Open Access Research article

Marek’s disease virus infection induces widespread differential chromatin marks in inbred chicken lines

Apratim Mitra1, Juan Luo1, Huanming Zhang2, Kairong Cui3, Keji Zhao3 and Jiuzhou Song1*

  • * Corresponding author: Jiuzhou Song songj88@umd.edu

  • † Equal contributors

Author Affiliations

1 Department of Animal & Avian Sciences, University of Maryland, College Park, MD, USA

2 USDA, ARS, Avian Disease and Oncology Laboratory, East Lansing, MI, USA

3 Laboratory of Molecular Immunology, National Heart, Lung and Blood Institute, National Institutes of Health, Bethesda, MD, USA

For all author emails, please log on.

BMC Genomics 2012, 13:557  doi:10.1186/1471-2164-13-557

Published: 16 October 2012

Additional files

Additional file 1:

Figures S1 to S9. Supplementary Figures S1 to S9.

Format: PDF Size: 668KB Download file

This file can be viewed with: Adobe Acrobat Reader

Open Data

Additional file 2:

Differential H3K4me3 marks. Genome-wide differential H3K4me3 marks produced by DESeq (FDR < 0.4) and the associated genes. P-values from three contrasts are displayed as follows: 63: 63I vs 63N, 72: 72I vs 72N, 63v72N: 63N vs 72N. 63I: line 63 infected, 63N: line 63 control, 72I: line 72 infected, 72N: line 72 control.

Format: XLSX Size: 13KB Download file

Open Data

Additional file 3:

Differential H3K27me3 marks.Genome-wide differential H3K27me3 marks produced by DESeq (FDR < 0.4) and the associated genes. P-values from three contrasts are displayed as follows: 63: 63I vs 63N, 72: 72I vs 72N, 63v72N: 63N vs 72N. 63I: line 63 infected, 63N: line 63 control, 72I: line 72 infected, 72N: line 72 control.

Format: XLSX Size: 14KB Download file

Open Data

Additional file 4:

Putative bivalent genes from colocalization analysis of H3K4me3 and H3K27me3.

Format: XLSX Size: 11KB Download file

Open Data

Additional file 5:

Functional annotation clustering of bivalent genes using DAVID.

Format: XLSX Size: 30KB Download file

Open Data

Additional file 6:

Sequencing results showing raw and mapped reads for each sample.

Format: XLSX Size: 10KB Download file

Open Data

Additional file 7:

Primers used for quantitative PCR validation.

Format: XLSX Size: 10KB Download file

Open Data