G. Ambrosini

发表

KRAB–Zinc Finger Proteins and KAP1 Can Mediate Long-Range Transcriptional Repression through Heterochromatin Spreading

Philipp Bucher, Nadine Zangger, Nicolas Dénervaud, 2010, PLoS genetics.

Chromatin three-dimensional interactions mediate genetic effects on gene expression

S. Kumar, D. Marbach, O. Delaneau, 2019, Science.

The ChIP-Seq tools and web server: a resource for analyzing ChIP-seq and other types of genomic data

Philipp Bucher, René Dreos, P. Bucher, 2016, BMC Genomics.

A gene-rich, transcriptionally active environment and the pre-deposition of repressive marks are predictive of susceptibility to KRAB/KAP1-mediated silencing

F. Bushman, P. Bucher, J. Rougemont, 2011, BMC Genomics.

Nuclear factor I revealed as family of promoter binding transcription activators

Christian Mazza, Nicolas Mermod, Philipp Bucher, 2011, BMC Genomics.

The Breast Cancer Epigenomics Track Hub

C. Brisken, G. Ambrosini, Philipp Bucher, 2022, bioRxiv.

Estrogen receptor positive breast cancers have patient specific hormone sensitivities and rely on progesterone receptor

K. Zaman, C. Brisken, Csaba Laszlo, 2022, Nature Communications.

6mer Seed Toxicity Determines Strand Selection in miRNAs

M. Peter, E. Bartom, A. E. Murmann, 2018, bioRxiv.

Nuclear Factor I genomic binding associates with chromatin boundaries

P. Bucher, N. Mermod, Jan Kerschgens, 2013, BMC Genomics.

Influence of rotational nucleosome positioning on transcription start site selection in animals promoters

P. Bucher, R. Dreos, G. Ambrosini, 2016, bioRxiv.

Insights gained from a comprehensive all-against-all transcription factor binding motif benchmarking study

Dmitry D. Penzar, Jan Grau, P. Bucher, 2020, Genome Biology.

SMiLE-seq: Selective Microfluidics-based Ligand Enrichment followed by sequencing

P. Bucher, B. Deplancke, Alina Isakova, 2017 .

SMiLE-seq identifies binding motifs of single and dimeric transcription factors

Philipp Bucher, Romain Groux, Bart Deplancke, 2017, Nature Methods.

EPD and EPDnew, high-quality promoter resources in the next-generation sequencing era

Giovanna Ambrosini, Philipp Bucher, René Dreos, 2012, Nucleic Acids Res..

The eukaryotic promoter database in its 30th year: focus on non-vertebrate organisms

Giovanna Ambrosini, Philipp Bucher, Romain Groux, 2016, Nucleic Acids Res..

Intraductal xenografts show lobular carcinoma cells rely on their own extracellular matrix and LOXL1

P. Bucher, C. Brisken, M. Fiche, 2021, EMBO molecular medicine.

Epithelial-mesenchymal plasticity determines estrogen receptor positive breast cancer dormancy and epithelial reconversion drives recurrence

Simak Ali, Sendurai A Mani, C. Brisken, 2022, Nature Communications.

Common genetic variants associated with Parkinson’s disease display widespread signature of epigenetic plasticity

P. Bucher, Hongde Liu, N. Osato, 2019, Scientific Reports.

Indexing Strategies for Rapid Searches of Short Words in Genome Sequences

C. V. Jongeneel, P. Bucher, C. Iseli, 2007, PloS one.

PWMScan: a fast tool for scanning entire genomes with a position-specific weight matrix

Giovanna Ambrosini, Philipp Bucher, Romain Groux, 2018, Bioinform..

SNP2TFBS – a database of regulatory SNPs affecting predicted transcription factor binding site affinity

Sunil Kumar, Giovanna Ambrosini, Philipp Bucher, 2016, Nucleic Acids Res..

ZFN-Site searches genomes for zinc finger nuclease target sites and off-target sites

Christian Iseli, Giovanna Ambrosini, Philipp Bucher, 2011, BMC Bioinformatics.

EPD in 2020: enhanced data visualization and extension to ncRNA promoters

Philipp Bucher, Romain Groux, René Dreos, 2019, Nucleic Acids Res..

The Eukaryotic Promoter Database: expansion of EPDnew and new promoter analysis tools

Giovanna Ambrosini, Philipp Bucher, René Dreos, 2014, Nucleic Acids Res..

MarrowQuant 2.0: A Digital Pathology Workflow Assisting Bone Marrow Evaluation in Experimental and Clinical Hematology.

O. Naveiras, B. Deplancke, Martin Weigert, 2023, Modern pathology : an official journal of the United States and Canadian Academy of Pathology, Inc.

Short-lived AUF1 p42-binding mRNAs of RANKL and BCL6 have two distinct instability elements each

L. Kühn, P. Bucher, S. Pradervand, 2018, PloS one.

Influence of Rotational Nucleosome Positioning on Transcription Start Site Selection in Animal Promoters

Giovanna Ambrosini, Philipp Bucher, René Dreos, 2016, bioRxiv.

Transcription factor binding and nucleosome positioning are alternative pathways for transcription start site selection in eukaryotic promoters

Giovanna Ambrosini, Philipp Bucher, René Dreos, 2014, IWBBIO.

The secreted protease Adamts18 links hormone action to activation of the mammary stem cell niche

P. Bucher, C. Brisken, Csaba Laszlo, 2020, Nature Communications.

Nucleosome eviction from MHC class II promoters controls positioning of the transcription start site

P. Bucher, W. Reith, I. Dunand-Sauthier, 2009, Nucleic acids research.

The SIB Swiss Institute of Bioinformatics’ resources: focus on curated databases

Oliver Horlacher, Damian Szklarczyk, Christian von Mering, 2015, Nucleic Acids Res..

MGA repository: a curated data resource for ChIP-seq and other genome annotated data

Giovanna Ambrosini, Philipp Bucher, Romain Groux, 2017, Nucleic Acids Res..

Insights gained from a comprehensive all-against-all transcription factor binding motif benchmarking study

Jan Grau, P. Bucher, V. Makeev, 2020, Genome Biology.

Indexing Strategies for Rapid Searches of Short Words in Genome Sequences

C. V. Jongeneel, P. Bucher, C. Iseli, 2007, PloS one.

The ChIP-Seq tools and web server: a resource for analyzing ChIP-seq and other types of genomic data

P. Bucher, R. Dreos, G. Ambrosini, 2016, BMC Genomics.

Contraceptive progestins with androgenic properties stimulate breast epithelial cell proliferation

P. Bucher, C. Brisken, Csaba Laszlo, 2021, EMBO molecular medicine.

Intra- and inter-chromosomal chromatin interactions mediate genetic effects on regulatory networks

O. Delaneau, C. Howald, A. Reymond, 2017, bioRxiv.

Principles of ChIP-seq Data Analysis Illustrated with Examples

Giovanna Ambrosini, Philipp Bucher, René Dreos, 2017, IWBBIO.

The secreted protease Adamts18 links hormone action to activation of the mammary stem cell niche

P. Bucher, C. Brisken, Csaba Laszlo, 2020, Nature Communications.

The SIB Swiss Institute of Bioinformatics’ resources: focus on curated databases

Joshua L. Payne, Christian J. A. Sigrist, Brian J. Stevenson, 2015, Nucleic Acids Res..

Signal search analysis server

Giovanna Ambrosini, Philipp Bucher, Viviane Praz, 2003, Nucleic Acids Res..