RapamycinFungusV1, Main, Exploration, bibRecord, 000C81

Inferring causal metabolic signals that regulate the dynamic TORC1-dependent transcriptome.

Identifieur interne : 000C81 ( Main/Exploration ); précédent : 000C80; suivant : 000C82

Inferring causal metabolic signals that regulate the dynamic TORC1-dependent transcriptome.

Auteurs : Ana Paula Oliveira [Suisse] ; Sotiris Dimopoulos [Suisse] ; Alberto Giovanni Busetto [Suisse] ; Stefan Christen [Suisse] ; Reinhard Dechant [Suisse] ; Laura Falter [Suisse] ; Morteza Haghir Chehreghani [Suisse] ; Szymon Jozefczuk [Suisse] ; Christina Ludwig [Suisse] ; Florian Rudroff [Suisse] ; Juliane Caroline Schulz [Suisse] ; Asier González [Suisse] ; Alexandre Soulard [France] ; Daniele Stracka [Suisse] ; Ruedi Aebersold [Suisse] ; Joachim M. Buhmann [Suisse] ; Michael N. Hall [Suisse] ; Matthias Peter [Suisse] ; Uwe Sauer [Suisse] ; Jörg Stelling [Suisse]

Source :

Molecular systems biology [ 1744-4292 ] ; 2015.

RBID : pubmed:25888284

Descripteurs français

KwdFr :
- ARN fongique (biosynthèse), ARN fongique (génétique), Acide glutamique (métabolisme), Azote (métabolisme), Causalité (MeSH), Cycle cellulaire (MeSH), Facteurs de transcription (métabolisme), Glutamine (métabolisme), Milieux de culture (pharmacologie), Modèles biologiques (MeSH), Métabolome (MeSH), Probabilité (MeSH), Protéines de Saccharomyces cerevisiae (métabolisme), Protéome (MeSH), Régulation de l'expression des gènes fongiques (MeSH), Saccharomyces cerevisiae (effets des médicaments et des substances chimiques), Saccharomyces cerevisiae (métabolisme), Simulation numérique (MeSH), Transcriptome (MeSH), Transduction du signal (MeSH).
MESH :
- biosynthèse : ARN fongique.
- effets des médicaments et des substances chimiques : Saccharomyces cerevisiae.
- génétique : ARN fongique.
- métabolisme : Acide glutamique, Azote, Facteurs de transcription, Glutamine, Protéines de Saccharomyces cerevisiae, Saccharomyces cerevisiae.
- pharmacologie : Milieux de culture.
- Causalité, Cycle cellulaire, Modèles biologiques, Métabolome, Probabilité, Protéome, Régulation de l'expression des gènes fongiques, Simulation numérique, Transcriptome, Transduction du signal.

English descriptors

KwdEn :
- Causality (MeSH), Cell Cycle (MeSH), Computer Simulation (MeSH), Culture Media (pharmacology), Gene Expression Regulation, Fungal (MeSH), Glutamic Acid (metabolism), Glutamine (metabolism), Metabolome (MeSH), Models, Biological (MeSH), Nitrogen (metabolism), Probability (MeSH), Proteome (MeSH), RNA, Fungal (biosynthesis), RNA, Fungal (genetics), Saccharomyces cerevisiae (drug effects), Saccharomyces cerevisiae (metabolism), Saccharomyces cerevisiae Proteins (metabolism), Signal Transduction (MeSH), Transcription Factors (metabolism), Transcriptome (MeSH).
MESH :
- chemical , biosynthesis : RNA, Fungal.
- chemical , genetics : RNA, Fungal.
- chemical , metabolism : Glutamic Acid, Glutamine, Nitrogen, Saccharomyces cerevisiae Proteins, Transcription Factors.
- chemical , pharmacology : Culture Media.
- drug effects : Saccharomyces cerevisiae.
- metabolism : Saccharomyces cerevisiae.
- Causality, Cell Cycle, Computer Simulation, Gene Expression Regulation, Fungal, Metabolome, Models, Biological, Probability, Proteome, Signal Transduction, Transcriptome.

Abstract

Cells react to nutritional cues in changing environments via the integrated action of signaling, transcriptional, and metabolic networks. Mechanistic insight into signaling processes is often complicated because ubiquitous feedback loops obscure causal relationships. Consequently, the endogenous inputs of many nutrient signaling pathways remain unknown. Recent advances for system-wide experimental data generation have facilitated the quantification of signaling systems, but the integration of multi-level dynamic data remains challenging. Here, we co-designed dynamic experiments and a probabilistic, model-based method to infer causal relationships between metabolism, signaling, and gene regulation. We analyzed the dynamic regulation of nitrogen metabolism by the target of rapamycin complex 1 (TORC1) pathway in budding yeast. Dynamic transcriptomic, proteomic, and metabolomic measurements along shifts in nitrogen quality yielded a consistent dataset that demonstrated extensive re-wiring of cellular networks during adaptation. Our inference method identified putative downstream targets of TORC1 and putative metabolic inputs of TORC1, including the hypothesized glutamine signal. The work provides a basis for further mechanistic studies of nitrogen metabolism and a general computational framework to study cellular processes.

DOI: 10.15252/msb.20145475
PubMed: 25888284
PubMed Central: PMC4422559

Affiliations:

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Le document en format XML

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<author><name sortKey="Aebersold, Ruedi" sort="Aebersold, Ruedi" uniqKey="Aebersold R" first="Ruedi" last="Aebersold">Ruedi Aebersold</name>
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<author><name sortKey="Peter, Matthias" sort="Peter, Matthias" uniqKey="Peter M" first="Matthias" last="Peter">Matthias Peter</name>
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<sourceDesc><biblStruct><analytic><title xml:lang="en">Inferring causal metabolic signals that regulate the dynamic TORC1-dependent transcriptome.</title>
<author><name sortKey="Oliveira, Ana Paula" sort="Oliveira, Ana Paula" uniqKey="Oliveira A" first="Ana Paula" last="Oliveira">Ana Paula Oliveira</name>
<affiliation wicri:level="1"><nlm:affiliation>Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland.</nlm:affiliation>
<country xml:lang="fr">Suisse</country>
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<author><name sortKey="Dimopoulos, Sotiris" sort="Dimopoulos, Sotiris" uniqKey="Dimopoulos S" first="Sotiris" last="Dimopoulos">Sotiris Dimopoulos</name>
<affiliation wicri:level="1"><nlm:affiliation>Department of Biosystems Science and Engineering and SIB Swiss Institute of Bioinformatics, ETH Zurich, Basel, Switzerland.</nlm:affiliation>
<country xml:lang="fr">Suisse</country>
<wicri:regionArea>Department of Biosystems Science and Engineering and SIB Swiss Institute of Bioinformatics, ETH Zurich, Basel</wicri:regionArea>
<wicri:noRegion>Basel</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Busetto, Alberto Giovanni" sort="Busetto, Alberto Giovanni" uniqKey="Busetto A" first="Alberto Giovanni" last="Busetto">Alberto Giovanni Busetto</name>
<affiliation wicri:level="1"><nlm:affiliation>Department of Computer Science, ETH Zurich, Zurich, Switzerland.</nlm:affiliation>
<country xml:lang="fr">Suisse</country>
<wicri:regionArea>Department of Computer Science, ETH Zurich, Zurich</wicri:regionArea>
<wicri:noRegion>Zurich</wicri:noRegion>
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<author><name sortKey="Christen, Stefan" sort="Christen, Stefan" uniqKey="Christen S" first="Stefan" last="Christen">Stefan Christen</name>
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<country xml:lang="fr">Suisse</country>
<wicri:regionArea>Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich</wicri:regionArea>
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<author><name sortKey="Dechant, Reinhard" sort="Dechant, Reinhard" uniqKey="Dechant R" first="Reinhard" last="Dechant">Reinhard Dechant</name>
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<country xml:lang="fr">Suisse</country>
<wicri:regionArea>Department of Biology, Institute of Biochemistry, ETH Zurich, Zurich</wicri:regionArea>
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<author><name sortKey="Falter, Laura" sort="Falter, Laura" uniqKey="Falter L" first="Laura" last="Falter">Laura Falter</name>
<affiliation wicri:level="1"><nlm:affiliation>Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland.</nlm:affiliation>
<country xml:lang="fr">Suisse</country>
<wicri:regionArea>Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich</wicri:regionArea>
<wicri:noRegion>Zurich</wicri:noRegion>
</affiliation>
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<author><name sortKey="Haghir Chehreghani, Morteza" sort="Haghir Chehreghani, Morteza" uniqKey="Haghir Chehreghani M" first="Morteza" last="Haghir Chehreghani">Morteza Haghir Chehreghani</name>
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<author><name sortKey="Jozefczuk, Szymon" sort="Jozefczuk, Szymon" uniqKey="Jozefczuk S" first="Szymon" last="Jozefczuk">Szymon Jozefczuk</name>
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<author><name sortKey="Ludwig, Christina" sort="Ludwig, Christina" uniqKey="Ludwig C" first="Christina" last="Ludwig">Christina Ludwig</name>
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<country xml:lang="fr">Suisse</country>
<wicri:regionArea>Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich</wicri:regionArea>
<wicri:noRegion>Zurich</wicri:noRegion>
</affiliation>
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<author><name sortKey="Rudroff, Florian" sort="Rudroff, Florian" uniqKey="Rudroff F" first="Florian" last="Rudroff">Florian Rudroff</name>
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<country xml:lang="fr">Suisse</country>
<wicri:regionArea>Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich</wicri:regionArea>
<wicri:noRegion>Zurich</wicri:noRegion>
</affiliation>
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<author><name sortKey="Schulz, Juliane Caroline" sort="Schulz, Juliane Caroline" uniqKey="Schulz J" first="Juliane Caroline" last="Schulz">Juliane Caroline Schulz</name>
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<country xml:lang="fr">Suisse</country>
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<author><name sortKey="Gonzalez, Asier" sort="Gonzalez, Asier" uniqKey="Gonzalez A" first="Asier" last="González">Asier González</name>
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<wicri:noRegion>Basel</wicri:noRegion>
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<author><name sortKey="Soulard, Alexandre" sort="Soulard, Alexandre" uniqKey="Soulard A" first="Alexandre" last="Soulard">Alexandre Soulard</name>
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<country xml:lang="fr">France</country>
<wicri:regionArea>Biozentrum, University of Basel, Basel, Switzerland UMR5240 MAP, Université Lyon 1, Villeurbanne</wicri:regionArea>
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<author><name sortKey="Stracka, Daniele" sort="Stracka, Daniele" uniqKey="Stracka D" first="Daniele" last="Stracka">Daniele Stracka</name>
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<author><name sortKey="Aebersold, Ruedi" sort="Aebersold, Ruedi" uniqKey="Aebersold R" first="Ruedi" last="Aebersold">Ruedi Aebersold</name>
<affiliation wicri:level="4"><nlm:affiliation>Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland Faculty of Science, University of Zurich, Zurich, Switzerland.</nlm:affiliation>
<country xml:lang="fr">Suisse</country>
<wicri:regionArea>Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland Faculty of Science, University of Zurich, Zurich</wicri:regionArea>
<orgName type="university">Université de Zurich</orgName>
<placeName><settlement type="city">Zurich</settlement>
<region nuts="3" type="region">Canton de Zurich</region>
</placeName>
</affiliation>
</author>
<author><name sortKey="Buhmann, Joachim M" sort="Buhmann, Joachim M" uniqKey="Buhmann J" first="Joachim M" last="Buhmann">Joachim M. Buhmann</name>
<affiliation wicri:level="1"><nlm:affiliation>Department of Computer Science, ETH Zurich, Zurich, Switzerland.</nlm:affiliation>
<country xml:lang="fr">Suisse</country>
<wicri:regionArea>Department of Computer Science, ETH Zurich, Zurich</wicri:regionArea>
<wicri:noRegion>Zurich</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Hall, Michael N" sort="Hall, Michael N" uniqKey="Hall M" first="Michael N" last="Hall">Michael N. Hall</name>
<affiliation wicri:level="1"><nlm:affiliation>Biozentrum, University of Basel, Basel, Switzerland.</nlm:affiliation>
<country xml:lang="fr">Suisse</country>
<wicri:regionArea>Biozentrum, University of Basel, Basel</wicri:regionArea>
<wicri:noRegion>Basel</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Peter, Matthias" sort="Peter, Matthias" uniqKey="Peter M" first="Matthias" last="Peter">Matthias Peter</name>
<affiliation wicri:level="1"><nlm:affiliation>Department of Biology, Institute of Biochemistry, ETH Zurich, Zurich, Switzerland.</nlm:affiliation>
<country xml:lang="fr">Suisse</country>
<wicri:regionArea>Department of Biology, Institute of Biochemistry, ETH Zurich, Zurich</wicri:regionArea>
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</affiliation>
</author>
<author><name sortKey="Sauer, Uwe" sort="Sauer, Uwe" uniqKey="Sauer U" first="Uwe" last="Sauer">Uwe Sauer</name>
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<country wicri:rule="url">Suisse</country>
<wicri:regionArea>Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich</wicri:regionArea>
<wicri:noRegion>Zurich</wicri:noRegion>
</affiliation>
</author>
<author><name sortKey="Stelling, Jorg" sort="Stelling, Jorg" uniqKey="Stelling J" first="Jörg" last="Stelling">Jörg Stelling</name>
<affiliation wicri:level="1"><nlm:affiliation>Department of Biosystems Science and Engineering and SIB Swiss Institute of Bioinformatics, ETH Zurich, Basel, Switzerland sauer@ethz.ch joerg.stelling@bsse.ethz.ch.</nlm:affiliation>
<country wicri:rule="url">Suisse</country>
<wicri:regionArea>Department of Biosystems Science and Engineering and SIB Swiss Institute of Bioinformatics, ETH Zurich, Basel</wicri:regionArea>
<wicri:noRegion>Basel</wicri:noRegion>
</affiliation>
</author>
</analytic>
<series><title level="j">Molecular systems biology</title>
<idno type="eISSN">1744-4292</idno>
<imprint><date when="2015" type="published">2015</date>
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<profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Causality (MeSH)</term>
<term>Cell Cycle (MeSH)</term>
<term>Computer Simulation (MeSH)</term>
<term>Culture Media (pharmacology)</term>
<term>Gene Expression Regulation, Fungal (MeSH)</term>
<term>Glutamic Acid (metabolism)</term>
<term>Glutamine (metabolism)</term>
<term>Metabolome (MeSH)</term>
<term>Models, Biological (MeSH)</term>
<term>Nitrogen (metabolism)</term>
<term>Probability (MeSH)</term>
<term>Proteome (MeSH)</term>
<term>RNA, Fungal (biosynthesis)</term>
<term>RNA, Fungal (genetics)</term>
<term>Saccharomyces cerevisiae (drug effects)</term>
<term>Saccharomyces cerevisiae (metabolism)</term>
<term>Saccharomyces cerevisiae Proteins (metabolism)</term>
<term>Signal Transduction (MeSH)</term>
<term>Transcription Factors (metabolism)</term>
<term>Transcriptome (MeSH)</term>
</keywords>
<keywords scheme="KwdFr" xml:lang="fr"><term>ARN fongique (biosynthèse)</term>
<term>ARN fongique (génétique)</term>
<term>Acide glutamique (métabolisme)</term>
<term>Azote (métabolisme)</term>
<term>Causalité (MeSH)</term>
<term>Cycle cellulaire (MeSH)</term>
<term>Facteurs de transcription (métabolisme)</term>
<term>Glutamine (métabolisme)</term>
<term>Milieux de culture (pharmacologie)</term>
<term>Modèles biologiques (MeSH)</term>
<term>Métabolome (MeSH)</term>
<term>Probabilité (MeSH)</term>
<term>Protéines de Saccharomyces cerevisiae (métabolisme)</term>
<term>Protéome (MeSH)</term>
<term>Régulation de l'expression des gènes fongiques (MeSH)</term>
<term>Saccharomyces cerevisiae (effets des médicaments et des substances chimiques)</term>
<term>Saccharomyces cerevisiae (métabolisme)</term>
<term>Simulation numérique (MeSH)</term>
<term>Transcriptome (MeSH)</term>
<term>Transduction du signal (MeSH)</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="biosynthesis" xml:lang="en"><term>RNA, Fungal</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>RNA, Fungal</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="metabolism" xml:lang="en"><term>Glutamic Acid</term>
<term>Glutamine</term>
<term>Nitrogen</term>
<term>Saccharomyces cerevisiae Proteins</term>
<term>Transcription Factors</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="pharmacology" xml:lang="en"><term>Culture Media</term>
</keywords>
<keywords scheme="MESH" qualifier="biosynthèse" xml:lang="fr"><term>ARN fongique</term>
</keywords>
<keywords scheme="MESH" qualifier="drug effects" xml:lang="en"><term>Saccharomyces cerevisiae</term>
</keywords>
<keywords scheme="MESH" qualifier="effets des médicaments et des substances chimiques" xml:lang="fr"><term>Saccharomyces cerevisiae</term>
</keywords>
<keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>ARN fongique</term>
</keywords>
<keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Saccharomyces cerevisiae</term>
</keywords>
<keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>Acide glutamique</term>
<term>Azote</term>
<term>Facteurs de transcription</term>
<term>Glutamine</term>
<term>Protéines de Saccharomyces cerevisiae</term>
<term>Saccharomyces cerevisiae</term>
</keywords>
<keywords scheme="MESH" qualifier="pharmacologie" xml:lang="fr"><term>Milieux de culture</term>
</keywords>
<keywords scheme="MESH" xml:lang="en"><term>Causality</term>
<term>Cell Cycle</term>
<term>Computer Simulation</term>
<term>Gene Expression Regulation, Fungal</term>
<term>Metabolome</term>
<term>Models, Biological</term>
<term>Probability</term>
<term>Proteome</term>
<term>Signal Transduction</term>
<term>Transcriptome</term>
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<keywords scheme="MESH" xml:lang="fr"><term>Causalité</term>
<term>Cycle cellulaire</term>
<term>Modèles biologiques</term>
<term>Métabolome</term>
<term>Probabilité</term>
<term>Protéome</term>
<term>Régulation de l'expression des gènes fongiques</term>
<term>Simulation numérique</term>
<term>Transcriptome</term>
<term>Transduction du signal</term>
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<front><div type="abstract" xml:lang="en">Cells react to nutritional cues in changing environments via the integrated action of signaling, transcriptional, and metabolic networks. Mechanistic insight into signaling processes is often complicated because ubiquitous feedback loops obscure causal relationships. Consequently, the endogenous inputs of many nutrient signaling pathways remain unknown. Recent advances for system-wide experimental data generation have facilitated the quantification of signaling systems, but the integration of multi-level dynamic data remains challenging. Here, we co-designed dynamic experiments and a probabilistic, model-based method to infer causal relationships between metabolism, signaling, and gene regulation. We analyzed the dynamic regulation of nitrogen metabolism by the target of rapamycin complex 1 (TORC1) pathway in budding yeast. Dynamic transcriptomic, proteomic, and metabolomic measurements along shifts in nitrogen quality yielded a consistent dataset that demonstrated extensive re-wiring of cellular networks during adaptation. Our inference method identified putative downstream targets of TORC1 and putative metabolic inputs of TORC1, including the hypothesized glutamine signal. The work provides a basis for further mechanistic studies of nitrogen metabolism and a general computational framework to study cellular processes. </div>
</front>
</TEI>
<pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">25888284</PMID>
<DateCompleted><Year>2016</Year>
<Month>01</Month>
<Day>01</Day>
</DateCompleted>
<DateRevised><Year>2018</Year>
<Month>11</Month>
<Day>13</Day>
</DateRevised>
<Article PubModel="Electronic"><Journal><ISSN IssnType="Electronic">1744-4292</ISSN>
<JournalIssue CitedMedium="Internet"><Volume>11</Volume>
<Issue>4</Issue>
<PubDate><Year>2015</Year>
<Month>Apr</Month>
<Day>17</Day>
</PubDate>
</JournalIssue>
<Title>Molecular systems biology</Title>
<ISOAbbreviation>Mol Syst Biol</ISOAbbreviation>
</Journal>
<ArticleTitle>Inferring causal metabolic signals that regulate the dynamic TORC1-dependent transcriptome.</ArticleTitle>
<Pagination><MedlinePgn>802</MedlinePgn>
</Pagination>
<ELocationID EIdType="doi" ValidYN="Y">10.15252/msb.20145475</ELocationID>
<Abstract><AbstractText>Cells react to nutritional cues in changing environments via the integrated action of signaling, transcriptional, and metabolic networks. Mechanistic insight into signaling processes is often complicated because ubiquitous feedback loops obscure causal relationships. Consequently, the endogenous inputs of many nutrient signaling pathways remain unknown. Recent advances for system-wide experimental data generation have facilitated the quantification of signaling systems, but the integration of multi-level dynamic data remains challenging. Here, we co-designed dynamic experiments and a probabilistic, model-based method to infer causal relationships between metabolism, signaling, and gene regulation. We analyzed the dynamic regulation of nitrogen metabolism by the target of rapamycin complex 1 (TORC1) pathway in budding yeast. Dynamic transcriptomic, proteomic, and metabolomic measurements along shifts in nitrogen quality yielded a consistent dataset that demonstrated extensive re-wiring of cellular networks during adaptation. Our inference method identified putative downstream targets of TORC1 and putative metabolic inputs of TORC1, including the hypothesized glutamine signal. The work provides a basis for further mechanistic studies of nitrogen metabolism and a general computational framework to study cellular processes. </AbstractText>
<CopyrightInformation>© 2015 The Authors. Published under the terms of the CC BY 4.0 license.</CopyrightInformation>
</Abstract>
<AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Oliveira</LastName>
<ForeName>Ana Paula</ForeName>
<Initials>AP</Initials>
<AffiliationInfo><Affiliation>Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Dimopoulos</LastName>
<ForeName>Sotiris</ForeName>
<Initials>S</Initials>
<AffiliationInfo><Affiliation>Department of Biosystems Science and Engineering and SIB Swiss Institute of Bioinformatics, ETH Zurich, Basel, Switzerland.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Busetto</LastName>
<ForeName>Alberto Giovanni</ForeName>
<Initials>AG</Initials>
<AffiliationInfo><Affiliation>Department of Computer Science, ETH Zurich, Zurich, Switzerland.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Christen</LastName>
<ForeName>Stefan</ForeName>
<Initials>S</Initials>
<AffiliationInfo><Affiliation>Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Dechant</LastName>
<ForeName>Reinhard</ForeName>
<Initials>R</Initials>
<AffiliationInfo><Affiliation>Department of Biology, Institute of Biochemistry, ETH Zurich, Zurich, Switzerland.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Falter</LastName>
<ForeName>Laura</ForeName>
<Initials>L</Initials>
<AffiliationInfo><Affiliation>Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Haghir Chehreghani</LastName>
<ForeName>Morteza</ForeName>
<Initials>M</Initials>
<AffiliationInfo><Affiliation>Department of Computer Science, ETH Zurich, Zurich, Switzerland.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Jozefczuk</LastName>
<ForeName>Szymon</ForeName>
<Initials>S</Initials>
<AffiliationInfo><Affiliation>Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Ludwig</LastName>
<ForeName>Christina</ForeName>
<Initials>C</Initials>
<AffiliationInfo><Affiliation>Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Rudroff</LastName>
<ForeName>Florian</ForeName>
<Initials>F</Initials>
<AffiliationInfo><Affiliation>Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Schulz</LastName>
<ForeName>Juliane Caroline</ForeName>
<Initials>JC</Initials>
<AffiliationInfo><Affiliation>Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>González</LastName>
<ForeName>Asier</ForeName>
<Initials>A</Initials>
<AffiliationInfo><Affiliation>Biozentrum, University of Basel, Basel, Switzerland.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Soulard</LastName>
<ForeName>Alexandre</ForeName>
<Initials>A</Initials>
<AffiliationInfo><Affiliation>Biozentrum, University of Basel, Basel, Switzerland UMR5240 MAP, Université Lyon 1, Villeurbanne, France.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Stracka</LastName>
<ForeName>Daniele</ForeName>
<Initials>D</Initials>
<AffiliationInfo><Affiliation>Biozentrum, University of Basel, Basel, Switzerland.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Aebersold</LastName>
<ForeName>Ruedi</ForeName>
<Initials>R</Initials>
<AffiliationInfo><Affiliation>Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland Faculty of Science, University of Zurich, Zurich, Switzerland.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Buhmann</LastName>
<ForeName>Joachim M</ForeName>
<Initials>JM</Initials>
<AffiliationInfo><Affiliation>Department of Computer Science, ETH Zurich, Zurich, Switzerland.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Hall</LastName>
<ForeName>Michael N</ForeName>
<Initials>MN</Initials>
<AffiliationInfo><Affiliation>Biozentrum, University of Basel, Basel, Switzerland.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Peter</LastName>
<ForeName>Matthias</ForeName>
<Initials>M</Initials>
<AffiliationInfo><Affiliation>Department of Biology, Institute of Biochemistry, ETH Zurich, Zurich, Switzerland.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Sauer</LastName>
<ForeName>Uwe</ForeName>
<Initials>U</Initials>
<AffiliationInfo><Affiliation>Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland sauer@ethz.ch joerg.stelling@bsse.ethz.ch.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Stelling</LastName>
<ForeName>Jörg</ForeName>
<Initials>J</Initials>
<AffiliationInfo><Affiliation>Department of Biosystems Science and Engineering and SIB Swiss Institute of Bioinformatics, ETH Zurich, Basel, Switzerland sauer@ethz.ch joerg.stelling@bsse.ethz.ch.</Affiliation>
</AffiliationInfo>
</Author>
</AuthorList>
<Language>eng</Language>
<PublicationTypeList><PublicationType UI="D003160">Comparative Study</PublicationType>
<PublicationType UI="D016428">Journal Article</PublicationType>
<PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType>
</PublicationTypeList>
<ArticleDate DateType="Electronic"><Year>2015</Year>
<Month>04</Month>
<Day>17</Day>
</ArticleDate>
</Article>
<MedlineJournalInfo><Country>England</Country>
<MedlineTA>Mol Syst Biol</MedlineTA>
<NlmUniqueID>101235389</NlmUniqueID>
<ISSNLinking>1744-4292</ISSNLinking>
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<ChemicalList><Chemical><RegistryNumber>0</RegistryNumber>
<NameOfSubstance UI="D003470">Culture Media</NameOfSubstance>
</Chemical>
<Chemical><RegistryNumber>0</RegistryNumber>
<NameOfSubstance UI="D020543">Proteome</NameOfSubstance>
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<MeshHeading><DescriptorName UI="D002453" MajorTopicYN="N">Cell Cycle</DescriptorName>
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</MeshHeading>
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<MeshHeading><DescriptorName UI="D055442" MajorTopicYN="N">Metabolome</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D008954" MajorTopicYN="N">Models, Biological</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D009584" MajorTopicYN="N">Nitrogen</DescriptorName>
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</MeshHeading>
<MeshHeading><DescriptorName UI="D011336" MajorTopicYN="N">Probability</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D020543" MajorTopicYN="N">Proteome</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D012331" MajorTopicYN="N">RNA, Fungal</DescriptorName>
<QualifierName UI="Q000096" MajorTopicYN="Y">biosynthesis</QualifierName>
<QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D012441" MajorTopicYN="N">Saccharomyces cerevisiae</DescriptorName>
<QualifierName UI="Q000187" MajorTopicYN="N">drug effects</QualifierName>
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</MeshHeading>
<MeshHeading><DescriptorName UI="D029701" MajorTopicYN="N">Saccharomyces cerevisiae Proteins</DescriptorName>
<QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D015398" MajorTopicYN="N">Signal Transduction</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D014157" MajorTopicYN="N">Transcription Factors</DescriptorName>
<QualifierName UI="Q000378" MajorTopicYN="Y">metabolism</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D059467" MajorTopicYN="Y">Transcriptome</DescriptorName>
</MeshHeading>
</MeshHeadingList>
<KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">causal inference</Keyword>
<Keyword MajorTopicYN="N">network motifs</Keyword>
<Keyword MajorTopicYN="N">nutrient signaling</Keyword>
<Keyword MajorTopicYN="N">target of rapamycin pathway</Keyword>
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	Serveur d'exploration sur la rapamycine et les champignons
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Inferring causal metabolic signals that regulate the dynamic TORC1-dependent transcriptome.

Inferring causal metabolic signals that regulate the dynamic TORC1-dependent transcriptome.

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