Massive Reverse Genomics to Decipher Gene Regulatory Grammar

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Project website for visibility, raising awareness and dissemination purposes. The website will be maintained throughout the execution and will stay alive at least 2 years after the project end.

Unnatural enhancer data-set and report

Natural enhancer data-set and report

Bottom-up data-set report

Top-down data-set report

Publications

The interaction landscape between transcription factors and the nucleosome

Auteurs: Fangjie Zhu, Lucas Farnung, Eevi Kaasinen, Biswajyoti Sahu, Yimeng Yin, Bei Wei, Svetlana Dodonova, Patrick Cramer, Jussi Taipale
Publié dans: Nature, 2017, ISSN 2520-1158
Éditeur: Nature
DOI: 10.1101/240598

Gene expression variability across cells and species shapes innate immunity

Auteurs: Tzachi Hagai, Xi Chen, Ricardo J. Miragaia, Tomas Gomes, Raghd Rostom, Natalia Kunowska, Valentina Proserpio, Giacomo Donati, Lara Bossini-Castillo, Guy Naamati, Guy Emerton, Gosia Trynka, Ivanela Kondova, Mike Denis, Sarah A Teichmann
Publié dans: Nature, 2017, ISSN 2520-1158
Éditeur: Nature
DOI: 10.1101/137992

Genome-wide CRISPR screens in T helper cells reveal pervasive cross-talk between activation and differentiation

Auteurs: Johan Henriksson, Xi Chen, Tomás Gomes, Ubaid Ullah, Kerstin B Meyer, Ricardo Miragaia, Graham Duddy, Jhuma Pramanik, Kosuke Yusa, Riita Lahesmaa, Sarah A. Teichmann
Publié dans: Cell, 2017, ISSN 2073-4409
Éditeur: Cell
DOI: 10.1101/196022

A rapid and robust method for single cell chromatin accessibility profiling

Auteurs: Xi Chen, Kedar Nath Natarajan, Sarah A Teichmann
Publié dans: Nature Communiction, 2018, ISSN 2041-1723
Éditeur: Nature Publishing Group
DOI: 10.1101/309831

Developmental enhancers and chromosome topology

Auteurs: Eileen E. M. Furlong, Michael Levine
Publié dans: Science, 2018, ISSN 1095-9203
Éditeur: Science Magazine
DOI: 10.1126/science.aau0320

A Synthetic Oligo Library and Sequencing Approach Reveals an Insulation Mechanism Encoded within Bacterial σ 54 Promoters

Auteurs: Lior Levy, Leon Anavy, Oz Solomon, Roni Cohen, Michal Brunwasser-Meirom, Shilo Ohayon, Orna Atar, Sarah Goldberg, Zohar Yakhini, Roee Amit
Publié dans: Cell Reports, Numéro 21/3, 2017, Page(s) 845-858, ISSN 2211-1247
Éditeur: Cell Press
DOI: 10.1016/j.celrep.2017.09.063

Genome-wide analysis of fitness data and its application to improve metabolic models

Auteurs: Edward Vitkin, Oz Solomon, Sharon Sultan, Zohar Yakhini
Publié dans: BMC Bioinformatics, Numéro 19/1, 2018, ISSN 1471-2105
Éditeur: BioMed Central
DOI: 10.1186/s12859-018-2341-9

Using synthetic bacterial enhancers to reveal a looping-based mechanism for quenching-like repression

Auteurs: Michal Brunwasser-Meirom, Yaroslav Pollak, Sarah Goldberg, Lior Levy, Orna Atar, Roee Amit
Publié dans: Nature Communications, Numéro 7, 2016, Page(s) 10407, ISSN 2041-1723
Éditeur: Nature Publishing Group
DOI: 10.1038/ncomms10407

A Looping-Based Model for Quenching Repression

Auteurs: Yaroslav Pollak, Sarah Goldberg, Roee Amit
Publié dans: PLOS, 2017
Éditeur: plos.org
DOI: 10.1371/journal.pcbi.1005337

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