{ "metadata": { "name": "", "signature": "sha256:3845a55a0fd4d9374975997cea01dcc4a61e81b62c43cbcf4d377bcf647728d3" }, "nbformat": 3, "nbformat_minor": 0, "worksheets": [ { "cells": [ { "cell_type": "markdown", "metadata": {}, "source": [ "
\n", " | H | \n", "p | \n", "q | \n", "
---|---|---|---|
TP53 | \n", "48.88 | \n", "2.72e-12 | \n", "4.59e-09 | \n", "
CASP8 | \n", "24.06 | \n", "9.33e-07 | \n", "7.87e-04 | \n", "
HRAS | \n", "19.74 | \n", "8.85e-06 | \n", "4.98e-03 | \n", "
PRDM9 | \n", "12.88 | \n", "3.31e-04 | \n", "1.40e-01 | \n", "
FAM83G | \n", "11.12 | \n", "8.56e-04 | \n", "2.89e-01 | \n", "
PIK3CA | \n", "10.77 | \n", "1.03e-03 | \n", "2.89e-01 | \n", "
SPEF2 | \n", "9.82 | \n", "1.73e-03 | \n", "4.16e-01 | \n", "
PCLO | \n", "9.47 | \n", "2.09e-03 | \n", "4.40e-01 | \n", "
DOPEY2 | \n", "8.73 | \n", "3.14e-03 | \n", "5.88e-01 | \n", "
SNAPC4 | \n", "8.05 | \n", "4.54e-03 | \n", "7.58e-01 | \n", "
10 rows \u00d7 3 columns
\n", "\n", " | H | \n", "p | \n", "q | \n", "
---|---|---|---|
TP53 | \n", "43.15 | \n", "5.06e-11 | \n", "8.54e-08 | \n", "
CASP8 | \n", "23.81 | \n", "1.06e-06 | \n", "8.98e-04 | \n", "
HRAS | \n", "19.56 | \n", "9.73e-06 | \n", "5.47e-03 | \n", "
PRDM9 | \n", "13.10 | \n", "2.95e-04 | \n", "1.24e-01 | \n", "
FAM83G | \n", "10.82 | \n", "1.01e-03 | \n", "3.28e-01 | \n", "
PIK3CA | \n", "10.54 | \n", "1.17e-03 | \n", "3.28e-01 | \n", "
DOPEY2 | \n", "10.16 | \n", "1.44e-03 | \n", "3.44e-01 | \n", "
PCLO | \n", "9.92 | \n", "1.63e-03 | \n", "3.44e-01 | \n", "
SPEF2 | \n", "9.60 | \n", "1.95e-03 | \n", "3.64e-01 | \n", "
SNAPC4 | \n", "9.41 | \n", "2.16e-03 | \n", "3.64e-01 | \n", "
10 rows \u00d7 3 columns
\n", "\n", " | H | \n", "p | \n", "q | \n", "
---|---|---|---|
5q11.2 | \n", "66.52 | \n", "3.47e-16 | \n", "1.66e-14 | \n", "
1p13.2 | \n", "59.27 | \n", "1.38e-14 | \n", "3.30e-13 | \n", "
3p12.2 | \n", "57.34 | \n", "3.66e-14 | \n", "4.60e-13 | \n", "
5q35.3 | \n", "57.25 | \n", "3.83e-14 | \n", "4.60e-13 | \n", "
5q15 | \n", "56.71 | \n", "5.06e-14 | \n", "4.86e-13 | \n", "
5 rows \u00d7 3 columns
\n", "\n", " | H | \n", "p | \n", "q | \n", "
---|---|---|---|
12p13.33 | \n", "70.64 | \n", "4.28e-17 | \n", "1.11e-15 | \n", "
7q21.3 | \n", "65.69 | \n", "5.29e-16 | \n", "6.87e-15 | \n", "
17q12 | \n", "58.10 | \n", "2.50e-14 | \n", "2.16e-13 | \n", "
2q31.2 | \n", "55.93 | \n", "7.50e-14 | \n", "4.88e-13 | \n", "
2q11.2 | \n", "55.41 | \n", "9.81e-14 | \n", "5.10e-13 | \n", "
5 rows \u00d7 3 columns
\n", "\n", " | odds_ratio | \n", "p | \n", "q | \n", "
---|---|---|---|
(3p14.2, Lesion) | \n", "inf | \n", "1.01e-50 | \n", "4.83e-49 | \n", "
(3p14.3, Lesion) | \n", "8976.00 | \n", "9.28e-47 | \n", "2.23e-45 | \n", "
(3p25.3, Lesion) | \n", "273.00 | \n", "2.03e-34 | \n", "3.26e-33 | \n", "
(3p12.2, Lesion) | \n", "225.17 | \n", "4.28e-33 | \n", "5.14e-32 | \n", "
(18q23, Lesion) | \n", "14.72 | \n", "3.40e-13 | \n", "3.26e-12 | \n", "
(18q21.2, Lesion) | \n", "8.26 | \n", "4.02e-09 | \n", "3.13e-08 | \n", "
(9p23, Lesion) | \n", "9.21 | \n", "4.83e-09 | \n", "3.13e-08 | \n", "
(5q11.2, Lesion) | \n", "10.85 | \n", "5.22e-09 | \n", "3.13e-08 | \n", "
(4p16.3, Lesion) | \n", "11.64 | \n", "1.36e-08 | \n", "7.26e-08 | \n", "
(5q15, Lesion) | \n", "8.99 | \n", "4.02e-08 | \n", "1.93e-07 | \n", "
10 rows \u00d7 3 columns
\n", "\n", " | H | \n", "p | \n", "q | \n", "
---|---|---|---|
HRAS | \n", "22.17 | \n", "2.49e-06 | \n", "0.00 | \n", "
CASP8 | \n", "21.31 | \n", "3.91e-06 | \n", "0.00 | \n", "
TP53 | \n", "21.20 | \n", "4.14e-06 | \n", "0.00 | \n", "
FBN1 | \n", "12.34 | \n", "4.44e-04 | \n", "0.13 | \n", "
COL4A4 | \n", "11.35 | \n", "7.54e-04 | \n", "0.18 | \n", "
PRDM9 | \n", "8.64 | \n", "3.28e-03 | \n", "0.42 | \n", "
OR8K5 | \n", "8.25 | \n", "4.08e-03 | \n", "0.42 | \n", "
PON1 | \n", "8.10 | \n", "4.43e-03 | \n", "0.42 | \n", "
AFF3 | \n", "7.93 | \n", "4.85e-03 | \n", "0.42 | \n", "
CDH10 | \n", "7.85 | \n", "5.08e-03 | \n", "0.42 | \n", "
10 rows \u00d7 3 columns
\n", "\n", " | \n", " | H | \n", "p | \n", "p_bonf | \n", "
---|---|---|---|---|
Deletion | \n", "(5q11.2, Lesion) | \n", "66.52 | \n", "3.47e-16 | \n", "1.66e-14 | \n", "
(1p13.2, Lesion) | \n", "59.27 | \n", "1.38e-14 | \n", "6.60e-13 | \n", "|
(3p12.2, Lesion) | \n", "57.34 | \n", "3.66e-14 | \n", "1.76e-12 | \n", "|
(5q35.3, Lesion) | \n", "57.25 | \n", "3.83e-14 | \n", "1.84e-12 | \n", "|
(5q15, Lesion) | \n", "56.71 | \n", "5.06e-14 | \n", "2.43e-12 | \n", "|
(3p14.2, Lesion) | \n", "54.49 | \n", "1.56e-13 | \n", "7.51e-12 | \n", "|
Amplification | \n", "(12p13.33, Lesion) | \n", "70.64 | \n", "4.28e-17 | \n", "1.11e-15 | \n", "
(7q21.3, Lesion) | \n", "65.69 | \n", "5.29e-16 | \n", "1.37e-14 | \n", "|
(17q12, Lesion) | \n", "58.10 | \n", "2.50e-14 | \n", "6.49e-13 | \n", "|
(2q31.2, Lesion) | \n", "55.93 | \n", "7.50e-14 | \n", "1.95e-12 | \n", "|
(2q11.2, Lesion) | \n", "55.41 | \n", "9.81e-14 | \n", "2.55e-12 | \n", "|
(12q15, Lesion) | \n", "49.86 | \n", "1.65e-12 | \n", "4.29e-11 | \n", "
12 rows \u00d7 3 columns
\n", "In text as : \"While mutation of TP53 has previously been associated with chromosomal instability, we find that TP53 associates with 3p chromosomal loss far more frequently than it does with deletions in other chromosomal regions with similar fragile sites, suggesting a selective advantage of this combination of events for tumor cells.\"
\n", " | \n", " | odds_ratio | \n", "p | \n", "q | \n", "
---|---|---|---|---|
Deletion | \n", "(3p14.3, Lesion) | \n", "6.59 | \n", "3.56e-07 | \n", "8.55e-06 | \n", "
(3p14.2, Lesion) | \n", "6.59 | \n", "3.56e-07 | \n", "8.55e-06 | \n", "|
(3p25.3, Lesion) | \n", "5.49 | \n", "1.81e-06 | \n", "2.89e-05 | \n", "|
(3p12.2, Lesion) | \n", "5.07 | \n", "6.28e-06 | \n", "7.54e-05 | \n", "|
(10p15.3, Lesion) | \n", "4.00 | \n", "6.74e-04 | \n", "6.47e-03 | \n", "|
Amplification | \n", "(3q26.33, Lesion) | \n", "6.35 | \n", "9.00e-08 | \n", "2.34e-06 | \n", "
(8q24.21, Lesion) | \n", "4.24 | \n", "3.98e-05 | \n", "5.18e-04 | \n", "|
(12p13.33, Lesion) | \n", "3.21 | \n", "2.63e-03 | \n", "2.28e-02 | \n", "|
(9p24.1, Lesion) | \n", "0.40 | \n", "8.88e-03 | \n", "5.77e-02 | \n", "|
(18p11.31, Lesion) | \n", "2.61 | \n", "1.69e-02 | \n", "8.51e-02 | \n", "
10 rows \u00d7 3 columns
\n", "