S. Marguerat

发表

Dynamic repertoire of a eukaryotic transcriptome surveyed at single-nucleotide resolution

I. Goodhead, V. Wood, J. Bähler, 2008, Nature.

Cellular and Molecular Life Sciences REVIEW RNA-seq: from technology to biology

J. Bähler, S. Marguerat, 2022 .

Quantitative Analysis of Fission Yeast Transcriptomes and Proteomes in Proliferating and Quiescent Cells

R. Aebersold, J. Bähler, S. Marguerat, 2012, Cell.

Division rate, cell size and proteome allocation: impact on gene expression noise and implications for the dynamics of genetic circuits

V. Shahrezaei, S. Marguerat, F. Bertaux, 2018, Royal Society Open Science.

Division rate, cell size and proteome allocation: impact on gene expression noise and implications for the dynamics of genetic circuits

V. Shahrezaei, S. Marguerat, F. Bertaux, 2018 .

Impact of division rate and cell size on gene expression noise

V. Shahrezaei, S. Marguerat, F. Bertaux, 2017, bioRxiv.

Tuning gene expression to changing environments: from rapid responses to evolutionary adaptation

J. Bähler, S. Marguerat, Luis López-Maury, 2008, Nature Reviews Genetics.

Post-transcriptional control of gene expression: a genome-wide perspective.

Jürg Bähler, Juan Mata, Samuel Marguerat, 2005, Trends in biochemical sciences.

LaSSO, a strategy for genome-wide mapping of intronic lariats and branch points using RNA-seq

Danny A. Bitton, J. Bähler, S. Marguerat, 2014, Genome research.

The Fission Yeast Homeodomain Protein Yox1p Binds to MBF and Confines MBF-Dependent Cell-Cycle Transcription to G1-S via Negative Feedback

A. Brazma, J. Bähler, B. Wilhelm, 2009, PLoS genetics.

A simple method for directional transcriptome sequencing using Illumina technology

Thomas M. Keane, D. Turner, M. Quail, 2009, Nucleic acids research.

Next-generation sequencing: applications beyond genomes

J. Bähler, B. Wilhelm, S. Marguerat, 2008, Biochemical Society transactions.

Connecting growth with gene expression: of noise and numbers.

V. Shahrezaei, S. Marguerat, 2015, Current opinion in microbiology.

Single-cell imaging and RNA sequencing reveal patterns of gene expression heterogeneity during fission yeast growth and adaptation

V. Shahrezaei, J. Bähler, S. Marguerat, 2019, Nature Microbiology.

Single-cell phenotyping and RNA sequencing reveal novel patterns of gene expression heterogeneity and regulation during growth and stress adaptation in a unicellular eukaryote

V. Shahrezaei, J. Bähler, S. Marguerat, 2018 .

The more the merrier: comparative analysis of microarray studies on cell cycle‐regulated genes in fission yeast

L. Jensen, J. Bähler, B. Wilhelm, 2006, Yeast.

R-loops and regulatory changes in chronologically ageing fission yeast cells drive non-random patterns of genome rearrangements

V. A. Tallada, J. Bähler, S. Marguerat, 2019, bioRxiv.

Long non-coding RNA repertoire and regulation by nuclear exosome, cytoplasmic exonuclease and RNAi in fission yeast

Danny A. Bitton, J. Mata, J. Bähler, 2017, bioRxiv.

A Network of Multiple Regulatory Layers Shapes Gene Expression in Fission Yeast

J. Mata, J. Bähler, T. Preiss, 2007, Molecular cell.

Size-Dependent Increase in RNA Polymerase II Initiation Rates Mediates Gene Expression Scaling with Cell Size

V. Shahrezaei, S. Marguerat, D. Dormann, 2019, Current Biology.

Proportionality: a valid alternative to correlation for relative data

David R. Lovell, J. Bähler, S. Marguerat, 2014, bioRxiv.

A bacterial size law revealed by a coarse-grained model of cell physiology

Julius von Kügelgen, V. Shahrezaei, S. Marguerat, 2019, PLoS Comput. Biol..

A bacterial size law revealed by a coarse-grained model of cell physiology

Vahid Shahrezaei, Julius von Kügelgen, François Bertaux, 2016, bioRxiv.

Contributions of transcription and mRNA decay to gene expression dynamics of fission yeast in response to oxidative stress

A. Brazma, J. Bähler, S. Marguerat, 2014, RNA biology.

Association of human endogenous retrovirus K-18 polymorphisms with type 1 diabetes.

J. Todd, B. Conrad, S. Marguerat, 2004, Diabetes.

Protection from radiation-induced colitis requires MHC class II antigen expression by cells of hemopoietic origin.

S. Marguerat, H. Macdonald, J. Kraehenbuhl, 1999, Journal of immunology.

by Cells of Hemopoietic Origin Requires MHC Class II Antigen Expression Protection from Radiation-Induced Colitis

S. Marguerat, H. Macdonald, J. Kraehenbuhl, 1999 .

Negative thymocyte selection to HERV-K18 superantigens in humans.

B. Conrad, S. Marguerat, G. Leclercq, 2005, Blood.

Interferon-α-Induced Endogenous Superantigen: A Model Linking Environment and Autoimmunity

C. Ucla, B. Conrad, S. Marguerat, 2001 .

Interferon-alpha-induced endogenous superantigen. a model linking environment and autoimmunity.

C. Ucla, B. Conrad, S. Marguerat, 2001, Immunity.

Cohesin couples transcriptional bursting probabilities of inducible enhancers and promoters

Mohammad M. Karimi, M. Stumpf, S. Marguerat, 2022, Nature Communications.

Proof Only Proof Only The Nrd 1-like protein Seb 1 coordinates cotranscriptional 3 ′ end processing and polyadenylation site selection

J. Bähler, S. Marguerat, B. Tian, 2016 .

Thymic lineage commitment rather than selection causes genetic variations in size of CD4 and CD8 compartments.

S. Marguerat, H. Macdonald, J. V. van Meerwijk, 1998, Journal of immunology.

Homeostasis limits the development of mature CD8+ but not CD4+ thymocytes.

S. Marguerat, H. Macdonald, J. V. van Meerwijk, 1998, Journal of immunology.

Thymocytes + But Not CD 4 + CD 8 Homeostasis Limits the Development of Mature MacDonald

S. Marguerat, H. Macdonald, J. Meerwijk, 1998 .

CD4 and CD8 Compartments Selection Causes Genetic Variations in Size of Thymic Lineage Commitment Rather Than

S. Marguerat, H. Macdonald, T. Bianchi, 1998 .

Data-driven spatio-temporal modelling of glioblastoma

V. Shahrezaei, M. Lythgoe, S. Marguerat, 2022, Royal Society Open Science.

Large-scale changes of molecular network states explain complex traits

Ludovic C. Gillet, R. Aebersold, C. Workman, 2022, bioRxiv.

The wound microenvironment reprogrammes Schwann cells to invasive mesenchymal- like cells to drive peripheral nerve regeneration

S. Marguerat, M. Clements, A. Ashraf, 2017 .

The RNA exosome promotes transcription termination of backtracked RNA polymerase II

J. Bähler, S. Marguerat, J. Lemay, 2014, Nature Structural &Molecular Biology.

Natural genetic variation impacts expression levels of coding, non-coding, and antisense transcripts in fission yeast

Jürg Bähler, Stuart Martin, Andreas Beyer, 2014, Molecular systems biology.

Tuning gene expression to changing environments: from rapid responses to evolutionary adaptation

Jürg Bähler, Samuel Marguerat, J. Bähler, 2009, Nature Reviews Genetics.

bayNorm: Bayesian gene expression recovery, imputation and normalization for single-cell RNA-sequencing data

Wenhao Tang, Vahid Shahrezaei, François Bertaux, 2019, Bioinform..

bayNorm: Bayesian gene expression recovery, imputation and normalization for single-cell RNA-sequencing data

Philipp Thomas, Samuel Marguerat, Vahid Shahrezaei, 2018, bioRxiv.

Exploring long non-coding RNAs through sequencing.

J. Bähler, S. Marguerat, S. Atkinson, 2012, Seminars in cell & developmental biology.

Quantitative Impact of Thymic Clonal Deletion on the T Cell Repertoire

S. Marguerat, R. Germain, H. Macdonald, 1997, The Journal of experimental medicine.

The white matter is a pro-differentiative niche for glioblastoma

S. Marguerat, S. Brandner, P. Dirks, 2021, Nature Communications.

The white matter is a pro-differentiative microenvironment for glioblastoma

S. Marguerat, S. Brandner, P. Dirks, 2020, bioRxiv.

Proportionality: A Valid Alternative to Correlation for Relative Data

Jürg Bähler, David Lovell, Vera Pawlowsky-Glahn, 2014, bioRxiv.

Fission yeast SWI/SNF and RSC complexes show compositional and functional differences from budding yeast

S. Gygi, F. Winston, J. Bähler, 2008, Nature Structural &Molecular Biology.

Exploiting the multiplexing capabilities of tandem mass tags for high-throughput estimation of cellular protein abundances by mass spectrometry.

S. Marguerat, A. Schmidt, Andreas J. Gruber, 2015, Methods.

Genome-wide analysis of poly(A) site selection in Schizosaccharomyces pombe

Jürg Bähler, Monika Gullerova, Radek Erban, 2013, RNA.

Schizosaccharomyces pombe Genome-wide analysis of poly ( A ) site selection in Material Supplemental

J. Bähler, S. Marguerat, R. Erban, 2013 .

Diet suppresses tumour initiation by maintaining quiescence of mutation-bearing neural stem cells

S. Marguerat, M. Clements, A. Bailey, 2022, bioRxiv.

Injury primes mutation-bearing astrocytes for dedifferentiation in later life

A. Riccio, S. Marguerat, T. Enver, 2023, Current Biology.

Spt6 Regulates Intragenic and Antisense Transcription, Nucleosome Positioning, and Histone Modifications Genome-Wide in Fission Yeast

Peter J. Park, Jürg Bähler, Fred Winston, 2013, Molecular and Cellular Biology.

The DNA damage checkpoint pathway promotes extensive resection and nucleotide synthesis to facilitate homologous recombination repair and genome stability in fission yeast

J. Bähler, S. Marguerat, S. Sarkar, 2014, Nucleic acids research.

Differential patterns of intronic and exonic DNA regions with respect to RNA polymerase II occupancy, nucleosome density and H3K36me3 marking in fission yeast

J. Bähler, B. Wilhelm, S. Marguerat, 2011, Genome Biology.

Failed gene conversion leads to extensive end processing and chromosomal rearrangements in fission yeast

J. Ragoussis, R. Mott, J. Bähler, 2009, The EMBO journal.

Growth-rate-dependent and nutrient-specific gene expression resource allocation in fission yeast

V. Shahrezaei, S. Marguerat, F. Bertaux, 2021, Life Science Alliance.

Defining transcribed regions using RNA-seq

Jürg Bähler, Samuel Marguerat, I. Goodhead, 2010, Nature Protocols.

Growth-rate-dependent and nutrient-specific gene expression resource allocation in fission yeast

V. Shahrezaei, S. Marguerat, F. Bertaux, 2022, Life Science Alliance.

The Nrd1-like protein Seb1 coordinates cotranscriptional 3′ end processing and polyadenylation site selection

J. Bähler, S. Marguerat, B. Tian, 2016, Genes & development.

Fission Yeast and Histone Modifications Genome-Wide in Transcription , Nucleosome Positioning , Spt 6 Regulates Intragenic and Antisense

Christopher P. Davis, P. Park, F. Winston, 2013 .

Spt6 Is Required for Heterochromatic Silencing in the Fission Yeast Schizosaccharomyces pombe

F. Winston, H. Madhani, J. Bähler, 2011, Molecular and Cellular Biology.

Spt 6 Is Required for Heterochromatic Silencing in the Fission Yeast

F. Winston, H. Madhani, J. Bähler, 2011 .

Elimination of a specific histone H3K14 acetyltransferase complex bypasses the RNAi pathway to regulate pericentric heterochromatin functions.

J. Bähler, S. Marguerat, S. Jia, 2011, Genes & development.

The Wound Microenvironment Reprograms Schwann Cells to Invasive Mesenchymal-like Cells to Drive Peripheral Nerve Regeneration

A. Lloyd, S. Marguerat, M. Clements, 2017, Neuron.

Transcriptional Activation of the General Amino Acid Permease Gene per1 by the Histone Deacetylase Clr6 Is Regulated by Oca2 Kinase

J. Bähler, S. Marguerat, A. Azad, 2010, Molecular and Cellular Biology.

Long noncoding RNA repertoire and targeting by nuclear exosome, cytoplasmic exonuclease, and RNAi in fission yeast

Danny A. Bitton, J. Mata, J. Bähler, 2018, RNA.

Size-Dependent Expression of the Fission Yeast Cdc13 Cyclin is Conferred by Translational Regulation

N. Rhind, S. Marguerat, M. Pickering, 2023, bioRxiv.

urg1: A Uracil-Regulatable Promoter System for Fission Yeast with Short Induction and Repression Times

J. Mata, G. Burns, J. Bähler, 2008, PloS one.

Condensin controls cellular RNA levels through the accurate segregation of chromosomes instead of directly regulating transcription

L. Steinmetz, S. Marguerat, S. Clauder-Münster, 2018, bioRxiv.

Modelling capture efficiency of single-cell RNA-sequencing data improves inference of transcriptome-wide burst kinetics

V. Shahrezaei, S. Marguerat, Philipp Thomas, 2023, bioRxiv.

Coordinating genome expression with cell size.

Jürg Bähler, Samuel Marguerat, J. Bähler, 2012, Trends in genetics : TIG.

A Coordinated Global Control over Cellular Transcription

P. Nurse, J. Bähler, S. Marguerat, 2010, Current Biology.

The fission yeast Rpb4 subunit of RNA polymerase II plays a specialized role in cell separation

J. Bähler, S. Marguerat, S. Watt, 2006 .

branch points using RNA-seq LaSSO , a strategy for genome-wide mapping of intronic lariats and Material Supplemental

J. Bähler, S. Marguerat, Sandra Codlin, 2014 .

The S. pombe SAGA complex controls the switch from proliferation to sexual differentiation through the opposing roles of its subunits Gcn5 and Spt8.

Jürg Bähler, Steven P Gygi, Judit Villén, 2008, Genes & development.

Transcriptional activation by bidirectional RNA polymerase II elongation over a silent promoter

S. Antonarakis, B. Conrad, S. Marguerat, 2005, EMBO reports.

A Pre-mRNA degradation pathway that selectively targets intron-containing genes requires the nuclear poly(A)-binding protein.

J. Bähler, S. Marguerat, F. Bachand, 2011, Molecular cell.

Widespread exon skipping triggers degradation by nuclear RNA surveillance in fission yeast

Danny A. Bitton, J. Mata, J. Bähler, 2015, Genome research.

Skip and bin: pervasive alternative splicing triggers degradation by nuclear RNA surveillance in fission yeast

Danny A. Bitton, J. Mata, J. Bähler, 2014, bioRxiv.

Size-Dependent Expression of the Mitotic Activator Cdc25 Suggests a Mechanism of Size Control in Fission Yeast

Michael B. Mayhew, N. Rhind, S. Marguerat, 2016, Current Biology.

Injury primes mutation-bearing astrocytes for dedifferentiation in later life

Wai Hoong Chang, A. Riccio, S. Marguerat, 2023, Current Biology.

Tra1 has specific regulatory roles, rather than global functions, within the SAGA co‐activator complex

S. Gygi, F. Winston, J. Bähler, 2011, The EMBO journal.

Tra 1 has specific regulatory roles , rather than global functions , within the SAGA coactivator complex

S. Gygi, F. Winston, J. Bähler, 2011 .

A coarse-grained resource allocation model of carbon and nitrogen metabolism in unicellular microbes

V. Shahrezaei, S. Marguerat, I. T. Kleijn, 2023, bioRxiv.

Functional profiling of long intergenic non-coding RNAs in fission yeast

J. Bähler, S. Marguerat, M. Howell, 2021, bioRxiv.

Diet suppresses glioblastoma initiation in mice by maintaining quiescence of mutation-bearing neural stem cells

S. Marguerat, M. Clements, A. Bailey, 2023, Developmental cell.

Fission yeast obeys a linear size law under nutrient titration

V. Shahrezaei, S. Marguerat, F. Bertaux, 2023, bioRxiv.

Natural genetic variation impacts expression levels of coding, non-coding, and antisense transcripts in fission yeast.

Susanne, C. Workman, A. Beyer, 2014 .

Single-cell imaging and RNA sequencing reveal patterns of gene expression heterogeneity during fission yeast growth and adaptation

V. Shahrezaei, J. Bähler, S. Marguerat, 2019, Nature Microbiology.

Proportionality: A Valid Alternative to Correlation for Relative Data

David R. Lovell, J. Bähler, S. Marguerat, 2014, PLoS Comput. Biol..

Genetic effects on molecular network states explain complex traits

Ludovic C. Gillet, R. Aebersold, C. Workman, 2023, Molecular systems biology.

Condensin controls cellular RNA levels through the accurate segregation of chromosomes instead of directly regulating transcription

L. Steinmetz, S. Marguerat, S. Clauder-Münster, 2018, bioRxiv.

Natural genetic variation impacts expression levels of coding, non-coding, and antisense transcripts in fission yeast

C. Workman, A. Beyer, J. Bähler, 2014, Molecular systems biology.

May 09, 2020 Natural genetic variation impacts expression levels of coding, non-coding, and antisense transcripts

J. Bähler, S. Marguerat, Sandra Codlin, 2014 .

Exploring long non-coding RNAs through sequencing.

J. Bähler, S. Marguerat, S. Atkinson, 2012, Seminars in cell & developmental biology.

Glioblastoma cell fate is differentially regulated by the microenvironments of the tumor bulk and infiltrative margin.

S. Marguerat, H. Heyn, Yinyin Yuan, 2023, Cell reports.

R-loops and regulatory changes in chronologically ageing fission yeast cells drive non-random patterns of genome rearrangements

V. A. Tallada, J. Bähler, S. Marguerat, 2021, PLoS genetics.

R-loops and regulatory changes in chronologically ageing fission yeast cells drive non-random patterns of genome rearrangements

V. A. Tallada, J. Bähler, S. Marguerat, 2019, bioRxiv.

Aging-associated long non-coding RNA boosts longevity and reduces the ribosome content of non-dividing fission yeast cells

S. Marguerat, N. Alic, Shajahan Anver, 2024, bioRxiv.

Size-Dependent Expression of the Mitotic Activator Cdc25 as a Size-Dependent Expression of the Mitotic Activator Cdc25 as a Mechanism of Size Control in Fission Yeast [preprint] Mechanism of Size Control in Fission Yeast [preprint]

S. Marguerat, Edridge D'Souza, Makoto Ohira, 2022 .