Impact of Chromosome Fusions on 3D Genome Organization and Gene Expression in Budding Yeast

OneD: increasing reproducibility of Hi-C samples with abnormal karyotypes

(2018) Enrique Vidal et al.   NUCLEIC ACIDS RESEARCH

Karyotype engineering by chromosome fusion leads to reproductive isolation in yeast

(2018) Jingchuan Luo et al.   NATURE

Creating a functional single-chromosome yeast

(2018) Yangyang Shao et al.   NATURE

Automatic analysis and 3D-modelling of Hi-C data using TADbit reveals structural features of the fly chromatin colors

(2017) François Serra et al.   PLoS Computational Biology

The second decade of 3C technologies: detailed insights into nuclear organization

(2016) Annette Denker et al.   GENES & DEVELOPMENT

Global reorganization of budding yeast chromosome conformation in different physiological conditions

(2016) Elisa Dultz et al.   JOURNAL OF CELL BIOLOGY

How many biological replicates are needed in an RNA-seq experiment and which differential expression tool should you use?

(2016) Nicholas J. Schurch et al.   RNA

Hi-C-constrained physical models of human chromosomes recover functionally-related properties of genome organization

(2016) Marco Di Stefano et al.   Scientific Reports

3D genome architecture from populations to single cells

(2015) Mayra Furlan-Magaril et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Chromatin at the nuclear periphery and the regulation of genome functions

(2015) Charlene Lemaître et al.   HISTOCHEMISTRY AND CELL BIOLOGY

Chromosome length and perinuclear attachment constrain resolution of DNA intertwines

(2014) Iris Titos et al.   JOURNAL OF CELL BIOLOGY

3D genome reconstruction from chromosomal contacts

(2014) Annick Lesne et al.   NATURE METHODS

The Hierarchy of the 3D Genome

(2013) Johan H. Gibcus et al.   MOLECULAR CELL

Colocalization of Coregulated Genes: A Steered Molecular Dynamics Study of Human Chromosome 19

(2013) Marco Di Stefano et al.   PLoS Computational Biology

A Predictive Computational Model of the Dynamic 3D Interphase Yeast Nucleus

(2012) Hua Wong et al.   CURRENT BIOLOGY

Structure and Function in the Budding Yeast Nucleus

(2012) A. Taddei et al.   GENETICS

Physical tethering and volume exclusion determine higher-order genome organization in budding yeast

(2012) H. Tjong et al.   GENOME RESEARCH

A negative feedback loop at the nuclear periphery regulates GAL gene expression

(2012) Erin M. Green et al.   MOLECULAR BIOLOGY OF THE CELL

Iterative correction of Hi-C data reveals hallmarks of chromosome organization

(2012) Maxim Imakaev et al.   NATURE METHODS

Principles of chromosomal organization: lessons from yeast

(2011) Christophe Zimmer et al.   JOURNAL OF CELL BIOLOGY

A Midzone-Based Ruler Adjusts Chromosome Compaction to Anaphase Spindle Length

(2011) G. Neurohr et al.   SCIENCE

Molecular Maps of the Reorganization of Genome-Nuclear Lamina Interactions during Differentiation

(2010) Daan Peric-Hupkes et al.   MOLECULAR CELL

A three-dimensional model of the yeast genome

(2010) Zhijun Duan et al.   NATURE

Chromosome arm length and nuclear constraints determine the dynamic relationship of yeast subtelomeres

(2010) P. Therizols et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Budding Yeast Nucleus

(2010) A. Taddei et al.   Cold Spring Harbor Perspectives in Biology

The functional importance of telomere clustering: Global changes in gene expression result from SIR factor dispersion

(2009) A. Taddei et al.   GENOME RESEARCH

Mappingin VivoChromatin Interactions in Yeast Suggests an Extended Chromatin Fiber with Regional Variation in Compaction

(2008) Job Dekker   JOURNAL OF BIOLOGICAL CHEMISTRY

A genetic locus targeted to the nuclear periphery in living cells maintains its transcriptional competence

(2008) R. Ileng Kumaran et al.   JOURNAL OF CELL BIOLOGY

Domain organization of human chromosomes revealed by mapping of nuclear lamina interactions

(2008) Lars Guelen et al.   NATURE

Transcriptional repression mediated by repositioning of genes to the nuclear lamina

(2008) K. L. Reddy et al.   NATURE

Structure and Dynamics of Interphase Chromosomes

(2008) Angelo Rosa et al.   PLoS Computational Biology

Recruitment to the Nuclear Periphery Can Alter Expression of Genes in Human Cells

(2008) Lee E. Finlan et al.   PLoS Genetics

Coordination of Growth Rate, Cell Cycle, Stress Response, and Metabolic Activity in Yeast

(2007) Matthew J. Brauer et al.   MOLECULAR BIOLOGY OF THE CELL