Welcome to the BEAN-counter homepage!

BEAN-counter is a software pipeline developed within the Myers lab at the University of Minnesota to score genetic
interactions from multiplexed, pooled barcode sequencing experiments. This website serves as a repository for
commonly-used BEAN-counter configuration files and the example dataset used in our recently-submitted protocol.

Gene barcode files

File Description Hypersensitized? (pdr1/pdr3/snq2)
Sc_hap_del_wg_hs_v1.txt S. cerevisiae haploid whole genome gene deletion collection Yes
Sc_hap_del_mp_hs_v1.txt Diagnostic subset of S. cerevisiae haploid whole genome gene deletion collection Yes
Sc_HETDIP_hs_essentials_v1.txt S. cerevisiae essential gene heterozygous diploid deletion collection Yes
Sc_TS-essential_hs_v3.txt S. cerevisiae essential gene haploid temperature-sensitive mutant collection Yes
Sc_MoBY_ORF_v1.txt S. cerevisiae MoBY-ORF gene overexpression collection No
Sp_hap_del_wg_v2.txt S. pombe haploid whole genome gene deletion collection No
Ca_del_wg_bc20.txt C. albicans whole genome homozygous gene deletion collection No


Amplicon structure files

File Description
Sc_hap_MP-WG-HET-MoBY.yaml For all screens performed with 10bp-indexed forward primers using the barcoding scheme in the S. cerevisiae WG deletion, HETDIP-essential, or MoBY collections
Sc_hap_TS_ix10.yaml For all screens performed with 10bp-indexed forward primers using the barcoding scheme in the S. cerevisiae TS-essential collection
Sp_hap_WG_ix10.yaml For all screens performed with 10bp-indexed forward primers using the barcoding scheme in the S. pombe WG deletion collection
Sp_hap_WG_ix8.yaml For all screens performed with 8bp-indexed forward primers using the barcoding scheme in the S. pombe WG deletion collection
Ca_del_wg_bc20.yaml For all screens performed with 10bp-indexed forward primers using the length 20 barcodes in the C. albicans WG deletion collection


Example dataset

The example dataset is located here.