XPEHH/UGS.CMS/2/2

This page describes a signal of selection found in the Uganda An. gambiae population when compared with the Cameroon An. gambiae population using the XPEHH (Cite et al. 20XX) statistic.The focus of this signal is on chromosome arm 2R between positions 58,120,000 and 58,520,000. The evidence supporting this signal is strong (\Delta_{i} >= 100 on both flanks).

Signal location. Blue markers show the values of the selection statistic. The dashed black line shows the fitted peak model. The shaded red area shows the focus of the selection signal. The shaded blue area shows the genomic region in linkage with the selection event. Use the mouse wheel or the controls at the top right of the plot to zoom in, and hover over genes to see gene names and descriptions.

Genes

The following 32 genes overlap the focal region: AGAP004587, AGAP004588, AGAP004589, AGAP004590, AGAP013326, AGAP004591 (acid phosphatase), AGAP004592 (splicing factor, arginine/serine-rich 4/5/6), AGAP004593 (EH domain-containing protein 1), AGAP004594 (cell division protein kinase 2), AGAP0045952 (GPRGBB2 - putative GABA-B receptor 2), AGAP004596 (PyK - pyruvate kinase), AGAP004597 (guanosine-3’,5’-bis(diphosphate) 3’-pyrophosphohydrolase), AGAP004598 (Phosphoserine aminotransferase), AGAP004599 (defense protein 3), AGAP004604, AGAP004600 (ABCC6 - ATP-binding cassette transporter (ABC transporter) family C member 6), AGAP004602 (ABCC4 - ATP-binding cassette transporter (ABC transporter) family C member 4), AGAP004603 (ABCG4 - ATP-binding cassette transporter (ABC transporter) family G member 4), AGAP004605 (zinc finger protein 830), AGAP004606 (HYPK), AGAP004607, AGAP004608, AGAP004609 (protein kinase C substrate 80K-H), AGAP004610 (signal recognition particle subunit SRP54), AGAP013073, AGAP0046111 (prolyl 4-hydroxylase), AGAP013331, AGAP004612 (phosphotransferase LOC123688), AGAP004613 (GPRDOP1 - GPCR Dopamine Family 1), AGAP004614 (DNA polymerase epsilon subunit 2), AGAP004615 (DNA polymerase epsilon subunit 1), AGAP004616 (F-type H -transporting ATPase subunit 6).

The following 3 genes are within 50 kbp of the focal region: AGAP004586 (ADP-ribosylation factor related protein 1), AGAP013140, AGAP004618.

Key to insecticide resistance candidate gene types: 1 metabolic; 2 target-site; 3 behavioural; 4 cuticular.

Diagnostics

The information below provides some diagnostics from the Peak modelling algorithm.

Selection signal in context. @@TODO

Peak targetting. @@TODO

Peak fitting diagnostics. @@TODO

Model fit reports

Peak model:

[[Model]]
    Model(skewed_gaussian)
[[Fit Statistics]]
    # function evals   = 43
    # data points      = 313
    # variables        = 4
    chi-square         = 295.146
    reduced chi-square = 0.955
    Akaike info crit   = -10.384
    Bayesian info crit = 4.601
[[Variables]]
    center:      0 (fixed)
    amplitude:   4.71366317 +/- 0.203556 (4.32%) (init= 3)
    sigma:       2.73106252 +/- 0.129513 (4.74%) (init= 0.5)
    skew:       -0.85059301 +/- 0.033079 (3.89%) (init= 0)
    baseline:    1.68268633 +/- 0.184971 (10.99%) (init= 1)
    ceiling:     100 (fixed)
    floor:       0 (fixed)
[[Correlations]] (unreported correlations are <  0.100)
    C(amplitude, baseline)       = -0.816
    C(sigma, baseline)           = -0.799
    C(amplitude, sigma)          =  0.441
    C(sigma, skew)               =  0.255
    C(skew, baseline)            = -0.154
    C(amplitude, skew)           =  0.149

Null model:

[[Model]]
    Model(constant)
[[Fit Statistics]]
    # function evals   = 13
    # data points      = 312
    # variables        = 1
    chi-square         = 916.214
    reduced chi-square = 2.946
    Akaike info crit   = 338.101
    Bayesian info crit = 341.844
[[Variables]]
    c:   4.14870045 +/- 0.097171 (2.34%) (init= 1)

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