubis, “A Mechanism for the
Prebiotic Emergence of Proteins,” in Life in the Universe From the Miller Experiment
to the Search for Life on Other Worlds, vol. 7, J. Seckbach, J. Chela Flores,
T. Owen, and F. Raulin, Eds. Springer, 2004, pp. 83–87.
ista: 'de Vladar H, Cipriani R, Scharifker B, Bubis J. 2004.A Mechanism for the
Prebiotic Emergence of Proteins. In: Life in the Universe From the Miller Experiment
to the Search for Life on Other Worlds. Cellular Origin, Life in Extreme Habitats
and Astrobiology, vol. 7, 83–87.'
mla: de Vladar, Harold, et al. “A Mechanism for the Prebiotic Emergence of Proteins.”
Life in the Universe From the Miller Experiment to the Search for Life on Other
Worlds, edited by J. Seckbach et al., vol. 7, Springer, 2004, pp. 83–87, doi:3807.
short: H. de Vladar, R. Cipriani, B. Scharifker, J. Bubis, in:, J. Seckbach, J.
Chela Flores, T. Owen, F. Raulin (Eds.), Life in the Universe From the Miller
Experiment to the Search for Life on Other Worlds, Springer, 2004, pp. 83–87.
date_created: 2018-12-11T12:07:47Z
date_published: 2004-01-01T00:00:00Z
date_updated: 2021-01-12T07:55:32Z
day: '01'
doi: '3807'
editor:
- first_name: J.
full_name: Seckbach,J.
last_name: Seckbach
- first_name: J.
full_name: Chela-Flores,J.
last_name: Chela Flores
- first_name: T.
full_name: Owen,T.
last_name: Owen
- first_name: F.
full_name: Raulin,F.
last_name: Raulin
extern: 1
intvolume: ' 7'
month: '01'
page: 83 - 87
publication: Life in the Universe From the Miller Experiment to the Search for Life
on Other Worlds
publication_status: published
publisher: Springer
publist_id: '1875'
quality_controlled: 0
status: public
title: A Mechanism for the Prebiotic Emergence of Proteins
type: book_chapter
volume: 7
year: '2004'
...