Table 1.

Tissues sampled and annotation process

Tissue
Clones
Signatures
Mapped
% mapped
Genes
In loci
Reverse
Genome
Unmapped
Adrenal gland 3.4 28,610 17,352 60.7% 9761 7166 3403 434 255
Bladder 2.5 25,795 14,092 54.6% 8284 6787 4320 480 116
Bone marrow 2.5 21,392 11,352 53.1% 7182 5492 3592 264 692
Brain (amygdala) 3.1 30,777 17,886 58.1% 10,168 8370 3594 693 234
Brain (caudate nucleus) 3.0 28,749 16,940 58.9% 9948 7509 3446 646 208
Brain (cerebellum) 1.8 27,372 13,413 49.0% 8183 9152 3880 717 210
Brain (corpus callosum) 3.5 31,526 18,302 58.1% 10,210 8679 3632 656 257
Brain (fetal) 4.7 27,030 13,699 50.7% 8447 9110 3158 765 298
Brain (hypothalamus) 2.2 27,474 16,710 60.8% 9867 6371 3384 585 424
Brain (thalamus) 1.5 25,936 15,680 60.5% 9389 6719 2800 551 186
Heart 3.6 27,335 16,906 61.8% 9379 5689 4147 369 224
Kidney 2.5 20,996 12,366 58.9% 7631 4425 3647 368 190
Lung 3.2 29,071 17,344 59.7% 9836 7384 3713 381 249
Mammary gland 2.6 20,014 13,162 65.8% 8351 4378 1979 321 174
Pancreas 2.4 11,634 8280 71.2% 5845 1958 1192 113 91
Pituitary gland 2.2 25,997 15,381 59.2% 9220 6255 3568 591 202
Placenta 5.3 16,344 10,236 62.6% 6631 3790 1856 283 179
Prostate 3.2 21,097 12,521 59.3% 7941 5427 2584 338 227
Retina 4.3 27,152 16,504 60.8% 9891 6368 3380 537 363
Salivary gland 3.6 17,598 11,706 66.5% 7540 4065 1476 223 128
Small intestine 5.0 29,599 18,084 61.1% 10,286 7902 2898 485 230
Spinal cord 4.2 30,367 18,920 62.3% 10,632 7214 3437 585 211
Spleen 3.1 34,956 19,988 57.2% 10,594 9877 4198 579 314
Stomach 3.1 13,992 9544 68.2% 6537 2995 1205 161 87
Testis 3.4 39,127 22,731 58.1% 12,267 9549 4944 1490 413
Thymus 5.5 36,250 19,871 54.8% 10,470 11,215 4001 742 421
Thyroid 6.0 29,210 17,596 60.2% 9870 7190 3556 487 381
Trachea 3.0 27,516 17,823 64.8% 10,201 6620 2333 440 300
Uterus 4.9 34,187 20,085 58.8% 10,737 9528 3753 529 292
Colon 1.3 13,982 9293 66.5% 6149 3267 1090 238 94
Monocytes 1.9 22,351 13,674 61.2% 7533 5125 2764 436 352
Peripheral blood lymphocytes 2.0 17,844 11,910 66.7% 7202 4407 1147 264 116
Total
104.6
142,872
48,339
33.8%
18,677
53,402
29,661
7200
4270

[i] The column labels are clones: the number of clones (in millions) sequenced for this tissue; signatures: the number of different significant signatures observed in the tissue, excluding those mapping to contaminants (ribosomal, mitochondrial, repetitive elements), those mapping to more than four genes, and those mapping with single nucleotide mismatches; mapped: the number of signatures reliably mapped to transcripts (plus strand of known exons); % mapped: the percentage of signatures that were reliably mapped; genes: the number of transcribed regions to which the reliable signatures map; in loci: the number of signatures that map within loci, but to regions not known to be transcribed (in introns or within 5 kb downstream of polyadenylation site); reverse: the number of signatures that map to the reverse strand of known transcripts; genome: the number of signatures that map to the human genome outside of known loci; unmapped: the number of signatures that do not map to the human genome. Note that some categories of signatures, for example, those derived from noncoding RNAs or mapped with single nucleotide mismatches, are not represented in this table; these were excluded from the calculated percentages.