1. Applied Genomics Technology Center

2. DNA mRNA Protein transcriptiontranslation DNA isolation DNA sequencing Genotyping Gene linkage mapping Protein purification Enzymology Immunohistochemistry Western Blot analysis Protein microarrays Ab microarrays Yeast 2 hybrid analysis RNA isolation Expression analysis Microarrays QRT-PCR www.AGTC.med.wayne.edu

8. Illumina GAII 2 - 4TB IPAR Primary Server Illumina Pipeline Failover & Reanalysis Server Testbed Server 30TB Direct Attached Storage 30TB Direct Attached Storage 10TB Direct Attached Storage 48TB NAS Backup Mirror (C&IT) 3x R900 64GB RAM User Data Delivery & Downstream Analysis eg Genomatix

9. Whole Genome Maps from the base pair to the chromosome Ruden Lab, IEHS

10. Coverage/deletion maps Synonymous/Non-synonymous polymorphism

11. Histone Locations Relative to All Promoters Permuted Control Histone Locations Relative to Alu/B1 Repeats Full ALU Repeat LengthDownstream (Genic) 2kbase Krawetz Lab

12. Small RNA Digital Gene Expression 4 manuscripts in preparation using Solexa data At the end of spermatogenesis the DNA is not methylated small RNAs may transfer the information for methylation Discovery of a new class of small, non-coding RNAs of unknown function LibraryAlignments# Sequences AS062≤10625582 Unique552332 AS064≤10225563 Unique110805 AS066≤10528475 Unique285078 Peak of intergenic location found with high representation in all 3 libraries and showing miRNA potential (hairpin) Most of the reads don’t correspond to known sncRNAs Krawetz Lab

13. Ruden Bee Project Genetics and Genomics of Social Behavior Phase I funding for a Glue Grant PI: Gene Robinson (UIUC) 27 Co-PIs Pilot Project: Genome sequencing and bisulfite sequencing of European honey bees and Africanized killer bees (funded by WSU OVPR and Ob/Gyn) Progress: 4 Libraries have been established and about 50% of the sequencing is complete 3 lanes of Sequencing and 1 lane of BS-Seq have been analyzed for each strain Results: 9 Loci on chromosome 1 have >5:1 mC ratios (Eur:Afr) 43 loci on chromosome 1 have >5:1 mC ratios (Afr:Eur)

14. Ruden Bee Project Preliminary Results FMRFamide Receptor neuropepetide receptor Methylated in Africanized bees in three regions Involved in agression in mice (PMID: 7630503) defense behavior in snails (PMID: 2067975) Kainate Glutamate Receptor Methylated in Euopean bees in two regions Kainate induces aggression in mice (PMID: 15123017) GAT1 Methylated in African bees Deletion of GAT1 in mice causes “reduced agression” (PMID 17183588)

15. Ruden Bee Project Future Experiments How much DNA methylation is Genetic and how much is Environmentally induced? Next step Cross Fostering Experiment Killer bee soldiers in European hives European bee soldiers in Killer bee hives NIH Pioneer Award PI: Gene Robinson

16. Human DBS DNA Methylation DBS from 28 children with varying Pb levels was obtained from MDCH (3 to 16 ug/dL) PB levels (CDC) High:10 ug/dL Low: 3 ug/dL Illumina Whole Genome Methylation Arrays (27,576 CpG islands) Results: Several loci have mC with significant correlations to Pb exposure 5 genes involved in myelination (Mbp, Edg2, Mag, Pmp22, and Ugt8) 6 genes involved in growth factor signaling (FGfr1, Gzd3, Erbb3, Mag, Pmp22 and Ugt 8) All of these genes have prior evidence of differential expression in human postmortem brains from mood disorder subjects (Le-Niculescu et al., 2009)

17. Human DBS DNA Methylation CpGCorrP-value 1-0.520.005 2-0.540.003 overall0.000015