(A) Graphical summary of modular screening workflow where motility measurement is followed by acrosome reaction (AR) measurement allowing a screening throughput of >1400 compounds per donor pool (B) …
(A) Example data for a single sperm track with x and y coordinates being used to calculate standard sperm kinetics. Colour represents the cumulative distance travelled in microns. Acronyms: VCL …
(A) Distribution of average path velocities (VAP) for sperm motility classes (IM = immotile; NPM = non progressively motile; PM = progressively motile), using data from two positions within each …
(A) Primary screening results of the motility assay. Each dot represents a well (either compound or control well) showing % of DMSO control (Curvilinear Velocity: VCL). Positive controls …
R Code for Figure 2 primary motility assay.
R Code for Figure 2—source data 1 dose response confirmation motility assay.
Dose response and additional data for primary motility hits.
Compound names and nominal target/functional annotation shown on left along with chemical structure and physico-chemical properties. The 8-point dose response curves for each hit with estimated Hill slope, EC50 and Efficacy [% max reduction] are shown on the right. Two data points per concentration (n = 2); data points are Mean ± SD. A 4-parameter logistic fit has been performed using R package: dr4pl. Calculated EC50 values and Efficacy (% max effect) in the motility assay are shown in the right hand section. CC50 values for HEK293 and HepG2 CellTiter-Glo cytotoxicity assays performed by CALIBR (www.reframedb.org) are shown in the right hand section. Note: 0 = inactive in cytotoxicity assay. The chemical structure of the hit compound is shown as well as some annotation and physicochemical properties (for nomenclature description see Figure 2). See Figure 2—source data 2 along with Figure 2—source code 2.
Dose response confirmation data motility assay.
Different donor pools analysed on three different days are represented by the three different colours. Data shown are four technical replicates per donor pool for DMSO/Disulfiram and two technical …
R code for Figure 2—figure supplement 1 Disulfiram washout assay.
Disulfiram washout data.
(A) Results of primary screening of the library using the acrosome assay (live cells, acrosome reacting, Pi- PNA+ population). Each dot represents a well (either compound or control well). Shown is …
R Code for Figure 2 primary acrosome assay.
R Code for Figure 3—source data 2 dose response confirmation acrosome assay.
Primary screening data acrosome assay.
Dose response and additional data for primary AR hits.
Compound names and nominal target/functional annotation shown on left along with chemical structure and physico-chemical properties. The 8-point dose response curves for each hit with estimated Hill slope, EC50 and Efficacy [% max induction] values are shown on the right. Two data points per concentration (n = 2); data points are Mean ± SD. A 4-parameter logistic fit has been performed using R package: dr4pl. CC50 values for HEK293 and HepG2 CellTiter-Glo cytotoxicity assays performed by CALIBR (www.reframedb.org) are shown in the right hand section. Note: 0 = inactive in cytotoxicity assay. Physicochemical properties were calculated using RDKit, Python and KNIME: SlogP = partition coefficient (Wildman and Crippen, 1999); TPSA is the Topological Polar Surface Area (Ertl et al., 2000); MW is the exact Molecular weight; QED = Quantitative Estimate of Drug-likeness (Bickerton et al., 2012). See Figure 3—source data 3 along with Figure 3—source code 2 .
Dose response confirmation data acrosome assay.
Tracking is overlayed in each panel. Colour coding is detailed in Figure 2.
Reagent type (species) or resource | Designation | Source or reference | Identifiers | Additional information |
---|---|---|---|---|
Biological sample (Homo sapien) | Live spermatozoa | Donated semen samples | Local ethical approval (13/ES/0091) | |
Antibody | Lectin PNA (Arachis hypogaea), Alexa Fluor 448 Conjugate | ThermoFisher Scientific | ThermoFisher:L21409; RRID: AB_2315178 | Stored as 1 mg/mL stock in DMSO; used at 1:1000 final dilution |
Commercial assay or kit | Propidium Iodide; Live/Dead Sperm Viability kit, | ThermoFisher Scientific | ThermoFisher:L7011, | Stored as 2.4 mM stock; used at a 1:2000 final dilution |
Chemical compound, drug | ReFRAME (Repurposing, Focused Rescue, and Accelerated Medchem) library | CALIBR at the Scripps Institute; Publication (Janes et al., 2018) | www.reframedb.org | |
Chemical compound, drug | Pristimerin | Merck | Merck:530070 | Stored as 10 mM stock in DMSO; used at final concentration of 20 µM |
Chemical compound, drug | calcium ionophore (A23187) | Sigma-Aldrich | Sigma-Aldrich:C7522 | Stored as 10 mM stock in DMSO, used at a final concentration of 10 µM) |
Chemical compound, drug | Disulfiram | Tocris | Tocris:3807 | Stored as 10 mM stock in DMSO, used at 10 μM final concentration |
Software, algorithm | Trackpy v0.4.1 | Zenodo. (http://doi.org/10.5281/zenodo.1226458) | Publication: (Crocker and Grier, 1996); Publication: (Allan, 2018) | |
Software, algorithm | FFMPEG | FFmpeg Developers (http://ffmpeg.org) | RRID:SCR_016075 | |
Software, algorithm | Bioconductor packages | Bioconductor (https://bioconductor.org) | RRID:SCR_006442 | flowCore, flowDensity, flowWorkspace, ggcyto |
Software, algorithm | HDF5 | HDF Group (www.hdfgroup.org) | ||
Software, algorithm | dr4pl | Dr4pl (https://cran.r-project.org/web/packages/dr4pl/index.html) | ||
Software, algorithm | Code used for data analysis | This paper | The R code used for data analysis is included in the supplement files accompanying this paper | |
Software, algorithm | KNIME | Berthold et al., 2008 | https://www.knime.com | |
Software, algorithm | RDKit | RDKit, 2018 | https://www.rdkit.org |
Data of Supplementary file 1.
Data of Supplementary file 2.
Compounds that had a significant effect on sperm motility.
Summary of dose response experiments of primary motility hits with estimated EC50 and Efficacy [% reduction] values. Information and names were provided by Calibr. See Source data 1.
Compounds that had a significant effect on Acrosome Reaction.
Summary of dose response experiments of primary acrosome hits with estimated EC50 and Efficacy [% increase] values. Information and names were provided by Calibr. Note that none of these compounds passed orthogonal counter screening and are considered as assay interfering compounds/false positives. See Source data 2.