Y. GHAVI-HELM - Developmental epigenomics

This folder holds the following references to publications, sorted by year and author.

There are 15 references in this bibliography folder.

Erceg, J, Pakozdi, T, Marco-Ferreres, R, Ghavi-Helm, Y, Girardot, C, Bracken, AP, and Furlong, EEM (2017).
Dual functionality of cis-regulatory elements as developmental enhancers and Polycomb response elements.
Genes Dev, 31(6):590-602.

Schauer, T, Ghavi-Helm, Y, Sexton, T, Albig, C, Regnard, C, Cavalli, G, Furlong, EE, and Becker, PB (2017).
Chromosome topology guides the Drosophila Dosage Compensation Complex for target gene activation
EMBO Rep.

Ghavi-Helm, Y, Klein, FA, Pakozdi, T, Ciglar, L, Noordermeer, D, Huber, W, and Furlong, EEM (2016).
Corrigendum: Enhancer loops appear stable during development and are associated with paused polymerase.
Nature, 537(7619):254.

Ghavi-Helm, Y, Zhao, B, and Furlong, EEM (2016).
Chromatin Immunoprecipitation for Analyzing Transcription Factor Binding and Histone Modifications in Drosophila.
Methods Mol Biol, 1478:263-277.

Seyres, D, Ghavi-Helm, Y, Junion, G, Taghli-Lamallem, O, Guichard, C, Roder, L, Girardot, C, Furlong, EEM, and Perrin, L (2016).
Identification and in silico modeling of enhancers reveals new features of the cardiac differentiation network.
Development, 143(23):4533-4542.

Klein, FA, Pakozdi, T, Anders, S, Ghavi-Helm, Y, Furlong, EEM, and Huber, W (2015).
FourCSeq: analysis of 4C sequencing data.
Bioinformatics, 31(19):3085-91.

Ghavi-Helm, Y, Klein, FA, Pakozdi, T, Ciglar, L, Noordermeer, D, Huber, W, and Furlong, EEM (2014).
Enhancer loops appear stable during development and are associated with paused polymerase.
Nature, 512(7512):96-100.

Pinskaya, M, Ghavi-Helm, Y, Mariotte-Labarre, S, Morillon, A, Soutourina, J, and Werner, M (2014).
PHD and TFIIS-Like domains of the Bye1 transcription factor determine its multivalent genomic distribution.
PLoS One, 9(7):e102464.

Bonn, S, Zinzen, RP, Girardot, C, Gustafson, EH, Perez-Gonzalez, A, Delhomme, N, Ghavi-Helm, Y, Wilczynski, B, Riddell, A, and Furlong, EEM (2012).
Tissue-specific analysis of chromatin state identifies temporal signatures of enhancer activity during embryonic development.
Nat Genet, 44(2):148-56.

Carriere, L, Graziani, S, Alibert, O, Ghavi-Helm, Y, Boussouar, F, Humbertclaude, H, Jounier, S, Aude, J, Keime, C, Murvai, J, Foglio, M, Gut, M, Gut, I, Lathrop, M, Soutourina, J, Gerard, M, and Werner, M (2012).
Genomic binding of Pol III transcription machinery and relationship with TFIIS transcription factor distribution in mouse embryonic stem cells.
Nucleic Acids Res, 40(1):270-83.

Ghavi-Helm, Y and Furlong, EEM (2012).
Analyzing transcription factor occupancy during embryo development using ChIP-seq.
Methods Mol Biol, 786:229-45.

Cazalet, C, Jarraud, S, Ghavi-Helm, Y, Kunst, F, Glaser, P, Etienne, J, and Buchrieser, C (2008).
Multigenome analysis identifies a worldwide distributed epidemic Legionella pneumophila clone that emerged within a highly diverse species.
Genome Res, 18(3):431-41.

Esnault, C, Ghavi-Helm, Y, Brun, S, Soutourina, J, Van Berkum, N, Boschiero, C, Holstege, F, and Werner, M (2008).
Mediator-dependent recruitment of TFIIH modules in preinitiation complex.
Mol Cell, 31(3):337-46.

Ghavi-Helm, Y, Michaut, M, Acker, J, Aude, J, Thuriaux, P, Werner, M, and Soutourina, J (2008).
Genome-wide location analysis reveals a role of TFIIS in RNA polymerase III transcription.
Genes Dev, 22(14):1934-47.

Kwapisz, M, Wery, M, Despres, D, Ghavi-Helm, Y, Soutourina, J, Thuriaux, P, and Lacroute, F (2008).
Mutations of RNA polymerase II activate key genes of the nucleoside triphosphate biosynthetic pathways.
EMBO J, 27(18):2411-21.