Supplementary Information for
Hughes, J.F., Skaletsky, H., Pyntikova, T., Graves, T., Minx, P.J., Fulton, R.S.,
McGrath, S.D., Warren, W.C., Locke, D.P., Mardis, E.R., van Daalen, S.K.M.,
Repping, S., Friedman, C., Trask, B.J., Rozen, S., Wilson, R.K., Page, D.C.
Chimpanzee and human Y chromosomes are remarkably divergent in structure and gene content.
Notes
Supplementary notes
Figures
Figure 1 Annotated sequence of the chimpanzee MSY
Figure 2 Positions of informative sequence family variants (SFVs) along chimpanzee ampliconic sequnce
Figure 3-1 Extended metaphase FISH analysis to place and orient contigs 1-5 Figure legend
Figure 3-2 Figure legend
Figure 3-3 Figure legend
Figure 3-4 Figure legend
Figure 4 Two-color interphase FISH results
Figure 5-1 Confirmation of copy number of amplicons by interphase FISH analysis
Figure 5-2 Confirmation of copy number of amplicons by interphase FISH analysis
Figure 6 Positions of chimpanzee MSY genes
Figure 7 RT-PCR analysis of chimpanzee ampliconic genes
Figure 8 Dot-plot comparison of chimpanzee and human MSY sequences
Figure 10 Intervals alignable to human sequence on the chimpanzee MSY
Figure 11 Triangular dot plot of ampliconic portion of the chimpanzee MSY
Figure 12 Electronic fractination of chimpanzee and human MSY sequences
Figure 13 Dot plot and percent divergence analysis of tandem palindrome array
Figure 14 Positions of chimpanzee endogenous retroviruses (CERVs) on chimpanzee MSY
Tables
Table 1. BAC (CHORI-251) and fosmid (CHORI-1251) clones
Table 2. Sequence characteristics and repeat content of chimpanzee and human MSY sequences
Table 3. Comparative analysis of chimpanzee and human ampliconic genes
Table 4. Pseudogenes on the chimpanzee MSY
Table 5. Primers for RT-PCR analysis of chimpanzee ampliconic genes
Files
- File 1. Sequence family variants - PCR primers and amplification products
- File 2. Fasta file of chimpanzee MSY sequence assembly (27 Mb file) Comments
- File 3. Chimpanzee - human MSY sequence alignments Comments
- File 4. Chimpanzee Y flow sort 454 sequence reads