ChIP User Experience Link

From BioInfo

Link 1

• Name: Ravi A.
• Lab Group: Cairns lab
• Date: 13Sept2011
• Request ID: 8341
  • Cell Type: H1 and hNPC
  • Ab: TFIIIC
• Shear Method: Manual Sonnicator
  • Cells/ml:
  • Shear Time: 20X of 30 seconds ON and 40 second OFF
  • Power Setting: 3-4
  • Input size range on gel: 200-600 bp
• IP Conditions
  • IP Kit: Home brew
  • IP protocol: Lab protocol
  • Cleanup of IP: Qiagen PCR cleanup
  • qPCR: 4-10X enrichment
• Re-fragment: Bioruptor
  • Shear time: 15 minutes of 30 seconds ON and 30 seconds OFF
  • Shear power:
• Library prep: TruSeq RNA sample prep kit
  • PCR cycles: 10 cycles
  • PCR enzyme: Phusion polymerase
• Illumina Sequencing
  • Number of reads per sample:
  • Number of mapped reads
  • Enriched sites: 1500 regions in H1_TFIIIC ChIP (FDR 0.1%), 1100 regions in NPC_TFIIIC ChIP (FDR 1%)

Link 2