We are using as example data the mouse data from the Kaessmann lab’s 2019 evo-devo paper (doi:10.1038/s41586-019-1338-5).
That data is available as a matrix of CPM values:
read.table ( "Downloads/Mouse.CPM.txt" ) -> m1 : 5 ,1 : 5 ]
Brain.e10.5.1 Brain.e10.5.2 Brain.e10.5.3 Brain.e11.5.1
ENSMUSG00000000001 297.65432 233.74765 243.737382 301.90442
ENSMUSG00000000003 0.00000 0.00000 0.000000 0.00000
ENSMUSG00000000028 74.13254 72.12265 67.458177 58.92485
ENSMUSG00000000037 10.05505 8.84671 8.400332 11.21076
ENSMUSG00000000049 0.00000 0.00000 0.000000 0.00000
Brain.e11.5.2
ENSMUSG00000000001 359.69735
ENSMUSG00000000003 0.00000
ENSMUSG00000000028 67.01104
ENSMUSG00000000037 12.04510
ENSMUSG00000000049 0.00000
For the purpose of the course, I would like to have a count matrix with unnormalized data.
So, to undo the normalization, I assume that each sample has a few genes with exactly one read, and that I can hence find the CPM values corresponding to these as the minimum non-zero value in each column. Dividing by this value should undo the normalization:
apply ( m, 2 , function (a) a / min (a[a> 0 ]) ) -> m21 : 5 , 1 : 5 ]
Brain.e10.5.1 Brain.e10.5.2 Brain.e10.5.3 Brain.e11.5.1
ENSMUSG00000000001 9532 7451 7631 8833
ENSMUSG00000000003 0 0 0 0
ENSMUSG00000000028 2374 2299 2112 1724
ENSMUSG00000000037 322 282 263 328
ENSMUSG00000000049 0 0 0 0
Brain.e11.5.2
ENSMUSG00000000001 11079
ENSMUSG00000000003 0
ENSMUSG00000000028 2064
ENSMUSG00000000037 371
ENSMUSG00000000049 0
To check that this works, let’s first see if all values are now integer, by finding the maximum deviation from an integer
max ( abs ( m2 - round (m2) ) )
This is good, so let’s convert to actual integers:
round ( m2 ) -> m2storage.mode (m2) <- "integer" 1 : 5 , 1 : 5 ]
Brain.e10.5.1 Brain.e10.5.2 Brain.e10.5.3 Brain.e11.5.1
ENSMUSG00000000001 9532 7451 7631 8833
ENSMUSG00000000003 0 0 0 0
ENSMUSG00000000028 2374 2299 2112 1724
ENSMUSG00000000037 322 282 263 328
ENSMUSG00000000049 0 0 0 0
Brain.e11.5.2
ENSMUSG00000000001 11079
ENSMUSG00000000003 0
ENSMUSG00000000028 2064
ENSMUSG00000000037 371
ENSMUSG00000000049 0
Before writing it out, we fix an annoying issue with the column names, namely that the period is used both as decimal point and as internal field seperator. Let’s replace them with underscores in the latter function:
suppressPackageStartupMessages ( library ( tidyverse ) )colnames (m2) %>% str_replace ( " \\ ." , "_" ) %>% str_replace ( " \\ .( \\ d+)$" , "_ \\ 1" ) -> colnames (m2)1 : 5 ,1 : 5 ]
Brain_e10.5_1 Brain_e10.5_2 Brain_e10.5_3 Brain_e11.5_1
ENSMUSG00000000001 9532 7451 7631 8833
ENSMUSG00000000003 0 0 0 0
ENSMUSG00000000028 2374 2299 2112 1724
ENSMUSG00000000037 322 282 263 328
ENSMUSG00000000049 0 0 0 0
Brain_e11.5_2
ENSMUSG00000000001 11079
ENSMUSG00000000003 0
ENSMUSG00000000028 2064
ENSMUSG00000000037 371
ENSMUSG00000000049 0
Ok, let’s write this out:
%>% as_tibble ( rownames= "gene_id" ) %>% write_tsv ( gzfile ( "Downloads/evodevo_mouse_counts.tsv.gz" , "wb" ) )
As a final check, let’s make sure that there are all small integers present in all columns. We check for the numbers 0 to 10:
sapply ( 0 : 10 , function (i) colSums ( m2== i ) )
[,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,10] [,11]
Brain_e10.5_1 15944 1665 904 582 467 371 303 232 217 197 158
Brain_e10.5_2 16278 1684 866 590 444 336 271 228 195 198 151
Brain_e10.5_3 16129 1744 843 584 481 337 245 223 205 188 170
Brain_e11.5_1 16021 1696 852 583 439 366 287 230 212 173 152
Brain_e11.5_2 16072 1629 834 550 429 382 308 210 218 189 168
Brain_e11.5_3 15937 1629 804 635 458 307 311 232 195 185 155
Brain_e11.5_4 16286 1620 832 609 427 329 298 221 231 186 169
Brain_e12.5_1 15874 1714 878 605 423 354 271 205 206 175 166
Brain_e12.5_2 15816 1689 941 603 429 322 252 259 205 155 176
Brain_e12.5_3 15908 1780 882 614 426 320 269 248 176 161 183
Brain_e12.5_4 16030 1744 899 585 432 355 264 241 206 165 145
Brain_e13.5_1 15892 1742 917 566 389 346 263 237 173 160 143
Brain_e13.5_2 16012 1773 874 549 429 335 288 227 213 156 136
Brain_e13.5_3 15763 1781 927 631 451 303 280 251 196 198 162
Brain_e13.5_4 16081 1794 894 560 412 317 293 244 180 163 169
Brain_e14.5_1 16452 1685 861 615 448 341 262 243 210 196 158
Brain_e14.5_2 15292 1694 824 629 439 321 302 226 221 199 170
Brain_e14.5_3 16762 1692 847 548 435 326 265 252 218 201 149
Brain_e14.5_4 15822 1811 805 621 416 337 279 215 200 174 170
Brain_e15.5_1 15522 1802 887 581 458 370 322 263 215 188 155
Brain_e15.5_2 15781 1873 939 586 434 362 298 237 215 212 176
Brain_e15.5_3 15955 1860 961 651 452 345 310 247 205 180 158
Brain_e15.5_4 15797 1767 901 594 430 341 343 271 199 185 150
Brain_e16.5_1 16178 1772 949 605 447 329 263 249 201 197 187
Brain_e16.5_2 15746 1844 941 645 442 353 297 275 249 220 185
Brain_e16.5_3 16175 1827 833 592 472 302 296 254 223 170 163
Brain_e16.5_4 15248 1859 911 643 475 357 324 264 210 197 190
Brain_e17.5_1 16276 1768 920 564 423 327 274 255 186 145 147
Brain_e17.5_2 14730 1804 910 610 469 332 268 221 217 188 165
Brain_e17.5_3 16145 1722 833 572 396 333 291 236 194 197 157
Brain_e17.5_4 16204 1798 898 552 451 360 278 223 183 155 147
Brain_e18.5_1 15936 1749 889 594 415 341 242 254 215 167 158
Brain_e18.5_2 15899 1831 906 575 460 342 270 213 182 162 149
Brain_e18.5_3 15239 1889 921 599 479 325 282 266 200 172 129
Brain_e18.5_4 16569 1748 903 540 410 336 268 230 193 162 125
Brain_P0_1 14712 1699 914 634 441 357 302 249 200 192 165
Brain_P0_2 16003 1877 879 630 438 305 287 235 190 170 150
Brain_P0_3 16344 1821 886 591 425 335 256 229 185 163 145
Brain_P0_4 16377 1788 842 573 423 339 229 191 183 137 133
Brain_P3_1 16367 1787 864 546 412 303 259 217 176 187 127
Brain_P3_2 16083 1849 902 550 424 334 284 226 213 164 140
Brain_P3_3 16605 1752 866 567 405 331 251 187 190 146 122
Brain_P3_4 16104 1723 887 599 493 370 256 227 209 199 141
Brain_P14_1 16477 1849 931 547 411 339 244 212 179 211 157
Brain_P14_2 16161 1753 893 627 409 308 267 248 213 182 147
Brain_P14_3 16221 1790 898 585 400 317 281 236 191 176 142
Brain_P14_4 15881 1763 876 548 421 338 263 226 186 157 143
Brain_P28_1 16813 1724 843 558 398 306 233 206 195 170 138
Brain_P28_2 16087 1715 836 565 422 317 271 257 208 187 145
Brain_P28_3 16573 1783 883 574 406 327 264 206 182 169 149
Brain_P28_4 16810 1806 883 596 393 308 237 208 188 157 166
Brain_P63_1 16873 1704 846 538 423 315 250 212 171 153 136
Brain_P63_2 16329 1876 862 540 384 293 254 220 189 178 146
Brain_P63_3 16390 1703 859 570 397 354 269 217 183 162 157
Brain_P63_4 15944 1710 828 537 393 357 262 227 193 186 141
Cerebellum_e13.5_1 15653 1731 945 563 477 328 273 236 204 175 160
Cerebellum_e13.5_2 15261 1835 933 585 472 349 293 257 203 161 166
Cerebellum_e13.5_3 15321 1856 897 593 457 340 296 232 200 164 156
Cerebellum_e13.5_4 15620 1783 890 554 410 341 279 223 214 171 162
Cerebellum_e14.5_1 16402 1741 888 583 389 338 288 234 180 184 137
Cerebellum_e14.5_2 15093 1819 881 591 430 383 295 255 203 165 155
Cerebellum_e14.5_3 16376 1805 901 566 436 341 288 230 180 190 147
Cerebellum_e14.5_4 15686 1787 960 570 412 345 293 251 220 173 145
Cerebellum_e15.5_1 15640 1786 880 665 417 344 257 242 198 172 165
Cerebellum_e15.5_2 16384 1701 886 565 455 339 288 241 204 178 148
Cerebellum_e15.5_3 15356 1791 870 645 475 350 307 259 215 196 164
Cerebellum_e15.5_4 15432 1836 863 603 423 343 297 304 229 202 156
Cerebellum_e16.5_1 16248 1809 877 615 438 363 266 240 213 163 168
Cerebellum_e16.5_2 15558 1798 928 536 420 322 311 220 190 181 155
Cerebellum_e16.5_3 15152 1787 923 565 423 337 292 215 217 159 156
Cerebellum_e16.5_4 16148 1758 891 569 416 328 302 238 195 152 130
Cerebellum_e17.5_1 16004 1720 883 570 435 330 258 267 201 188 149
Cerebellum_e17.5_2 15872 1767 910 588 401 324 278 233 211 185 178
Cerebellum_e17.5_3 16205 1654 863 531 426 356 262 231 186 162 157
Cerebellum_e17.5_4 16497 1687 843 547 431 330 268 220 203 190 155
Cerebellum_e18.5_1 14625 1778 953 622 430 327 304 251 198 179 187
Cerebellum_e18.5_2 16581 1735 855 548 368 313 243 230 170 158 126
Cerebellum_e18.5_3 15255 1782 893 588 430 357 298 209 207 176 166
Cerebellum_e18.5_4 16096 1814 886 571 394 305 259 201 184 152 155
Cerebellum_P0_1 16271 1771 897 601 425 325 271 249 165 149 162
Cerebellum_P0_2 13775 1853 929 620 438 366 308 260 230 201 192
Cerebellum_P0_3 15542 1810 887 572 425 323 290 216 192 193 155
Cerebellum_P0_4 14905 1728 976 605 479 383 280 235 215 190 144
Cerebellum_P3_1 15896 1823 863 585 414 345 255 232 176 171 159
Cerebellum_P3_2 14390 1823 920 589 430 355 286 256 187 168 181
Cerebellum_P3_3 14192 1644 982 611 433 370 278 269 209 198 182
Cerebellum_P3_4 15206 1826 837 575 454 300 262 218 183 177 135
Cerebellum_P14_1 16109 1846 903 545 431 349 258 228 200 170 143
Cerebellum_P14_2 16292 1722 920 531 424 321 233 223 164 189 134
Cerebellum_P14_3 15224 1913 894 595 419 322 259 221 195 159 150
Cerebellum_P28_1 16837 1701 860 535 419 309 281 240 172 159 148
Cerebellum_P28_2 16862 1761 824 557 397 308 245 238 176 173 132
Cerebellum_P28_3 16696 1779 827 514 392 332 247 212 209 150 152
Cerebellum_P28_4 14977 1779 860 595 463 322 262 244 189 178 170
Cerebellum_P63_1 16430 1719 904 547 394 295 261 246 202 151 156
Cerebellum_P63_2 15436 1778 841 569 423 358 280 230 195 153 152
Cerebellum_P63_3 16247 1763 870 577 419 332 267 244 195 182 156
Cerebellum_P63_4 15009 1784 911 593 429 357 286 258 226 190 167
Heart_e10.5_1 16629 1652 876 610 401 338 301 266 225 194 144
Heart_e10.5_2 16332 1848 924 643 437 353 283 248 228 180 178
Heart_e10.5_3 16635 1729 852 617 444 387 303 237 235 190 185
Heart_e10.5_4 18677 1514 813 537 352 292 259 204 193 174 130
Heart_e11.5_1 17255 1729 874 569 429 325 282 236 195 199 146
Heart_e11.5_2 16959 1676 851 554 407 354 283 246 191 180 144
Heart_e11.5_3 17610 1698 864 520 390 345 282 190 187 146 126
Heart_e11.5_4 17030 1615 844 591 418 321 299 259 179 186 154
Heart_e12.5_1 17164 1680 856 602 383 305 238 222 185 165 147
Heart_e12.5_2 17081 1794 870 580 401 352 303 209 199 180 157
Heart_e12.5_3 16514 1750 879 578 407 338 284 218 210 173 161
Heart_e12.5_4 16661 1826 865 583 429 358 275 225 204 159 147
Heart_e13.5_1 15908 1730 894 606 411 343 292 232 191 162 152
Heart_e13.5_2 15935 1748 865 595 401 362 272 216 173 158 155
Heart_e13.5_3 16369 1704 827 623 423 347 264 248 195 182 156
Heart_e13.5_4 16801 1683 858 572 435 336 237 224 202 143 161
Heart_e14.5_1 15726 1675 847 525 430 341 289 261 222 195 150
Heart_e14.5_2 16419 1770 891 603 392 366 234 224 208 152 144
Heart_e14.5_3 16351 1686 891 620 453 335 302 235 197 186 156
Heart_e15.5_1 16473 1626 806 535 444 363 315 232 195 176 166
Heart_e15.5_2 17435 1758 899 520 372 288 274 229 193 161 151
Heart_e15.5_3 16354 1681 801 551 423 311 242 215 183 147 143
Heart_e15.5_4 17273 1551 827 546 398 309 258 217 183 159 155
Heart_e16.5_1 16027 1788 917 586 401 333 298 225 204 150 162
Heart_e16.5_2 16831 1731 838 602 418 363 283 231 201 190 158
Heart_e16.5_3 16203 1725 829 575 407 295 291 216 209 176 154
Heart_e16.5_4 16328 1701 877 577 432 334 284 225 215 180 162
Heart_e17.5_1 15848 1606 830 588 399 339 271 230 214 197 165
Heart_e17.5_2 16865 1781 932 558 424 335 285 240 199 196 163
Heart_e17.5_3 17116 1699 780 582 391 316 267 205 191 170 149
Heart_e17.5_4 16942 1728 868 593 437 345 281 254 196 202 149
Heart_e18.5_1 17336 1715 889 536 411 312 242 229 179 164 138
Heart_e18.5_2 16337 1790 913 567 440 360 288 246 180 197 159
Heart_e18.5_3 17296 1710 864 563 391 336 290 218 186 157 151
Heart_e18.5_4 17139 1675 924 552 430 319 305 221 211 151 142
Heart_P0_1 16213 1721 936 600 446 331 334 257 207 180 167
Heart_P0_2 16840 1680 789 577 409 331 276 214 195 148 154
Heart_P0_3 16743 1741 877 629 441 329 286 231 219 176 152
Heart_P0_4 16310 1711 885 587 450 323 288 246 229 199 159
Heart_P3_1 16109 1727 868 646 442 373 310 249 219 206 178
Heart_P3_2 16415 1766 890 600 445 381 292 265 209 189 155
Heart_P3_3 16773 1778 930 612 450 346 250 224 203 172 163
Heart_P3_4 16218 1767 935 591 480 351 305 219 224 182 160
Heart_P14_1 17963 1730 867 565 392 310 228 221 173 129 136
Heart_P14_2 17362 1817 844 575 417 315 280 210 181 161 135
Heart_P14_3 17578 1753 896 553 429 303 260 216 183 158 140
Heart_P14_4 16878 1724 946 591 431 338 269 222 235 176 146
Heart_P28_1 17867 1741 870 527 386 295 263 207 149 161 147
Heart_P28_2 16659 1802 863 569 449 343 268 220 207 168 144
Heart_P28_3 18632 1713 788 465 337 276 242 177 171 134 118
Heart_P28_4 17513 1815 885 540 424 260 231 195 181 158 139
Heart_P63_1 16369 1776 906 586 421 382 289 251 190 171 159
Heart_P63_2 17331 1762 862 601 411 320 262 215 184 170 151
Heart_P63_3 16947 1853 908 600 413 383 288 209 204 205 167
Heart_P63_4 16399 1778 931 599 459 334 255 224 228 195 151
Kidney_e11.5_1 16341 1691 899 642 412 368 294 227 230 181 164
Kidney_e11.5_2 15880 1757 864 515 434 345 291 231 233 184 147
Kidney_e11.5_3 16730 1684 863 562 468 324 300 244 208 156 176
Kidney_e11.5_4 15707 1674 865 583 454 396 304 259 204 199 165
Kidney_e12.5_1 16146 1701 840 558 442 359 281 245 185 182 186
Kidney_e12.5_2 15844 1647 886 594 417 335 317 229 199 208 159
Kidney_e12.5_3 15840 1654 829 596 449 340 288 231 262 183 164
Kidney_e12.5_4 15198 1666 919 612 470 340 267 258 217 183 155
Kidney_e13.5_1 15375 1609 902 556 426 318 292 244 199 178 160
Kidney_e13.5_2 17078 1631 834 542 401 302 268 200 181 158 153
Kidney_e13.5_3 15312 1570 828 571 396 366 290 232 225 203 163
Kidney_e13.5_4 16661 1834 892 605 448 347 287 245 214 194 182
Kidney_e14.5_1 15096 1567 809 557 405 350 293 263 192 192 173
Kidney_e14.5_2 16460 1636 906 611 457 342 280 246 226 173 174
Kidney_e14.5_3 16165 1630 855 617 420 342 332 231 189 204 161
Kidney_e15.5_1 16581 1594 794 576 436 359 255 232 203 174 171
Kidney_e15.5_2 16078 1602 824 599 415 316 288 230 203 159 147
Kidney_e15.5_3 17225 1662 771 557 354 288 238 191 188 155 138
Kidney_e15.5_4 16232 1621 809 551 408 313 254 201 163 169 155
Kidney_e16.5_1 17101 1663 870 531 388 311 249 226 174 141 141
Kidney_e16.5_2 15654 1652 892 594 406 325 279 231 187 180 172
Kidney_e16.5_3 15756 1644 858 547 419 309 275 219 212 168 155
Kidney_e16.5_4 15903 1638 860 529 412 357 251 238 208 177 141
Kidney_e17.5_1 15906 1688 864 577 394 320 276 246 215 172 154
Kidney_e17.5_2 15901 1691 863 517 413 368 279 235 234 192 168
Kidney_e17.5_3 15183 1634 847 572 461 327 276 286 204 180 147
Kidney_e17.5_4 15643 1663 819 614 436 311 285 232 224 198 149
Kidney_e18.5_1 15952 1686 863 565 456 307 258 255 183 151 170
Kidney_e18.5_2 15488 1591 827 568 453 310 272 254 219 193 172
Kidney_e18.5_3 16191 1631 834 572 418 309 267 236 176 172 135
Kidney_e18.5_4 14333 1654 820 550 434 335 321 265 216 172 176
Kidney_P0_1 15610 1719 862 572 432 350 300 224 225 182 143
Kidney_P0_2 15902 1631 862 580 431 361 279 236 201 151 154
Kidney_P0_3 13624 1747 847 632 430 352 314 244 216 207 164
Kidney_P0_4 16051 1641 871 588 439 348 284 200 186 199 169
Kidney_P3_1 16061 1679 926 568 444 329 266 242 187 186 163
Kidney_P3_2 15412 1713 905 554 442 339 294 283 245 187 148
Kidney_P3_3 15128 1686 898 589 462 355 284 241 194 209 182
Kidney_P3_4 15966 1748 816 581 434 314 278 241 197 181 150
Kidney_P14_1 16081 1778 870 537 405 307 311 237 188 156 152
Kidney_P14_2 15778 1659 893 586 435 330 283 213 201 178 166
Kidney_P14_3 15959 1697 880 582 430 332 257 232 210 191 164
Kidney_P14_4 15772 1784 847 580 419 348 304 242 193 179 172
Kidney_P28_1 16787 1656 815 567 381 296 255 204 169 151 133
Kidney_P28_2 16804 1613 810 552 399 284 256 185 193 143 153
Kidney_P28_3 16947 1700 882 558 363 317 281 192 166 165 142
Kidney_P28_4 17442 1639 850 511 398 304 237 208 191 144 131
Kidney_P63_1 16628 1699 879 581 441 315 288 198 209 182 127
Kidney_P63_2 16179 1737 913 609 444 349 287 235 233 202 159
Kidney_P63_3 15094 1715 870 556 455 371 326 235 227 195 207
Kidney_P63_4 18779 1736 874 618 432 334 254 254 198 218 177
Liver_e10.5_1 16231 1754 909 595 457 364 278 252 239 209 191
Liver_e10.5_2 15908 1604 881 582 447 379 274 225 215 181 186
Liver_e10.5_3 16218 1668 849 541 418 294 253 240 181 167 142
Liver_e10.5_4 16111 1647 851 605 459 378 290 274 217 185 184
Liver_e11.5_2 16196 1553 902 563 448 347 274 247 221 190 162
Liver_e11.5_3 14999 1545 851 523 440 318 287 257 236 209 187
Liver_e11.5_4 16318 1612 832 575 436 392 316 247 230 185 158
Liver_e11.5_5 16056 1575 861 593 439 334 270 229 203 189 152
Liver_e12.5_1 15773 1647 857 590 444 328 325 246 214 200 169
Liver_e12.5_2 16596 1667 908 593 443 373 300 239 206 176 173
Liver_e12.5_3 16257 1777 926 618 458 387 282 250 205 185 190
Liver_e12.5_4 15944 1760 899 600 445 354 312 241 212 204 180
Liver_e13.5_1 15968 1800 923 588 469 371 285 249 217 202 190
Liver_e13.5_2 16023 1690 945 614 419 371 279 251 205 206 170
Liver_e13.5_3 16813 1711 916 586 424 403 296 239 235 199 166
Liver_e13.5_4 16033 1683 941 649 504 366 335 263 226 206 169
Liver_e13.5_5 16916 1628 883 656 425 364 314 255 220 182 188
Liver_e14.5_1 16650 1864 913 650 482 363 289 254 230 207 174
Liver_e14.5_2 16652 1668 931 628 447 367 306 267 244 186 178
Liver_e14.5_3 16485 1694 866 638 454 370 296 273 238 213 172
Liver_e14.5_4 16664 1782 910 624 470 367 294 278 224 193 172
Liver_e15.5_1 15895 1761 908 618 455 376 310 282 250 215 183
Liver_e15.5_2 16889 1838 949 622 463 363 316 258 232 199 176
Liver_e15.5_3 16264 1768 914 620 491 371 323 279 198 187 191
Liver_e15.5_4 16384 1846 957 620 463 385 309 276 222 229 166
Liver_e16.5_1 16586 1788 947 585 487 375 300 266 254 209 190
Liver_e16.5_2 16665 1760 881 657 458 370 306 270 206 196 147
Liver_e16.5_3 16646 1926 951 646 501 402 320 246 228 181 183
Liver_e16.5_4 16344 1766 911 607 472 372 301 263 209 195 162
Liver_e17.5_1 16897 1745 904 664 412 345 298 263 218 198 150
Liver_e17.5_2 16064 1482 907 610 429 388 291 246 226 181 195
Liver_e17.5_3 17612 1556 902 603 447 334 254 224 215 170 165
Liver_e17.5_4 16754 1789 891 591 463 346 254 275 210 188 173
Liver_e18.5_1 17118 1716 940 622 445 324 279 243 193 176 147
Liver_e18.5_2 17790 1730 903 566 426 355 291 217 184 146 132
Liver_e18.5_3 17463 1840 908 543 442 321 271 217 205 159 129
Liver_e18.5_4 17563 1727 905 585 428 355 286 188 189 155 156
Liver_P0_1 17540 1769 914 597 432 349 248 215 231 180 142
Liver_P0_2 17930 1762 847 538 432 299 278 198 171 158 116
Liver_P0_3 17431 1739 924 584 441 347 284 210 182 160 156
Liver_P0_4 17834 1707 871 574 395 290 244 235 200 143 142
Liver_P3_1 16060 1740 934 608 433 350 294 229 195 182 161
Liver_P3_2 17964 1677 814 552 404 273 240 213 175 145 120
Liver_P3_3 17592 1804 929 602 438 337 257 192 195 182 139
Liver_P3_4 16940 1763 860 570 465 363 295 215 195 185 149
Liver_P14_1 18044 1862 921 584 438 342 242 247 205 185 144
Liver_P14_2 18386 1747 782 533 383 317 244 194 149 153 139
Liver_P14_3 18059 1771 883 613 422 354 275 236 216 191 160
Liver_P14_4 18746 1711 826 530 362 329 246 182 173 137 139
Liver_P28_1 18844 1874 857 569 398 348 258 221 193 166 137
Liver_P28_2 19231 1752 788 532 361 300 237 219 167 131 117
Liver_P28_3 18563 1752 866 608 450 372 277 246 192 177 138
Liver_P28_4 18257 1899 984 527 453 327 258 223 184 176 151
Liver_P63_1 18337 1833 907 569 420 327 295 212 206 170 157
Liver_P63_2 18974 1681 870 569 377 322 241 216 172 164 159
Liver_P63_3 18565 1818 920 638 429 337 258 226 179 169 156
Liver_P63_4 18233 1724 875 616 413 337 278 212 186 159 154
Ovary_e10.5_1 15898 1616 841 621 411 314 281 248 223 192 156
Ovary_e10.5_2 16436 1596 869 546 424 343 291 258 199 176 134
Ovary_e11.5_1 14524 1600 831 595 439 343 290 261 225 192 186
Ovary_e11.5_2 14478 1728 877 531 448 340 309 241 232 192 179
Ovary_e12.5_1 15321 1714 910 557 495 387 272 274 208 180 177
Ovary_e12.5_2 15382 1784 877 607 404 340 288 254 181 185 157
Ovary_e13.5_1 14168 1696 898 581 427 310 294 253 228 192 193
Ovary_e13.5_2 14842 1724 851 570 469 375 280 256 218 192 165
Ovary_e14.5_1 14767 1749 933 614 443 399 310 263 258 207 180
Ovary_e14.5_2 15140 1642 915 579 466 366 277 259 228 203 186
Ovary_e15.5_1 14312 1708 864 671 454 374 308 284 219 218 185
Ovary_e15.5_2 15668 1727 911 650 448 367 303 238 216 191 165
Ovary_e16.5_1 13545 1771 908 671 464 408 314 273 211 225 209
Ovary_e16.5_2 14795 1799 938 632 448 355 343 257 235 190 186
Ovary_e17.5_1 15172 1754 863 573 478 379 326 257 239 214 164
Ovary_e17.5_2 15488 1682 880 645 475 369 280 250 230 200 177
Ovary_e18.5_1 14001 1696 842 633 486 385 314 273 235 191 175
Ovary_e18.5_2 15506 1812 868 580 451 309 292 236 194 179 140
Ovary_P0_1 13881 1592 867 638 489 382 332 291 256 189 156
Ovary_P0_2 15540 1868 913 580 468 367 286 245 211 183 159
Ovary_P3_1 15483 1798 871 596 452 340 306 266 208 197 165
Ovary_P3_2 14691 1778 953 635 486 359 294 272 236 192 188
Ovary_P14_1 14809 1674 904 593 452 397 320 245 245 185 177
Ovary_P14_2 15476 1754 866 589 463 336 311 277 227 186 198
Ovary_P28_1 13740 1667 957 616 472 392 300 298 241 182 193
Ovary_P28_2 16430 1774 928 582 460 326 270 227 189 181 146
Ovary_P63_1 15926 1729 902 642 443 350 289 250 224 180 151
Ovary_P63_2 16067 1797 947 586 458 341 273 233 204 175 160
Testis_e10.5_1 16302 1671 817 574 438 329 247 241 200 191 174
Testis_e10.5_2 15840 1584 871 577 448 345 275 239 210 168 163
Testis_e11.5_1 15307 1677 927 564 400 366 326 256 211 194 165
Testis_e11.5_2 15600 1630 875 540 477 321 302 246 187 178 164
Testis_e12.5_1 15114 1805 945 600 438 377 314 254 232 192 149
Testis_e12.5_2 15281 1731 906 601 498 371 292 262 226 175 179
Testis_e13.5_1 14929 1701 881 582 448 381 283 275 223 191 175
Testis_e13.5_2 14732 1635 921 593 463 366 308 239 228 213 196
Testis_e14.5_1 14829 1646 883 598 486 385 299 282 239 209 165
Testis_e14.5_2 13163 1399 784 595 456 336 323 244 232 201 187
Testis_e15.5_1 14263 1816 992 645 515 411 324 277 271 207 204
Testis_e15.5_2 13645 1894 959 640 501 411 313 284 276 225 202
Testis_e16.5_1 12083 2037 1003 680 502 373 331 290 258 219 209
Testis_e16.5_2 12727 2045 1074 697 503 366 327 295 265 247 202
Testis_e17.5_1 13504 1866 977 667 491 384 316 301 251 218 191
Testis_e17.5_2 13115 1925 1072 688 509 430 305 307 269 236 199
Testis_e18.5_1 14095 1953 1003 681 470 381 349 264 266 210 150
Testis_P0_1 13634 1717 897 643 493 370 330 253 260 177 181
Testis_P0_2 14405 1613 945 600 435 376 294 290 221 214 188
Testis_P3_1 14854 1751 941 639 491 390 317 308 249 198 190
Testis_P3_2 14795 1411 930 694 454 413 313 264 241 208 190
Testis_P14_1 15261 1803 960 642 473 375 335 266 235 227 169
Testis_P14_2 14409 1828 922 680 480 403 321 277 256 226 193
Testis_P28_1 14152 2009 1028 631 466 352 307 283 226 205 202
Testis_P28_2 14367 1955 979 645 449 427 311 277 242 220 208
Testis_P63_1 14693 1922 1008 670 460 396 343 293 236 209 191
Testis_P63_2 13345 1995 995 669 451 391 302 272 263 218 196