H12 / Gabon An. gambiae / Chromosome 3 / #5

This page describes a signal of selection found in the Gabon An. gambiae population using the H12 (Garud et al. 20XX) statistic.The focus of this signal is on chromosome arm 3L between positions 41,500,001 and 41,860,000. The evidence supporting this signal is weak (\Delta_{i} < 50 on one or 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 34 genes overlap the focal region: AGAP012388, AGAP012389 (Pangolin), AGAP012390 (Mpv17-like protein), AGAP012391, AGAP012392, AGAP012393, AGAP0123941 (peptide-methionine (S)-S-oxide reductase), AGAP0123951 (peptide-methionine (S)-S-oxide reductase), AGAP012396 (4.3 kDa secreted salivary peptide), AGAP012397 (DNA-directed RNA polymerases I, II, and III subunit RPABC3), AGAP012398 (COP9 complex subunit 7a), AGAP012399 (maltase), AGAP012400 (alpha-glucosidase), AGAP0124011 (AGM1), AGAP012402 (exosome complex component RRP43), AGAP012403, AGAP012404 (alanine–glyoxylate aminotransferase 2, mitochondrial), AGAP012405, AGAP012406 (uncharacterized protein slr0305), AGAP012407 (protein disulfide-isomerase A1), AGAP012408 (tRNA (uracil-5-)-methyltransferase), AGAP012409 (GNBPA2 - 3-glucan binding protein), AGAP012410, AGAP012411 (T-cell specific transcription factor), AGAP012412 (ceramide glucosyltransferase), AGAP012413 (CycA - cyclin A), AGAP012414 (Polypeptide N-acetylgalactosaminyltransferase (Fragment)), AGAP012415, AGAP012416 (DNA-directed RNA polymerase III subunit RPC7), AGAP012417 (Exo1 - exocyst complex component 1), AGAP012418, AGAP012419 (Feline leukemia virus subgroup C receptor-related protein 1), AGAP012420, AGAP012421.

The following 3 genes are within 50 kbp of the focal region: AGAP012387 (TOLL6 - TOLL-like receptor 6), AGAP012422 (WNK lysine deficient protein kinase), AGAP012423.

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

Left flank, peak model:

[[Model]]
    Model(exponential)
[[Fit Statistics]]
    # function evals   = 55
    # data points      = 148
    # variables        = 3
    chi-square         = 0.020
    reduced chi-square = 0.000
    Akaike info crit   = -1309.190
    Bayesian info crit = -1300.198
[[Variables]]
    amplitude:   0.04145743 +/- 0.005360 (12.93%) (init= 0.5)
    decay:       0.70374472 +/- 0.159113 (22.61%) (init= 0.5)
    c:           0.02830591 +/- 0.001345 (4.75%) (init= 0.03)
    cap:         1 (fixed)
[[Correlations]] (unreported correlations are <  0.100)
    C(decay, c)                  = -0.556
    C(amplitude, decay)          = -0.555

Right flank, peak model:

[[Model]]
    Model(exponential)
[[Fit Statistics]]
    # function evals   = 110
    # data points      = 19
    # variables        = 3
    chi-square         = 0.002
    reduced chi-square = 0.000
    Akaike info crit   = -168.518
    Bayesian info crit = -165.685
[[Variables]]
    amplitude:   0.10166609 +/- 0.138658 (136.39%) (init= 0.5)
    decay:       1.10165017 +/- 2.229539 (202.38%) (init= 0.5)
    c:           3.4234e-10 +/- 0.006166 (1801337598.03%) (init= 0.03)
    cap:         1 (fixed)
[[Correlations]] (unreported correlations are <  0.100)
    C(amplitude, c)              = -0.999
    C(decay, c)                  = -0.996
    C(amplitude, decay)          =  0.992

Left flank, null model:

[[Model]]
    Model(constant)
[[Fit Statistics]]
    # function evals   = 6
    # data points      = 147
    # variables        = 1
    chi-square         = 0.030
    reduced chi-square = 0.000
    Akaike info crit   = -1246.392
    Bayesian info crit = -1243.401
[[Variables]]
    c:   0.03303419 +/- 0.001184 (3.59%) (init= 0.03)

Right flank, null model:

[[Model]]
    Model(constant)
[[Fit Statistics]]
    # function evals   = 6
    # data points      = 18
    # variables        = 1
    chi-square         = 0.005
    reduced chi-square = 0.000
    Akaike info crit   = -146.980
    Bayesian info crit = -146.090
[[Variables]]
    c:   0.07017963 +/- 0.003868 (5.51%) (init= 0.03)

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