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

This page describes a signal of selection found in the Guinea An. gambiae population using the H12 (Garud et al. 20XX) statistic.The focus of this signal is on chromosome arm 2L between positions 1,760,001 and 2,700,000. 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 25 genes overlap the focal region: AGAP028435, AGAP004695 (ESCRT-I complex subunit MVB12), AGAP004696 (exd - Homeobox protein extradenticle), AGAP004698 (pre-mRNA-splicing factor 38B), AGAP004699 (RAF proto-oncogene serine/threonine-protein kinase), AGAP004700, AGAP004701, AGAP028436, AGAP004702, AGAP004703 (DNA-directed RNA polymerase III subunit RPC1), AGAP004704 (COMPASS component SPP1), AGAP028437, AGAP004706, AGAP0047072 (para - voltage-gated sodium channel), AGAP004708 (arginyl-tRNA synthetase), AGAP004709 (mRpL18 - 39S ribosomal protein L18, mitochondrial), AGAP0047101 (ubiquinol-cytochrome c reductase subunit 9), AGAP004711 (ATP-dependent RNA helicase DDX41), AGAP004712, AGAP004713, AGAP004714, AGAP0047151 (Pyruvate dehydrogenase phosphatase regulatory subunit, mitochondrial), AGAP0047163 (Gr57 - gustatory receptor 57), AGAP004717, AGAP004718.

The following 3 genes are within 50 kbp of the focal region: AGAP004719 (CLIPC9 - CLIP-domain serine protease), AGAP004720, AGAP004721 (N-acetylglucosamine-6-sulfatase).

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 / Burkina Faso An. coluzzii / Chromosome 2 / #1 2L:2,520,001-2,900,000 1399 (800 | 599)
H12 / Burkina Faso An. gambiae / Chromosome 2 / #1 2L:2,420,001-2,720,000 1365 (680 | 685)
H12 / Uganda An. gambiae / Chromosome 2 / #2 2L:2,520,001-3,120,000 982 (573 | 409)
H12 / Cameroon An. gambiae / Chromosome 2 / #2 2L:2,420,001-2,920,000 566 (461 | 104)
H12 / Gabon An. gambiae / Chromosome 2 / #2 2L:2,600,001-2,640,000 274 (223 | 51)

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   = 144
    # data points      = 310
    # variables        = 3
    chi-square         = 3.384
    reduced chi-square = 0.011
    Akaike info crit   = -1394.419
    Bayesian info crit = -1383.210
[[Variables]]
    amplitude:   1.47883312 +/- 0.058806 (3.98%) (init= 0.5)
    decay:       0.94720432 +/- 0.054588 (5.76%) (init= 0.5)
    c:           0.05999999 +/- 0.022960 (38.27%) (init= 0.03)
    cap:         1 (fixed)
[[Correlations]] (unreported correlations are <  0.100)
    C(amplitude, decay)          = -0.788
    C(decay, c)                  =  0.758
    C(amplitude, c)              = -0.308

Right flank, peak model:

[[Model]]
    Model(exponential)
[[Fit Statistics]]
    # function evals   = 59
    # data points      = 179
    # variables        = 3
    chi-square         = 0.477
    reduced chi-square = 0.003
    Akaike info crit   = -1054.956
    Bayesian info crit = -1045.394
[[Variables]]
    amplitude:   0.89482007 +/- 0.012836 (1.43%) (init= 0.5)
    decay:       1.24021888 +/- 0.048271 (3.89%) (init= 0.5)
    c:           0.05999999 +/- 0.007524 (12.54%) (init= 0.03)
    cap:         1 (fixed)
[[Correlations]] (unreported correlations are <  0.100)
    C(decay, c)                  = -0.748
    C(amplitude, c)              = -0.303
    C(amplitude, decay)          = -0.146

Left flank, null model:

[[Model]]
    Model(constant)
[[Fit Statistics]]
    # function evals   = 6
    # data points      = 305
    # variables        = 1
    chi-square         = 28.489
    reduced chi-square = 0.094
    Akaike info crit   = -721.092
    Bayesian info crit = -717.372
[[Variables]]
    c:   0.40071818 +/- 0.017528 (4.37%) (init= 0.03)

Right flank, null model:

[[Model]]
    Model(constant)
[[Fit Statistics]]
    # function evals   = 6
    # data points      = 176
    # variables        = 1
    chi-square         = 11.947
    reduced chi-square = 0.068
    Akaike info crit   = -471.448
    Bayesian info crit = -468.277
[[Variables]]
    c:   0.27741581 +/- 0.019694 (7.10%) (init= 0.03)

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