H12/UGS/2/3

This page describes a signal of selection found in the Uganda An. gambiae populationusing the H12 (Garud et al. 20XX) statistic.The focus of this signal is on chromosome arm 2L between positions 34,074,895 and 34,134,895. 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 18 genes overlap the focal region: AGAP006540 (LIM homeobox protein), AGAP006541 (Transcriptional regulators containing a dna-binding hth domain and an aminotransferase domain transcription regulator protein), AGAP006542 (cactin), AGAP006543, AGAP028608, AGAP006546, AGAP006547, AGAP006548 (glycine cleavage system H protein), AGAP006549, AGAP006550, AGAP006551, AGAP006552, AGAP006553, AGAP006554, AGAP006555, AGAP006556, AGAP006557, AGAP006558.

The following 15 genes are within 50 kbp of the focal region: AGAP006539 (eupolytin), AGAP006559, AGAP006560, AGAP006561, AGAP006562, AGAP006563, AGAP006564, AGAP028429, AGAP006566, AGAP028428, AGAP006567, AGAP006568, AGAP006569 (acetyl-CoA synthetase), AGAP006570 (myo-inositol-1(or 4)-monophosphatase), AGAP006571 (nuclear receptor subfamily 1 group D member 3).

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

Overlapping selection signals

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

Signal Statistic Population Focus Peak model \Delta_{i} Max. percentile Known locus
IHS/UGS/2/2 IHS Uganda An. gambiae 2L:33,934,895-34,194,895 860 100.0% nan
XPEHH/UGS.BFS/2/2 XPEHH Uganda An. gambiae 2L:34,134,895-34,234,895 487 98.3% nan
XPEHH/UGS.GWA/2/2 XPEHH Uganda An. gambiae 2L:34,114,895-34,214,895 422 95.2% nan
XPEHH/UGS.CMS/2/3 XPEHH Uganda An. gambiae 2L:34,134,895-34,234,895 342 99.2% nan

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_exponential_peak)
[[Fit Statistics]]
    # function evals   = 28
    # data points      = 396
    # variables        = 4
    chi-square         = 0.070
    reduced chi-square = 0.000
    Akaike info crit   = -3411.239
    Bayesian info crit = -3395.313
[[Variables]]
    center:      0 (fixed)
    amplitude:   0.38628754 +/- 0.005626 (1.46%) (init= 0.5)
    decay:       0.44678380 +/- 0.009938 (2.22%) (init= 0.5)
    skew:        0.26836316 +/- 0.021367 (7.96%) (init= 0)
    baseline:    0.01734492 +/- 0.000767 (4.42%) (init= 0.03)
    ceiling:     1 (fixed)
    floor:       0 (fixed)
[[Correlations]] (unreported correlations are <  0.100)
    C(amplitude, decay)          = -0.655
    C(decay, baseline)           = -0.357
    C(decay, skew)               = -0.122

Null model:

[[Model]]
    Model(constant)
[[Fit Statistics]]
    # function evals   = 9
    # data points      = 395
    # variables        = 1
    chi-square         = 1.431
    reduced chi-square = 0.004
    Akaike info crit   = -2218.090
    Bayesian info crit = -2214.111
[[Variables]]
    c:   0.03856684 +/- 0.003032 (7.86%) (init= 0.03)

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