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APA Variant and Reference Libraries
(Pooled Library #1000000214)

  • Purpose

    Libraries made to experimentally validate a residual neural network model's (APARENT2) predictions for 3′-cleavage and polyadenylation from DNA sequence. 100 reference and 100 variant sequences were cloned into a reporter and are available as plasmid libraries. APA profiling data was obtained from RNA-seq of 3 different cell lines (HEK293T, SK-N-SH, and HMC3) with 2 replicates of each library. Polyadenylation cleavage position was determined for mapped reads, and then UMIs were collapsed to determine measured variant log odds ratio of cleavage.


Item Catalog # Description Quantity Price (USD)
Pooled Library 1000000214
  • Two tubes
    • #193783, APA Variant Library
    • #193784, APA Reference Library
1 $ 540 Add to Cart
Available to Academic and Nonprofits Only

Library Details

  • Sequences per library
  • Insert Size
    234 nt

Library Shipping

This library is delivered as suspended DNA in microcentrifuge tubes on blue ice. The tubes contents will not necessarily be frozen. For best results, minimize freeze-thaws.

  • Volume
    ∼25 µL
  • Concentration
    25 ng/µL

Depositor Comments

Please visit for bioRxiv preprint.

How to cite this pooled library ( Back to top )

These pooled libraries were created by your colleagues. Please acknowledge the Principal Investigator, cite the article in which the plasmids were described, and include Addgene in the Materials and Methods of your future publications.

  • For your Materials & Methods section:

    APA Variant and Reference Libraries were a gift from Seelig Georg (Addgene #1000000214)
  • For your References section:

    Deciphering the impact of genetic variation on human polyadenylation using APARENT2. Linder J, Koplik SE, Kundaje A, Seelig G. Genome Biol. 2022 Nov 5;23(1):232. doi: 10.1186/s13059-022-02799-4 PubMed 36335397