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Pricing for Illumina HiSeq 2000 ChIP Seq Sequencing Services

Illumina HiSeq 2000 ChIP Seq Sequencing Services

Microarray Core Facility
Huntsman Cancer Institute Room 3350
2000 Circle of Hope
University of Utah
Salt Lake City, UT 84112
801-585-7192 (office)
801-581-6346 (lab)

Illumina HiSeq 2000 Sequencing Services performed at the HCI Microarray Core Facility are partially supported by NCI Cancer Support Grant P30CA042014 and by institutional support provided through the Huntsman Cancer Institute.

Pricing for ChIP Seq Sequencing Services

Service Category

Description

Pricing Unit

University of Utah Pricing

External Pricing

Sample QC QC ChIP DNA per sample $14.00 $21.00
Library Preparation ChIP Seq Library Prep per sample $150.00 $225.00
Illumina Sequencing HiSeq2000 50 Cycle Single Read Sequencing per lane $800.00 $1200.00
Library QC Post-Library Quality Control per library $20.00 $30.00
  • All ChIP DNA samples submitted to the core facility for library construction will go through quality control (Qubit picogreen measurement and quality evaluation on an Agilent Bioanalyzer High Sensitivity DNA chip) prior to library construction.
  • ChIP-seq libraries are size selected during library preparation. Therefore, it is important that chromatin is sheared to a size range between 200-600 bp. Larger fragment sizes cannot be used to construct sequencing libraries. If a substantial fraction of the ChIP sample is greater than 600 bp in size, it could result in a failed library prep or biases being introduced into the library during the pcr enrichment step of the library construction process. If we believe your sample has not been adequately fragmented (based on a bioanalzyer trace) we will contact you to see if you would like to stop further processing of the sample.
  • Barcode: All libraries constructed at the core facility will include an index barcode tag which enables multiplex sequencing if desired. qPCR is performed on all samples prior to combining indexed samples that will be run in the same lane to provide a more accurate concentration of cluster forming units in the library. Although the intention of qPCR is to equalize the molarity of all samples that contribute to a single lane, it is not perfect and one should expect that at times there will be up to a 20% deviation in the sample that is most highly represented and the one that is most lowly represented.
  • Post-Library Quality Control includes the following services: (1)NanoDrop reading, (2)Q-pcr quantitation of library concentration using Illumina primers, and (3) evaluation of library on a Agilent Bioanalyzer DNA 1000 chip. These services are included with the pricing for library construction when the library is constructed at the core facility. If the library has already been constructed when submitted to the core facility, a post-library quality control charge will be added to the charges for the sequencing.
  • Most ChIP-seq libraries are sequenced on a 50 cycle Single End Read sequencing run. However, the client can select whatever run type is needed for their project.
  • Version 3 flowcells are currently used for single end and paired end read sequencing and these have a specification of delivering 150 to 200 million passed filter reads per lane. Illumina's specification is based on samples that have previously been run at least one time since this allows you to optimize the cluster number on future runs. We attempt to meet this specification on the first run for each lane of samples.
  • Illumina sequencing flowcells contain eight lanes and all eight lanes must be filled prior to starting the sequence run. Most seqeuncing runs contain samples from multiple clients. However, we do not mix barcoded samples from different clients into a shared lane on the same flowcell.
  • A PhiX control library that is constructed by Illumina is spiked into each lane at a concentration that represents approximately 0.5% of the reads.