Automated Protocols for Library Preparation
on IP-Star® Compact Automated System

Unique Platform for Epigenetic Research

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Automated NGS Library Preparation Protocols on the IP-Star® Compact

  • Quick and easy set up, 15 minutes hands-on time
  • Compatible with multiplexing protocols
  • Process 16 samples per day
  • Clean up of adaptors and size selection using AMPure XP beads
  • PCR amplification is optional
  • Recommended with Bioruptor® for DNA fragmentation

Automated library prep protocols for ChIP-seq workflow

  • Illumina® TruSeq™ ChIP Sample Prep
  • NEBNext® ChIP-Seq Library Prep for Illumina®

Validated automated protocols for genomic libraries

  • Illumina® TruSeq™ DNA Sample Prep
  • Down to 100 ng starting material (1 µg standard)
Automated steps

Library generation with the IP-Star® Compact in combination
with the Illumina™ TruSeq® ChIP SamplePrep kit

ChIP with H3K4me3

ChIP assay was performed on 1 million HeLa cells with Diagenode H3K4me3 antibody and IgG from rabbit (1 µg/IP). Results GADPH and EIF4A2 promoter regions were tested as positive binding sites and Sat2 and Myo. Ex. 2 as negative binding sites for H3K4me3.

Result 1

Library was prepared with the IlluminaTM TruSeq® ChIP SamplePrep kit from 5ng as starting material and no Size Selection. The generated library was then analyzed on a Bioanalyzer 2100 and DNA High Sensitivity chip.

Result 2

Library was prepared with the IlluminaTM TruSeq® ChIP SamplePrep kit from 5ng as starting material and a Size Selection was performed with AMPure XP beads to get 250 bp fragments size. The generated library was then analyzed on a Bioanalyzer 2100 and DNA High Sensitivity chip.

Protocol Validated by Dr Henny O'Geen1 and Dr Eric Kofoid2

      1. UC Davis DNA Technologies Facility
      2. Roth's Lab UC Davis.

"The quantity of data and their quality were nothing short of spectacular, especially by comparison with previous Illumina/Solexa sequences we've done over the last three years."

Eric Kofoid , Roth's Lab, Microbiology department,UC Davis ,CA

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Studying amplifications and duplications in a genome sequence of a Salmonella strain

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Read depth profile for Salmonella strain TT26420
Sequencing PCR-free libraries were prepared in the IP-Star® Automated System and using 1 µg of genomic DNA from Salmonella strain TT26420 and reagents from Illumina's TruSeq kit. The goal of the experiment was to detect amplifications and duplications in the Salmonella strain. A duplication occurred through REP clusters at 4201616-4400649 (just after rrnA & 4400149-4400182 (just after rrnE).

Overall read depth: 666.40
Std. dev.: 152.20
Read depth (unamplified): 637.62
Std. dev.: 46.08
Read depth (amplified): 1377.27
Std. dev.: 130.57
Amplification ratio:

"The ability to use the IP-Star® for library preparation adds enormous value to our group as it processes 8 samples in parallel. We routinely produce libraries from 100 ng DNA. Although we have been able to produce libraries starting from concentrations as low as 50 ng."

Yung Shwen Ho & Mridul Nair King Abdullah University of Science and Technology

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Plasmodium Knowlesi a malaria parasite was sequenced on the Illumina HiSeq-2000
next-generation sequencing platform

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450kb region of chromosome 14 in Plasmodium Knowlesi with the coverage across the genome with respect to varying GC content.