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Table 1 xMAN probe mapping of various Affymetrix tiling arrays to the most recent genome assembly

From: xMAN: extreme MApping of OligoNucleotides

Affymetrix tiling arrays #UniqSeq #Seq. MEntries #Query Entries #Seq. MGenomeMatches #Seq.NoGenomeMatch #Total Entries
Human ENCODE 1.0a 721,043 14,322 756,555 16,444 506 884,634
Human Chr21/22a 979,553 21,930 1,054,324 49,316 75 1,627,746
Human Promoterb 4,220,999 40,099 4,275,079 251,460 2,537 5,706,819
Human Tiling 1.0 & 2.0b 41,370,900 301,947 41,782,720 1,215,226 13,120 48,332,137
Mouse Tiling 1.0 & 2.0c 38,788,060 431,551 39,576,383 993,890 437,877 51,036,801
Mouse Promoterc 4,096,798 30,835 4,154,546 192,119 37,483 5,716,068
Arabidopsis thaliana 1.0d 3,046,178 7,275 3,053,686 164,728 0 3,772,912
  1. Table head line:
  2. #UniqSeq: Number of unique 25-mer in the original BPMAP file
  3. #Seq.MEntries: Number of 25-mer with multiple spots in the array
  4. #QueryEntries: Number of array spots in the original BPMAP file
  5. #Seq.MGenomeMatches: Number of 25-mer with multiple genomic copies
  6. #Seq.NoGenomeMatch: Number of 25-mer with no match in the genome
  7. #TotalEntries: Number of total entries in the xMAN mapping
  8. aThe original Affymetrix probe mapping is from the NCBIv33 human genome. The new xMAN probe mapping is based on NCBIv35 human genome.
  9. bThe original Affymetrix probe mapping is from the NCBIv34 human genome. The new xMAN probe mapping is based on the NCBIv35 human genome.
  10. cThe original Affymetrix probe mapping is from the NCBIv33 mouse genome. The new xMAN probe mapping is based on the NCBIv35 mouse genome.
  11. dBoth the original Affymetrix probe mapping and xMAN probe mapping are based on the TIGRv5 Arabidopsis genome.
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