NEXTflex-96™ ChIP-Seq Barcodes

For high throughput multiplexing with low input DNA-seq applications

Catalog# Product Name Quantity US List Price
NOVA-514124 NEXTflex-96™ ChIP-Seq Barcodes (in 96-well plates) 768 rxns $3,567 Buy Now


  • Compatible with ChIP-seq and very low input DNA-seq applications using NEXTflex ChIP-Seq and NEXTflex Rapid DNA-Seq Kits
  • 8 nt index contained within adapter sequence
  • Considerably reduce your per-sample sequencing cost by barcoded multiplexing
  • Increase your sequencing scale by pooling several samples on a single flow cell
  • Customized plating options available
  • Compatible with Illumina next-generation sequencing platforms 


The NEXTflex-96™ ChIP-Seq Barcodes can be used to provide flexibility and high-throughput capabilities in sequencing applications. They significantly increase scale while reducing costs by allowing the user to pool multiple library preparations in a single flow cell lane. The NEXTflex-96 ChIP-Seq Barcodes kits accomplish this by using an indexed adapter with an 8 nt unique sequence. This allows for proper differentiation between samples, preventing poor reads caused by single base errors introduced during PCR. The NEXTflex index is contained within the adapter sequence, eliminating the need to perform PCR to add flow cell binding sequences. The NEXTflex-96 ChIP-Seq Barcode index sequences are designed to have a hamming distance of 4, allowing discrimination of different barcodes even in the case of an error in the barcode read. These Illumina-compatible adapters are available in custom formats. 

Do you want to index your samples but don’t want to use 96 different barcodes? We also offer the NEXTflex ChIP-Seq Barcodes in sets of 6, 12, 24, and 48 barcodes. 

These barcodes can be used with single, paired-end, and multiplex reads and are compatible with the NEXTflex Rapid DNA-Seq Kit and the NEXTflex ChIP-Seq Kits and other low input DNA-seq protocols.

For larger volume requirements, customized and bulk packaging is available. Please contact for further information.  

Avoiding registration failure with low level multiplexing

Registration failure could occur if the color balance was not maintained between the red and green lasers (used to sequence A/C bases and G/T bases, respectively). Read Bioo Scientific’s recent blog post, Tech Tips – Barcode Recommendations for Low Level Multiplexing, to learn how to avoid registration failure on an Illumina sequencer caused by lack sufficient index sequence diversity. 

Selected Publications that Reference Using the NEXTflex-96 ChIP-Seq Barcodes:

Derboven, E., Ekker, H., Kusenda, B., Bulankova, P., Riha K. (2014) Role of STN1 and DNA Polymerase α in Telomere Stability and Genome-Wide Replication in Arabidopsis. PLoS Genetics. DOI: 10.1371/journal.pgen.1004682

Jiang, L. et al. (2014) ZBED6 Modulates the Transcription of Myogenic Genes in Mouse Myoblast Cells. PLoS ONE 9(4): e94187. doi: 10.1371/journal.pone.0094187

Thakur J. and Sanyal K. (Feb 2013) Efficient neocentromere formation is suppressed by gene conversion to maintain centromere function at native physical chromosomal loci in Candida albicans. Genome Research. doi: 10.1101/gr.141614.112

Yamane A. et al. (2013) RPA Accumulation during Class Switch Recombination Represents 5′–3′ DNA-End Resection during the S–G2/M Phase of the Cell Cycle. Cell Reports.

Kit Specs

The NEXTflex-96™ ChIP-Seq Barcodes Kits contain 8 reactions each of 96 unique barcodes, enabling the user to multiplex up to 96 samples. This kit is shipped on dry ice.

Kit Contents

NEXTflex-96™ ChIP HT Adapter (0.6 µM)
NEXTflex™ ChIP Primer Mix (12.5 µM)

Sequences of NEXTflex-96 ChIP-Seq Barcode Indexes - Excel / PDF

Instructions for installing NEXTflex Barcode Indices in Illumina Experiment Manager