In silico - Revision history

Monkbot: Task 20: replace {lang-??} templates with {langx|??} ‹See Tfd› (Replaced 1);

2024-10-25T01:04:07Z

Task 20: replace {lang-??} templates with {langx|??} ‹See Tfd› (Replaced 1);

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	[[File:Forest of synthetic pyramidal dendrites grown using Cajal's laws of neuronal branching.png\|thumb\|A forest of synthetic [[pyramidal cell\|pyramidal]] [[dendrite]]s generated ''in silico'' using [[Santiago Ramón y Cajal\|Cajal]]'s laws of neuronal branching]]		[[File:Forest of synthetic pyramidal dendrites grown using Cajal's laws of neuronal branching.png\|thumb\|A forest of synthetic [[pyramidal cell\|pyramidal]] [[dendrite]]s generated ''in silico'' using [[Santiago Ramón y Cajal\|Cajal]]'s laws of neuronal branching]]

	In [[biology]] and other experimental sciences, an '''''in silico''''' experiment is one performed on a computer or via [[computer simulation]] software. The phrase is [[pseudo-Latin]] for 'in silicon' (correct {{~~lang-~~la\|in silicio}}), referring to [[silicon]] in computer chips. It was coined in 1987 as an allusion to the [[Latin phrase]]s {{lang\|la\|[[in vivo]]}}, {{lang\|la\|[[in vitro]]}}, and {{lang\|la\|[[in situ]]}}, which are commonly used in [[biology]] (especially [[systems biology]]). The latter phrases refer, respectively, to experiments done in living organisms, outside living organisms, and where they are found in nature.		In [[biology]] and other experimental sciences, an '''''in silico''''' experiment is one performed on a computer or via [[computer simulation]] software. The phrase is [[pseudo-Latin]] for 'in silicon' (correct {{langx\|la\|in silicio}}), referring to [[silicon]] in computer chips. It was coined in 1987 as an allusion to the [[Latin phrase]]s {{lang\|la\|[[in vivo]]}}, {{lang\|la\|[[in vitro]]}}, and {{lang\|la\|[[in situ]]}}, which are commonly used in [[biology]] (especially [[systems biology]]). The latter phrases refer, respectively, to experiments done in living organisms, outside living organisms, and where they are found in nature.

	==History==		==History==

Gianaccordi: Add Exscalate4Cov

2024-07-11T15:19:18Z

Add Exscalate4Cov

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	*[[Computer experiment]]		*[[Computer experiment]]
	*[[Folding@home]]		*[[Folding@home]]
			*[[Exscalate4Cov]]
	*[[Cellular model]]		*[[Cellular model]]
	*[[Nonclinical studies]]		*[[Nonclinical studies]]

Kku: link artificial life

2024-05-08T21:13:54Z

link artificial life

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	==History==		==History==
	The earliest known use of the phrase was by [[Christopher Langton]] to describe artificial life, in the announcement of a workshop on that subject at the Center for Nonlinear Studies at the [[Los Alamos National Laboratory]] in 1987.<ref>{{Cite web\|url=https://groups.google.com/forum/#!topic/news.announce.conferences/d2oq9H2venM\|title=Google Groups\|website=groups.google.com\|access-date=2020-01-05}}</ref><ref>{{Cite book\|url=https://books.google.com/books?id=-uC54_DD0tMC&pg=PA273\|title=Ultimate Computing: Biomolecular Consciousness and NanoTechnology\|last=Hameroff\|first=S. R.\|date=2014-04-11\|publisher=Elsevier\|isbn=978-0-444-60009-7\|language=en}}</ref> The expression ''in silico'' was first used to characterize biological experiments carried out entirely in a computer in 1989, in the workshop "Cellular Automata: Theory and Applications" in Los Alamos, New Mexico, by Pedro Miramontes, a mathematician from [[National Autonomous University of Mexico]] (UNAM), presenting the report "[[DNA]] and [[RNA]] Physicochemical Constraints, Cellular Automata and Molecular Evolution". The work was later presented by Miramontes as his [[dissertation]].<ref name=Miramontes>Miramontes P. (1992) ''Un modelo de autómata celular para la evolución de los ácidos nucleicos'' [A cellular automaton model for the evolution of nucleic acids]. PhD Thesis. UNAM.</ref>		The earliest known use of the phrase was by [[Christopher Langton]] to describe [[artificial life]], in the announcement of a workshop on that subject at the Center for Nonlinear Studies at the [[Los Alamos National Laboratory]] in 1987.<ref>{{Cite web\|url=https://groups.google.com/forum/#!topic/news.announce.conferences/d2oq9H2venM\|title=Google Groups\|website=groups.google.com\|access-date=2020-01-05}}</ref><ref>{{Cite book\|url=https://books.google.com/books?id=-uC54_DD0tMC&pg=PA273\|title=Ultimate Computing: Biomolecular Consciousness and NanoTechnology\|last=Hameroff\|first=S. R.\|date=2014-04-11\|publisher=Elsevier\|isbn=978-0-444-60009-7\|language=en}}</ref> The expression ''in silico'' was first used to characterize biological experiments carried out entirely in a computer in 1989, in the workshop "Cellular Automata: Theory and Applications" in Los Alamos, New Mexico, by Pedro Miramontes, a mathematician from [[National Autonomous University of Mexico]] (UNAM), presenting the report "[[DNA]] and [[RNA]] Physicochemical Constraints, Cellular Automata and Molecular Evolution". The work was later presented by Miramontes as his [[dissertation]].<ref name=Miramontes>Miramontes P. (1992) ''Un modelo de autómata celular para la evolución de los ácidos nucleicos'' [A cellular automaton model for the evolution of nucleic acids]. PhD Thesis. UNAM.</ref>

	''In silico'' has been used in [[white paper]]s written to support the creation of bacterial genome programs by the Commission of the European Community. The first referenced paper where ''in silico'' appears was written by a French team in 1991.<ref name=Danchin>{{Citation\| last1 = Danchin \| first1 = A \| last2 = Médigue \| first2 = C \| last3 = Gascuel \| first3 = O \| last4 = Soldano \| first4 = H \| last5 = Hénaut \| first5 = A \| title = From data banks to data bases \| journal = Research in Microbiology \| volume = 142 \| issue = 7–8 \| pages = 913–6 \| year = 1991 \| pmid = 1784830 \| doi = 10.1016/0923-2508(91)90073-J \| citeseerx = 10.1.1.637.3244 }}</ref> The first referenced book chapter where ''in silico'' appears was written by Hans B. Sieburg in 1990 and presented during a Summer School on Complex Systems at the Santa Fe Institute.<ref name=Sieburg>{{Citation\| last1 = Sieburg \| first1 = H.B. \| year = 1990 \| title = Physiological Studies ''in silico'' \| journal = Studies in the Sciences of Complexity \| volume = 12 \| pages = 321–342 }}</ref>		''In silico'' has been used in [[white paper]]s written to support the creation of bacterial genome programs by the Commission of the European Community. The first referenced paper where ''in silico'' appears was written by a French team in 1991.<ref name=Danchin>{{Citation\| last1 = Danchin \| first1 = A \| last2 = Médigue \| first2 = C \| last3 = Gascuel \| first3 = O \| last4 = Soldano \| first4 = H \| last5 = Hénaut \| first5 = A \| title = From data banks to data bases \| journal = Research in Microbiology \| volume = 142 \| issue = 7–8 \| pages = 913–6 \| year = 1991 \| pmid = 1784830 \| doi = 10.1016/0923-2508(91)90073-J \| citeseerx = 10.1.1.637.3244 }}</ref> The first referenced book chapter where ''in silico'' appears was written by Hans B. Sieburg in 1990 and presented during a Summer School on Complex Systems at the Santa Fe Institute.<ref name=Sieburg>{{Citation\| last1 = Sieburg \| first1 = H.B. \| year = 1990 \| title = Physiological Studies ''in silico'' \| journal = Studies in the Sciences of Complexity \| volume = 12 \| pages = 321–342 }}</ref>

CrafterNova: +using software

2024-01-13T12:21:38Z

+using software

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	[[File:Forest of synthetic pyramidal dendrites grown using Cajal's laws of neuronal branching.png\|thumb\|A forest of synthetic [[pyramidal cell\|pyramidal]] [[dendrite]]s generated ''in silico'' using [[Santiago Ramón y Cajal\|Cajal]]'s laws of neuronal branching]]		[[File:Forest of synthetic pyramidal dendrites grown using Cajal's laws of neuronal branching.png\|thumb\|A forest of synthetic [[pyramidal cell\|pyramidal]] [[dendrite]]s generated ''in silico'' using [[Santiago Ramón y Cajal\|Cajal]]'s laws of neuronal branching]]

	In [[biology]] and other experimental sciences, an '''''in silico''''' experiment is one performed on a computer or via [[computer simulation]]. The phrase is [[pseudo-Latin]] for 'in silicon' (correct {{lang-la\|in silicio}}), referring to [[silicon]] in computer chips. It was coined in 1987 as an allusion to the [[Latin phrase]]s {{lang\|la\|[[in vivo]]}}, {{lang\|la\|[[in vitro]]}}, and {{lang\|la\|[[in situ]]}}, which are commonly used in [[biology]] (especially [[systems biology]]). The latter phrases refer, respectively, to experiments done in living organisms, outside living organisms, and where they are found in nature.		In [[biology]] and other experimental sciences, an '''''in silico''''' experiment is one performed on a computer or via [[computer simulation]] software. The phrase is [[pseudo-Latin]] for 'in silicon' (correct {{lang-la\|in silicio}}), referring to [[silicon]] in computer chips. It was coined in 1987 as an allusion to the [[Latin phrase]]s {{lang\|la\|[[in vivo]]}}, {{lang\|la\|[[in vitro]]}}, and {{lang\|la\|[[in situ]]}}, which are commonly used in [[biology]] (especially [[systems biology]]). The latter phrases refer, respectively, to experiments done in living organisms, outside living organisms, and where they are found in nature.

	==History==		==History==

CrafterNova: wording fix

2024-01-13T12:20:43Z

wording fix

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	[[File:Forest of synthetic pyramidal dendrites grown using Cajal's laws of neuronal branching.png\|thumb\|A forest of synthetic [[pyramidal cell\|pyramidal]] [[dendrite]]s generated ''in silico'' using [[Santiago Ramón y Cajal\|Cajal]]'s laws of neuronal branching]]		[[File:Forest of synthetic pyramidal dendrites grown using Cajal's laws of neuronal branching.png\|thumb\|A forest of synthetic [[pyramidal cell\|pyramidal]] [[dendrite]]s generated ''in silico'' using [[Santiago Ramón y Cajal\|Cajal]]'s laws of neuronal branching]]

	In [[biology]] and other experimental sciences, an '''''in silico''''' experiment is one performed on computer or via [[computer simulation]]. The phrase is [[pseudo-Latin]] for 'in silicon' (correct {{lang-la\|in silicio}}), referring to [[silicon]] in computer chips. It was coined in 1987 as an allusion to the [[Latin phrase]]s {{lang\|la\|[[in vivo]]}}, {{lang\|la\|[[in vitro]]}}, and {{lang\|la\|[[in situ]]}}, which are commonly used in [[biology]] (especially [[systems biology]]). The latter phrases refer, respectively, to experiments done in living organisms, outside living organisms, and where they are found in nature.		In [[biology]] and other experimental sciences, an '''''in silico''''' experiment is one performed on a computer or via [[computer simulation]]. The phrase is [[pseudo-Latin]] for 'in silicon' (correct {{lang-la\|in silicio}}), referring to [[silicon]] in computer chips. It was coined in 1987 as an allusion to the [[Latin phrase]]s {{lang\|la\|[[in vivo]]}}, {{lang\|la\|[[in vitro]]}}, and {{lang\|la\|[[in situ]]}}, which are commonly used in [[biology]] (especially [[systems biology]]). The latter phrases refer, respectively, to experiments done in living organisms, outside living organisms, and where they are found in nature.

	==History==		==History==

Mazewaxie: formatting

2024-01-01T15:11:14Z

formatting

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	{{Short description\|Latin phrase referring to computer simulations}}		{{Short description\|Latin phrase referring to computer simulations}}
⚫	{{italic title}}
	{{Other uses}}		{{Other uses}}
		⚫	{{italic title}}
	[[File:Forest of synthetic pyramidal dendrites grown using Cajal's laws of neuronal branching.png\|thumb\|A forest of synthetic [[pyramidal cell\|pyramidal]] [[dendrite]]s generated ''in silico'' using [[Santiago Ramón y Cajal\|Cajal]]'s laws of neuronal branching]]		[[File:Forest of synthetic pyramidal dendrites grown using Cajal's laws of neuronal branching.png\|thumb\|A forest of synthetic [[pyramidal cell\|pyramidal]] [[dendrite]]s generated ''in silico'' using [[Santiago Ramón y Cajal\|Cajal]]'s laws of neuronal branching]]

Citation bot: Add: doi-access. | Use this bot. Report bugs. | #UCB_CommandLine

2023-12-03T19:26:16Z

Add: doi-access. | Use this bot. Report bugs. | #UCB_CommandLine

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	==Cell models==		==Cell models==

	Efforts have been made to establish computer models of cellular behavior. For example, in 2007 researchers developed an in silico model of [[tuberculosis]] to aid in drug discovery, with the prime benefit of its being faster than real time simulated growth rates, allowing phenomena of interest to be observed in minutes rather than months.<ref>University Of Surrey. June 25, 2007. [https://www.sciencedaily.com/releases/2007/06/070624135714.htm In Silico Cell For TB Drug Discovery]. ''ScienceDaily''. Retrieved February 12, 2010.</ref> More work can be found that focus on modeling a particular cellular process such as the growth cycle of ''[[Caulobacter crescentus]]''.<ref>{{cite journal \| last1 = Li \| first1 = S \| last2 = Brazhnik \| first2 = P \| last3 = Sobral \| first3 = B \| last4 = Tyson \| first4 = JJ \| author4-link = John J. Tyson \| year = 2009 \| title = Temporal Controls of the Asymmetric Cell Division Cycle in Caulobacter crescentus \| journal = PLOS Comput Biol \| volume = 5 \| issue = 8\| page = e1000463 \| doi = 10.1371/journal.pcbi.1000463 \| pmid = 19680425 \| pmc = 2714070 \| bibcode = 2009PLSCB...5E0463L }}</ref>		Efforts have been made to establish computer models of cellular behavior. For example, in 2007 researchers developed an in silico model of [[tuberculosis]] to aid in drug discovery, with the prime benefit of its being faster than real time simulated growth rates, allowing phenomena of interest to be observed in minutes rather than months.<ref>University Of Surrey. June 25, 2007. [https://www.sciencedaily.com/releases/2007/06/070624135714.htm In Silico Cell For TB Drug Discovery]. ''ScienceDaily''. Retrieved February 12, 2010.</ref> More work can be found that focus on modeling a particular cellular process such as the growth cycle of ''[[Caulobacter crescentus]]''.<ref>{{cite journal \| last1 = Li \| first1 = S \| last2 = Brazhnik \| first2 = P \| last3 = Sobral \| first3 = B \| last4 = Tyson \| first4 = JJ \| author4-link = John J. Tyson \| year = 2009 \| title = Temporal Controls of the Asymmetric Cell Division Cycle in Caulobacter crescentus \| journal = PLOS Comput Biol \| volume = 5 \| issue = 8\| page = e1000463 \| doi = 10.1371/journal.pcbi.1000463 \| pmid = 19680425 \| pmc = 2714070 \| bibcode = 2009PLSCB...5E0463L \| doi-access = free }}</ref>

	These efforts fall far short of an exact, fully predictive computer model of a cell's entire behavior. Limitations in the understanding of [[molecular dynamics]] and [[cell biology]], as well as the absence of available computer processing power, force large simplifying assumptions that constrain the usefulness of present in silico cell models.		These efforts fall far short of an exact, fully predictive computer model of a cell's entire behavior. Limitations in the understanding of [[molecular dynamics]] and [[cell biology]], as well as the absence of available computer processing power, force large simplifying assumptions that constrain the usefulness of present in silico cell models.

Nedmath: /* Cell models */ added commas to improve readability

2023-08-14T16:27:42Z

Cell models: added commas to improve readability

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	Efforts have been made to establish computer models of cellular behavior. For example, in 2007 researchers developed an in silico model of [[tuberculosis]] to aid in drug discovery, with the prime benefit of its being faster than real time simulated growth rates, allowing phenomena of interest to be observed in minutes rather than months.<ref>University Of Surrey. June 25, 2007. [https://www.sciencedaily.com/releases/2007/06/070624135714.htm In Silico Cell For TB Drug Discovery]. ''ScienceDaily''. Retrieved February 12, 2010.</ref> More work can be found that focus on modeling a particular cellular process such as the growth cycle of ''[[Caulobacter crescentus]]''.<ref>{{cite journal \| last1 = Li \| first1 = S \| last2 = Brazhnik \| first2 = P \| last3 = Sobral \| first3 = B \| last4 = Tyson \| first4 = JJ \| author4-link = John J. Tyson \| year = 2009 \| title = Temporal Controls of the Asymmetric Cell Division Cycle in Caulobacter crescentus \| journal = PLOS Comput Biol \| volume = 5 \| issue = 8\| page = e1000463 \| doi = 10.1371/journal.pcbi.1000463 \| pmid = 19680425 \| pmc = 2714070 \| bibcode = 2009PLSCB...5E0463L }}</ref>		Efforts have been made to establish computer models of cellular behavior. For example, in 2007 researchers developed an in silico model of [[tuberculosis]] to aid in drug discovery, with the prime benefit of its being faster than real time simulated growth rates, allowing phenomena of interest to be observed in minutes rather than months.<ref>University Of Surrey. June 25, 2007. [https://www.sciencedaily.com/releases/2007/06/070624135714.htm In Silico Cell For TB Drug Discovery]. ''ScienceDaily''. Retrieved February 12, 2010.</ref> More work can be found that focus on modeling a particular cellular process such as the growth cycle of ''[[Caulobacter crescentus]]''.<ref>{{cite journal \| last1 = Li \| first1 = S \| last2 = Brazhnik \| first2 = P \| last3 = Sobral \| first3 = B \| last4 = Tyson \| first4 = JJ \| author4-link = John J. Tyson \| year = 2009 \| title = Temporal Controls of the Asymmetric Cell Division Cycle in Caulobacter crescentus \| journal = PLOS Comput Biol \| volume = 5 \| issue = 8\| page = e1000463 \| doi = 10.1371/journal.pcbi.1000463 \| pmid = 19680425 \| pmc = 2714070 \| bibcode = 2009PLSCB...5E0463L }}</ref>

	These efforts fall far short of an exact, fully predictive computer model of a cell's entire behavior. Limitations in the understanding of [[molecular dynamics]] and [[cell biology]] as well as the absence of available computer processing power force large simplifying assumptions that constrain the usefulness of present in silico cell models.		These efforts fall far short of an exact, fully predictive computer model of a cell's entire behavior. Limitations in the understanding of [[molecular dynamics]] and [[cell biology]], as well as the absence of available computer processing power, force large simplifying assumptions that constrain the usefulness of present in silico cell models.

	==Genetics==		==Genetics==

MrOllie: Restored revision 1127330906 by InternetArchiveBot (talk): Predatory publisher

2023-07-27T12:35:08Z

Restored revision 1127330906 by InternetArchiveBot (talk): Predatory publisher

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	* Validation of taxonomic assignment steps in herbivore metagenomics study.<ref>{{cite journal \|last1=Chua \|first1=Physilia Y. S. \|last2=Crampton-Platt \|first2=Alex \|last3=Lammers \|first3=Youri \|last4=Alsos \|first4=Inger G. \|last5=Boessenkool \|first5=Sanne \|last6=Bohmann \|first6=Kristine \|title=Metagenomics: A viable tool for reconstructing herbivore diet \|journal=Molecular Ecology Resources \|year=2021 \|volume=21 \|issue=7 \|pages=2249–2263 \|doi=10.1111/1755-0998.13425 \|pmc=8518049\|pmid=33971086 \|doi-access=free }}</ref>		* Validation of taxonomic assignment steps in herbivore metagenomics study.<ref>{{cite journal \|last1=Chua \|first1=Physilia Y. S. \|last2=Crampton-Platt \|first2=Alex \|last3=Lammers \|first3=Youri \|last4=Alsos \|first4=Inger G. \|last5=Boessenkool \|first5=Sanne \|last6=Bohmann \|first6=Kristine \|title=Metagenomics: A viable tool for reconstructing herbivore diet \|journal=Molecular Ecology Resources \|year=2021 \|volume=21 \|issue=7 \|pages=2249–2263 \|doi=10.1111/1755-0998.13425 \|pmc=8518049\|pmid=33971086 \|doi-access=free }}</ref>
	* Protein design. One example is RosettaDesign, a software package under development and free for academic use.<ref>{{Citation \|title=RosettaDesign server for protein design \|journal=Nucleic Acids Research \|volume=34 \|issue=Web Server issue \|pages=W235–8 \|date=July 2006 \|pmc=1538902 \|doi=10.1093/nar/gkl163 \|pmid=16845000 \|last1=Liu \|first1=Y \|last2=Kuhlman \|first2=B}}</ref><ref>{{Citation \|doi=10.1016/S0022-2836(03)00888-X \|title=A Large Scale Test of Computational Protein Design: Folding and Stability of Nine Completely Redesigned Globular Proteins \|year=2003 \|last1=Dantas \|first1=Gautam \|last2=Kuhlman \|first2=Brian \|last3=Callender \|first3=David \|last4=Wong \|first4=Michelle \|last5=Baker \|first5=David \|journal=Journal of Molecular Biology \|volume=332 \|pages=449–60 \|postscript=. \|pmid=12948494 \|issue=2\|citeseerx=10.1.1.66.8110 }}</ref><ref>{{Citation \|doi=10.1016/j.str.2006.02.011 \|title=High-Resolution Structural Validation of the Computational Redesign of Human U1A Protein \|year=2006 \|last1=Dobson \|first1=N \|last2=Dantas \|first2=G \|last3=Baker \|first3=D \|last4=Varani \|first4=G \|journal=Structure \|volume=14 \|pages=847–56 \|postscript=. \|pmid=16698546 \|issue=5\|doi-access=free }}</ref><ref>{{Citation \|doi=10.1016/j.jmb.2006.11.080 \|title=High-resolution Structural and Thermodynamic Analysis of Extreme Stabilization of Human Procarboxypeptidase by Computational Protein Design \|year=2007 \|last1=Dantas \|first1=G \|last2=Corrent \|first2=C \|last3=Reichow \|first3=S \|last4=Havranek \|first4=J \|last5=Eletr \|first5=Z \|last6=Isern \|first6=N \|last7=Kuhlman \|first7=B \|last8=Varani \|first8=G \|last9=Merritt \|first9=E \|last10=Baker \|first10=David \|journal=Journal of Molecular Biology \|volume=366 \|pages=1209–21 \|postscript=. \|pmid=17196978 \|issue=4\|display-authors=8 \|pmc=3764424 }}</ref>		* Protein design. One example is RosettaDesign, a software package under development and free for academic use.<ref>{{Citation \|title=RosettaDesign server for protein design \|journal=Nucleic Acids Research \|volume=34 \|issue=Web Server issue \|pages=W235–8 \|date=July 2006 \|pmc=1538902 \|doi=10.1093/nar/gkl163 \|pmid=16845000 \|last1=Liu \|first1=Y \|last2=Kuhlman \|first2=B}}</ref><ref>{{Citation \|doi=10.1016/S0022-2836(03)00888-X \|title=A Large Scale Test of Computational Protein Design: Folding and Stability of Nine Completely Redesigned Globular Proteins \|year=2003 \|last1=Dantas \|first1=Gautam \|last2=Kuhlman \|first2=Brian \|last3=Callender \|first3=David \|last4=Wong \|first4=Michelle \|last5=Baker \|first5=David \|journal=Journal of Molecular Biology \|volume=332 \|pages=449–60 \|postscript=. \|pmid=12948494 \|issue=2\|citeseerx=10.1.1.66.8110 }}</ref><ref>{{Citation \|doi=10.1016/j.str.2006.02.011 \|title=High-Resolution Structural Validation of the Computational Redesign of Human U1A Protein \|year=2006 \|last1=Dobson \|first1=N \|last2=Dantas \|first2=G \|last3=Baker \|first3=D \|last4=Varani \|first4=G \|journal=Structure \|volume=14 \|pages=847–56 \|postscript=. \|pmid=16698546 \|issue=5\|doi-access=free }}</ref><ref>{{Citation \|doi=10.1016/j.jmb.2006.11.080 \|title=High-resolution Structural and Thermodynamic Analysis of Extreme Stabilization of Human Procarboxypeptidase by Computational Protein Design \|year=2007 \|last1=Dantas \|first1=G \|last2=Corrent \|first2=C \|last3=Reichow \|first3=S \|last4=Havranek \|first4=J \|last5=Eletr \|first5=Z \|last6=Isern \|first6=N \|last7=Kuhlman \|first7=B \|last8=Varani \|first8=G \|last9=Merritt \|first9=E \|last10=Baker \|first10=David \|journal=Journal of Molecular Biology \|volume=366 \|pages=1209–21 \|postscript=. \|pmid=17196978 \|issue=4\|display-authors=8 \|pmc=3764424 }}</ref>
	* Models of the cancer and the tumor microenvironment <ref>{{cite journal \|vauthors=Reyes-Aldasoro, CC \|year=2023\| title=Modelling the Tumour Microenvironment, but What Exactly Do We Mean by “Model”? \| journal=Cancers\| url=https://www.mdpi.com/2072-6694/15/15/3796\| volume=15\|issue=15 \| pages=3796 \| doi=10.3390/cancers15153796 \| date=2023 }}</ref>.

	==See also==		==See also==

84.67.8.88: /* Other examples */ Add references to cancer and tumor microenvironment

2023-07-27T11:19:33Z

Other examples: Add references to cancer and tumor microenvironment

← Previous revision		Revision as of 11:19, 27 July 2023
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	* Validation of taxonomic assignment steps in herbivore metagenomics study.<ref>{{cite journal \|last1=Chua \|first1=Physilia Y. S. \|last2=Crampton-Platt \|first2=Alex \|last3=Lammers \|first3=Youri \|last4=Alsos \|first4=Inger G. \|last5=Boessenkool \|first5=Sanne \|last6=Bohmann \|first6=Kristine \|title=Metagenomics: A viable tool for reconstructing herbivore diet \|journal=Molecular Ecology Resources \|year=2021 \|volume=21 \|issue=7 \|pages=2249–2263 \|doi=10.1111/1755-0998.13425 \|pmc=8518049\|pmid=33971086 \|doi-access=free }}</ref>		* Validation of taxonomic assignment steps in herbivore metagenomics study.<ref>{{cite journal \|last1=Chua \|first1=Physilia Y. S. \|last2=Crampton-Platt \|first2=Alex \|last3=Lammers \|first3=Youri \|last4=Alsos \|first4=Inger G. \|last5=Boessenkool \|first5=Sanne \|last6=Bohmann \|first6=Kristine \|title=Metagenomics: A viable tool for reconstructing herbivore diet \|journal=Molecular Ecology Resources \|year=2021 \|volume=21 \|issue=7 \|pages=2249–2263 \|doi=10.1111/1755-0998.13425 \|pmc=8518049\|pmid=33971086 \|doi-access=free }}</ref>
	* Protein design. One example is RosettaDesign, a software package under development and free for academic use.<ref>{{Citation \|title=RosettaDesign server for protein design \|journal=Nucleic Acids Research \|volume=34 \|issue=Web Server issue \|pages=W235–8 \|date=July 2006 \|pmc=1538902 \|doi=10.1093/nar/gkl163 \|pmid=16845000 \|last1=Liu \|first1=Y \|last2=Kuhlman \|first2=B}}</ref><ref>{{Citation \|doi=10.1016/S0022-2836(03)00888-X \|title=A Large Scale Test of Computational Protein Design: Folding and Stability of Nine Completely Redesigned Globular Proteins \|year=2003 \|last1=Dantas \|first1=Gautam \|last2=Kuhlman \|first2=Brian \|last3=Callender \|first3=David \|last4=Wong \|first4=Michelle \|last5=Baker \|first5=David \|journal=Journal of Molecular Biology \|volume=332 \|pages=449–60 \|postscript=. \|pmid=12948494 \|issue=2\|citeseerx=10.1.1.66.8110 }}</ref><ref>{{Citation \|doi=10.1016/j.str.2006.02.011 \|title=High-Resolution Structural Validation of the Computational Redesign of Human U1A Protein \|year=2006 \|last1=Dobson \|first1=N \|last2=Dantas \|first2=G \|last3=Baker \|first3=D \|last4=Varani \|first4=G \|journal=Structure \|volume=14 \|pages=847–56 \|postscript=. \|pmid=16698546 \|issue=5\|doi-access=free }}</ref><ref>{{Citation \|doi=10.1016/j.jmb.2006.11.080 \|title=High-resolution Structural and Thermodynamic Analysis of Extreme Stabilization of Human Procarboxypeptidase by Computational Protein Design \|year=2007 \|last1=Dantas \|first1=G \|last2=Corrent \|first2=C \|last3=Reichow \|first3=S \|last4=Havranek \|first4=J \|last5=Eletr \|first5=Z \|last6=Isern \|first6=N \|last7=Kuhlman \|first7=B \|last8=Varani \|first8=G \|last9=Merritt \|first9=E \|last10=Baker \|first10=David \|journal=Journal of Molecular Biology \|volume=366 \|pages=1209–21 \|postscript=. \|pmid=17196978 \|issue=4\|display-authors=8 \|pmc=3764424 }}</ref>		* Protein design. One example is RosettaDesign, a software package under development and free for academic use.<ref>{{Citation \|title=RosettaDesign server for protein design \|journal=Nucleic Acids Research \|volume=34 \|issue=Web Server issue \|pages=W235–8 \|date=July 2006 \|pmc=1538902 \|doi=10.1093/nar/gkl163 \|pmid=16845000 \|last1=Liu \|first1=Y \|last2=Kuhlman \|first2=B}}</ref><ref>{{Citation \|doi=10.1016/S0022-2836(03)00888-X \|title=A Large Scale Test of Computational Protein Design: Folding and Stability of Nine Completely Redesigned Globular Proteins \|year=2003 \|last1=Dantas \|first1=Gautam \|last2=Kuhlman \|first2=Brian \|last3=Callender \|first3=David \|last4=Wong \|first4=Michelle \|last5=Baker \|first5=David \|journal=Journal of Molecular Biology \|volume=332 \|pages=449–60 \|postscript=. \|pmid=12948494 \|issue=2\|citeseerx=10.1.1.66.8110 }}</ref><ref>{{Citation \|doi=10.1016/j.str.2006.02.011 \|title=High-Resolution Structural Validation of the Computational Redesign of Human U1A Protein \|year=2006 \|last1=Dobson \|first1=N \|last2=Dantas \|first2=G \|last3=Baker \|first3=D \|last4=Varani \|first4=G \|journal=Structure \|volume=14 \|pages=847–56 \|postscript=. \|pmid=16698546 \|issue=5\|doi-access=free }}</ref><ref>{{Citation \|doi=10.1016/j.jmb.2006.11.080 \|title=High-resolution Structural and Thermodynamic Analysis of Extreme Stabilization of Human Procarboxypeptidase by Computational Protein Design \|year=2007 \|last1=Dantas \|first1=G \|last2=Corrent \|first2=C \|last3=Reichow \|first3=S \|last4=Havranek \|first4=J \|last5=Eletr \|first5=Z \|last6=Isern \|first6=N \|last7=Kuhlman \|first7=B \|last8=Varani \|first8=G \|last9=Merritt \|first9=E \|last10=Baker \|first10=David \|journal=Journal of Molecular Biology \|volume=366 \|pages=1209–21 \|postscript=. \|pmid=17196978 \|issue=4\|display-authors=8 \|pmc=3764424 }}</ref>
			* Models of the cancer and the tumor microenvironment <ref>{{cite journal \|vauthors=Reyes-Aldasoro, CC \|year=2023\| title=Modelling the Tumour Microenvironment, but What Exactly Do We Mean by “Model”? \| journal=Cancers\| url=https://www.mdpi.com/2072-6694/15/15/3796\| volume=15\|issue=15 \| pages=3796 \| doi=10.3390/cancers15153796 \| date=2023 }}</ref>.

	==See also==		==See also==