LANA Binds to Multiple Active Viral and Cellular Promoters and Associates with the H3K4Methyltransferase hSET1 Complex

Mapping Human Epigenomes

(2013) Chloe M. Rivera et al.   CELL

A Unique Herpesviral Transcriptional Program in KSHV-Infected Lymphatic Endothelial Cells Leads to mTORC1 Activation and Rapamycin Sensitivity

(2013) Henry H Chang et al.   Cell Host & Microbe

Identification of Kaposi's Sarcoma-Associated Herpesvirus LANA Regions Important for Episome Segregation, Replication, and Persistence

(2013) E. De Leon Vazquez et al.   JOURNAL OF VIROLOGY

Kaposi's Sarcoma-Associated Herpesvirus (KSHV) Latency-Associated Nuclear Antigen Regulates the KSHV Epigenome by Association with the Histone Demethylase KDM3A

(2013) K. Y. Kim et al.   JOURNAL OF VIROLOGY

The Open Chromatin Landscape of Kaposi's Sarcoma-Associated Herpesvirus

(2013) I. B. Hilton et al.   JOURNAL OF VIROLOGY

Keeping it quiet: chromatin control of gammaherpesvirus latency

(2013) Paul M. Lieberman   NATURE REVIEWS MICROBIOLOGY

Epigenetic diversity of Kaposi’s sarcoma–associated herpesvirus

(2013) Russell P. Darst et al.   NUCLEIC ACIDS RESEARCH

The Chromatin Landscape of Kaposi’s Sarcoma-Associated Herpesvirus

(2013) Zsolt Toth et al.   Viruses-Basel

Kaposi sarcoma associated herpesvirus pathogenesis (KSHV)—an update

(2013) Dirk P Dittmer et al.   Current Opinion in Virology

Biphasic Euchromatin-to-Heterochromatin Transition on the KSHV Genome Following De Novo Infection

(2013) Zsolt Toth et al.   PLoS Pathogens

ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia

(2012) S. G. Landt et al.   GENOME RESEARCH

Negative Elongation Factor-Mediated Suppression of RNA Polymerase II Elongation of Kaposi's Sarcoma-Associated Herpesvirus Lytic Gene Expression

(2012) Zsolt Toth et al.   JOURNAL OF VIROLOGY

Identification of Host-Chromosome Binding Sites and Candidate Gene Targets for Kaposi's Sarcoma-Associated Herpesvirus LANA

(2012) F. Lu et al.   JOURNAL OF VIROLOGY

Cohesins Repress Kaposi's Sarcoma-Associated Herpesvirus Immediate Early Gene Transcription during Latency

(2012) H.-S. Chen et al.   JOURNAL OF VIROLOGY

CTCF Regulates Kaposi's Sarcoma-Associated Herpesvirus Latency Transcription by Nucleosome Displacement and RNA Polymerase Programming

(2012) Hyojeung Kang et al.   JOURNAL OF VIROLOGY

Functional Association of Gdown1 with RNA Polymerase II Poised on Human Genes

(2012) Bo Cheng et al.   MOLECULAR CELL

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

A complete workflow for the analysis of full-size ChIP-seq (and similar) data sets using peak-motifs

(2012) Morgane Thomas-Chollier et al.   Nature Protocols

Dynamic interaction between TAL1 oncoprotein and LSD1 regulates TAL1 function in hematopoiesis and leukemogenesis

(2012) Y Li et al.   ONCOGENE

Dense Chromatin Activates Polycomb Repressive Complex 2 to Regulate H3 Lysine 27 Methylation

(2012) W. Yuan et al.   SCIENCE

Snapshots: Chromatin control of viral infection

(2012) David M. Knipe et al.   VIROLOGY

Hsp90 Inhibitors Are Efficacious against Kaposi Sarcoma by Enhancing the Degradation of the Essential Viral Gene LANA, of the Viral Co-Receptor EphA2 as well as Other Client Proteins

(2012) Wuguo Chen et al.   PLoS Pathogens

Chromatin boundaries require functional collaboration between the hSET1 and NURF complexes

(2011) X. Li et al.   BLOOD

RNA-seq: technical variability and sampling

(2011) Lauren M McIntyre et al.   BMC GENOMICS

Inference of hierarchical regulatory network of estrogen-dependent breast cancer through ChIP-based data

(2011) Fei Gu et al.   BMC Systems Biology

The latency-associated nuclear antigen, a multifunctional protein central to Kaposi’s sarcoma-associated herpesvirus latency

(2011) Mary E Ballestas et al.   Future Microbiology

RSAT 2011: regulatory sequence analysis tools

(2011) M. Thomas-Chollier et al.   NUCLEIC ACIDS RESEARCH

RSAT peak-motifs: motif analysis in full-size ChIP-seq datasets

(2011) Morgane Thomas-Chollier et al.   NUCLEIC ACIDS RESEARCH

Coordination of KSHV Latent and Lytic Gene Control by CTCF-Cohesin Mediated Chromosome Conformation

(2011) Hyojeung Kang et al.   PLoS Pathogens

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Viral Latency and Its Regulation: Lessons from the γ-Herpesviruses

(2010) Samuel H. Speck et al.   Cell Host & Microbe

Array-Based Transcript Profiling and Limiting-Dilution Reverse Transcription-PCR Analysis Identify Additional Latent Genes in Kaposi's Sarcoma-Associated Herpesvirus

(2010) S. Chandriani et al.   JOURNAL OF VIROLOGY

seqMINER: an integrated ChIP-seq data interpretation platform

(2010) Tao Ye et al.   NUCLEIC ACIDS RESEARCH

Epigenetic Analysis of KSHV Latent and Lytic Genomes

(2010) Zsolt Toth et al.   PLoS Pathogens

The Epigenetic Landscape of Latent Kaposi Sarcoma-Associated Herpesvirus Genomes

(2010) Thomas Günther et al.   PLoS Pathogens

Chromatin organization of gammaherpesvirus latent genomes

(2009) Italo Tempera et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Kaposi's Sarcoma-Associated Herpesvirus/Human Herpesvirus 8 K-bZIP Modulates Latency-Associated Nuclear Protein-Mediated Suppression of Lytic Origin-Dependent DNA Synthesis

(2009) C. Rossetto et al.   JOURNAL OF VIROLOGY

Latency-Associated Nuclear Antigen of Kaposi's Sarcoma-Associated Herpesvirus (KSHV) Upregulates Survivin Expression in KSHV-Associated B-Lymphoma Cells and Contributes to Their Proliferation

(2009) J. Lu et al.   JOURNAL OF VIROLOGY

Role of Kaposi's Sarcoma-Associated Herpesvirus C-Terminal LANA Chromosome Binding in Episome Persistence

(2009) B. Kelley-Clarke et al.   JOURNAL OF VIROLOGY

Involvement of SSRP1 in Latent Replication of Kaposi's Sarcoma-Associated Herpesvirus

(2009) J. Hu et al.   JOURNAL OF VIROLOGY

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

A Poisson mixture model to identify changes in RNA polymerase II binding quantity using high-throughput sequencing technology

(2008) Weixing Feng et al.   BMC GENOMICS

Cohesins localize with CTCF at the KSHV latency control region and at cellular c-myc and H19/Igf2 insulators

(2008) William Stedman et al.   EMBO JOURNAL

An integrated software system for analyzing ChIP-chip and ChIP-seq data

(2008) Hongkai Ji et al.   NATURE BIOTECHNOLOGY

IQGAP3 regulates cell proliferation through the Ras/ERK signalling cascade

(2008) Hisashi Nojima et al.   NATURE CELL BIOLOGY

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS