H12 / Uganda An. gambiae / Chromosome 2 / #1

This page describes a signal of selection found in the Uganda An. gambiae population using the H12 (Garud et al. 20XX) statistic.The focus of this signal is on chromosome arm 2R between positions 28,420,001 and 28,520,000. 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 12 genes overlap the focal region: AGAP002859 (solute carrier family 8 (sodium/calcium exchanger)), AGAP0028621 (CYP6AA1 - cytochrome P450), AGAP0131281 (CYP6AA2 - cytochrome P450), AGAP0028631 (COEAE6O - carboxylesterase alpha esterase), AGAP0028641 (CYP6P15P - cytochrome P450), AGAP0028651 (CYP6P3 - cytochrome P450), AGAP0028661 (CYP6P5 - cytochrome P450), AGAP0028671 (CYP6P4 - cytochrome P450), AGAP0028681 (CYP6P1 - cytochrome P450), AGAP0028691 (CYP6P2 - cytochrome P450), AGAP0028701 (CYP6AD1 - cytochrome P450), AGAP013202.

The following 7 genes are within 50 kbp of the focal region: AGAP002858 (Sodium/potassium-transporting ATPase subunit alpha), AGAP000586, AGAP002872 (lipase), AGAP002873, AGAP013069, AGAP002874, AGAP002875 (protein HEXIM1/2).

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

Overlapping signals

The following selection signals have a focus which overlaps with the focus of this signal.

Signal Focus Score (Left | Right)
H12 / Cameroon An. gambiae / Chromosome 2 / #1 2R:28,400,001-28,440,000 910 (469 | 441)
H12 / Guinea An. gambiae / Chromosome 2 / #2 2R:28,420,001-28,540,000 848 (493 | 354)
H12 / Burkina Faso An. gambiae / Chromosome 2 / #3 2R:28,440,001-28,520,000 753 (371 | 382)
H12 / Burkina Faso An. coluzzii / Chromosome 2 / #3 2R:28,420,001-28,560,000 557 (369 | 188)

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

Left flank, peak model:

[[Model]]
    Model(exponential)
[[Fit Statistics]]
    # function evals   = 23
    # data points      = 151
    # variables        = 3
    chi-square         = 0.032
    reduced chi-square = 0.000
    Akaike info crit   = -1269.823
    Bayesian info crit = -1260.771
[[Variables]]
    amplitude:   0.52948475 +/- 0.007296 (1.38%) (init= 0.5)
    decay:       0.57330194 +/- 0.013208 (2.30%) (init= 0.5)
    c:           0.02210332 +/- 0.001526 (6.91%) (init= 0.03)
    cap:         1 (fixed)
[[Correlations]] (unreported correlations are <  0.100)
    C(amplitude, decay)          = -0.583
    C(decay, c)                  = -0.484

Right flank, peak model:

[[Model]]
    Model(exponential)
[[Fit Statistics]]
    # function evals   = 23
    # data points      = 149
    # variables        = 3
    chi-square         = 0.034
    reduced chi-square = 0.000
    Akaike info crit   = -1244.401
    Bayesian info crit = -1235.389
[[Variables]]
    amplitude:   0.75940105 +/- 0.008942 (1.18%) (init= 0.5)
    decay:       0.53929390 +/- 0.009795 (1.82%) (init= 0.5)
    c:           0.01598470 +/- 0.001559 (9.76%) (init= 0.03)
    cap:         1 (fixed)
[[Correlations]] (unreported correlations are <  0.100)
    C(amplitude, decay)          = -0.660
    C(decay, c)                  = -0.470

Left flank, null model:

[[Model]]
    Model(constant)
[[Fit Statistics]]
    # function evals   = 6
    # data points      = 150
    # variables        = 1
    chi-square         = 1.515
    reduced chi-square = 0.010
    Akaike info crit   = -687.328
    Bayesian info crit = -684.317
[[Variables]]
    c:   0.07073491 +/- 0.008231 (11.64%) (init= 0.03)

Right flank, null model:

[[Model]]
    Model(constant)
[[Fit Statistics]]
    # function evals   = 6
    # data points      = 148
    # variables        = 1
    chi-square         = 2.593
    reduced chi-square = 0.018
    Akaike info crit   = -596.558
    Bayesian info crit = -593.560
[[Variables]]
    c:   0.07795459 +/- 0.010917 (14.01%) (init= 0.03)

Comments