P. Giresi

发表

Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project

William Stafford Noble, Nancy R. Zhang, Stephen C. J. Parker, 2007, Nature.

Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position

Howard Y. Chang, Jason D. Buenrostro, P. Giresi, 2013, Nature Methods.

FAIRE (Formaldehyde-Assisted Isolation of Regulatory Elements) isolates active regulatory elements from human chromatin.

V. Iyer, P. Giresi, J. Lieb, 2007, Genome research.

An Integrated Encyclopedia of DNA Elements in the Human Genome

Raymond K. Auerbach, William Stafford Noble, Stephen C. J. Parker, 2012, Nature.

ZINBA integrates local covariates with DNA-seq data to identify broad and narrow regions of enrichment, even within amplified genomic regions

J. Ibrahim, P. Giresi, J. Lieb, 2011, Genome Biology.

Isolation of active regulatory elements from eukaryotic chromatin using FAIRE (Formaldehyde Assisted Isolation of Regulatory Elements).

P. Giresi, J. Lieb, 2009, Methods.

A User's Guide to the Encyclopedia of DNA Elements (ENCODE)

Raymond K. Auerbach, William Stafford Noble, Stephen C. J. Parker, 2011, PLoS biology.

Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity.

Nathan C. Sheffield, N. D. Clarke, E. Birney, 2011, Genome research.

Massively parallel single-cell chromatin landscapes of human immune cell development and intratumoral T cell exhaustion

Howard Y. Chang, Grace X. Y. Zheng, Ansuman T. Satpathy, 2019, Nature Biotechnology.

Chromatin Accessibility Landscape of Cutaneous T Cell Lymphoma and Dynamic Response to HDAC Inhibitors.

Howard Y. Chang, Ansuman T. Satpathy, H. Ueno, 2017, Cancer cell.

Repression of Stress-Induced LINE-1 Expression Protects Cancer Cell Subpopulations from Lethal Drug Exposure.

P. Giresi, J. Settleman, Kuan-Bei Chen, 2017, Cancer cell.

Transposition of native chromatin for multimodal regulatory analysis and personal epigenomics

Howard Y. Chang, William J. Greenleaf, Jason D. Buenrostro, 2014 .

Global analysis of gene expression patterns during disuse atrophy in rat skeletal muscle

P. Giresi, S. Kandarian, E. Stevenson, 2003, The Journal of physiology.

Chromatin Profiles of Human Cells in Health and Disease Using FAIRE

P. Giresi, 2011 .

elements that shape cell-type identity Open chromatin defined by DNaseI and FAIRE identifies regulatory Material Supplemental

Nathan C. Sheffield, N. D. Clarke, E. Birney, 2011 .

Making a Difference in Pain

Chang, Austin, P. Giresi, 2015, Cell.

The transcriptional profile of a myotube starvation model of atrophy

P. Giresi, S. Kandarian, R. Jackman, 2004 .

Identification of a molecular signature of sarcopenia.

P. Giresi, R. Fielding, S. Kandarian, 2005, Physiological genomics.

A Chromatin Basis for Cell Lineage and Disease Risk in the Human Pancreas.

Howard Y. Chang, P. Giresi, W. Greenleaf, 2018, Cell systems.

Older Adults Gene Expression , Fiber Type , and Strength Are Similar Between Left and Right Legs in

P. Giresi, R. Fielding, S. Kandarian, 2005 .

STAT3 acts through pre-existing nucleosome-depleted regions bound by FOS during an epigenetic switch linking inflammation to cancer

K. Struhl, P. Giresi, J. Lieb, 2015, Epigenetics & Chromatin.

Massively parallel single-cell chromatin landscapes of human immune cell development and intratumoral T cell exhaustion

Howard Y. Chang, William J. Greenleaf, Grace X. Y. Zheng, 2019, bioRxiv.

of atrophyprofile of a myotube starvation model

P. Giresi, N. Kiyosawa, S. Kandarian, 2014 .

How to find an opening (or lots of them)

P. Giresi, J. Lieb, 2006, Nature Methods.

Hierarchical Mechanisms for Direct Reprogramming of Fibroblasts to Neurons

Howard Y. Chang, N. Neff, T. Südhof, 2013, Cell.

Using formaldehyde-assisted isolation of regulatory elements (FAIRE) to isolate active regulatory DNA

P. Giresi, J. Lieb, J. Simon, 2012, Nature Protocols.

Addendum: Using formaldehyde-assisted isolation of regulatory elements (FAIRE) to isolate active regulatory DNA

P. Giresi, J. Lieb, J. Simon, 2014, Nature Protocols.

A map of open chromatin in human pancreatic islets

Karen L. Mohlke, Kyle J. Gaulton, Jorge Ferrer, 2010, Nature Genetics.

A novel ATAC-seq approach reveals lineage-specific reinforcement of the open chromatin landscape via cooperation between BAF and p63

Howard Y. Chang, Adam J. Rubin, P. Giresi, 2015, Genome Biology.

Challenges and recommendations for epigenomics in precision health

Anshul Kundaje, Marc Vidal, Howard Y. Chang, 2017, Nature Biotechnology.

Regulation of nucleosome stability as a mediator of chromatin function.

P. Giresi, J. Lieb, Mayetri Gupta, 2006, Current opinion in genetics & development.

Transposition of Native Chromatin for Fast and Sensitive Mulitmodal Analysis of Chromatin Architecture

Howard Y. Chang, P. Giresi, J. Buenrostro, 2014 .

A novel ATAC-seq approach reveals lineage-specific reinforcement of the open chromatin landscape via cooperation between BAF and p63

Howard Y. Chang, Adam J. Rubin, P. Giresi, 2015, Genome Biology.

Individuality and variation of personal regulomes in primary human T cells.

Howard Y. Chang, P. Giresi, Rui Li, 2015, Cell systems.

Identification of human CD4+ T cell populations with distinct antitumor activity

P. Giresi, M. Zilliox, M. Nishimura, 2020, Science Advances.

X chromosome repression by localization of the C. elegans dosage compensation machinery to sites of transcription initiation

P. Giresi, J. Lieb, R. Green, 2007, Nature Genetics.

Highly transcribed RNA polymerase II genes are impediments to replication fork progression in Saccharomyces cerevisiae.

P. Giresi, J. Lieb, V. Zakian, 2009, Molecular cell.

A Detailed Protocol for Formaldehyde‐Assisted Isolation of Regulatory Elements (FAIRE)

P. Giresi, J. Lieb, J. Simon, 2013, Current protocols in molecular biology.