FIGURE 1. The genomic landscape of human chromosome 1.
From the following article:
The DNA sequence and biological annotation of human chromosome 1
S. G. Gregory, K. F. Barlow, K. E. McLay, R. Kaul, D. Swarbreck, A. Dunham, C. E. Scott, K. L. Howe, K. Woodfine, C. C. A. Spencer, M. C. Jones, C. Gillson, S. Searle, Y. Zhou, F. Kokocinski, L. McDonald, R. Evans, K. Phillips, A. Atkinson, R. Cooper, C. Jones, R. E. Hall, T. D. Andrews, C. Lloyd, R. Ainscough, J. P. Almeida, K. D. Ambrose, F. Anderson, R. W. Andrew, R. I. S. Ashwell, K. Aubin, A. K. Babbage, C. L. Bagguley, J. Bailey, H. Beasley, G. Bethel, C. P. Bird, S. Bray-Allen, J. Y. Brown, A. J. Brown, D. Buckley, J. Burton, J. Bye, C. Carder, J. C. Chapman, S. Y. Clark, G. Clarke, C. Clee, V. Cobley, R. E. Collier, N. Corby, G. J. Coville, J. Davies, R. Deadman, M. Dunn, M. Earthrowl, A. G. Ellington, H. Errington, A. Frankish, J. Frankland, L. French, P. Garner, J. Garnett, L. Gay, M. R. J. Ghori, R. Gibson, L. M. Gilby, W. Gillett, R. J. Glithero, D. V. Grafham, C. Griffiths, S. Griffiths-Jones, R. Grocock, S. Hammond, E. S. I. Harrison, E. Hart, E. Haugen, P. D. Heath, S. Holmes, K. Holt, P. J. Howden, A. R. Hunt, S. E. Hunt, G. Hunter, J. Isherwood, R. James, C. Johnson, D. Johnson, A. Joy, M. Kay, J. K. Kershaw, M. Kibukawa, A. M. Kimberley, A. King, A. J. Knights, H. Lad, G. Laird, S. Lawlor, D. A. Leongamornlert, D. M. Lloyd, J. Loveland, J. Lovell, M. J. Lush, R. Lyne, S. Martin, M. Mashreghi-Mohammadi, L. Matthews, N. S. W. Matthews, S. McLaren, S. Milne, S. Mistry, M. J. F. M oore, T. Nickerson, C. N. O'Dell, K. Oliver, A. Palmeiri, S. A. Palmer, A. Parker, D. Patel, A. V. Pearce, A. I. Peck, S. Pelan, K. Phelps, B. J. Phillimore, R. Plumb, J. Rajan, C. Raymond, G. Rouse, C. Saenphimmachak, H. K. Sehra, E. Sheridan, R. Shownkeen, S. Sims, C. D. Skuce, M. Smith, C. Steward, S. Subramanian, N. Sycamore, A. Tracey, A. Tromans, Z. Van Helmond, M. Wall, J. M. Wallis, S. White, S. L. Whitehead, J. E. Wilkinson, D. L. Willey, H. Williams, L. Wilming, P. W. Wray, Z. Wu, A. Coulson, M. Vaudin, J. E. Sulston, R. Durbin, T. Hubbard, R. Wooster, I. Dunham, N. P. Carter, G. McVean, M. T. Ross, J. Harrow, M. V. Olson, S. Beck, J. Rogers & D. R. Bentley
Nature 441, 315-321(18 May 2006)
doi:10.1038/nature04727
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a, Chromosome 1 ideogram according to Francke50, showing the differential Giemsa staining pattern. b, Sequence scale in intervals of 1 Mb. Note that the correlation between cytogenetic band positions and physical distance is imprecise, owing to varying levels of condensation of different Giemsa bands. c, G + C content (on a scale of 30–70%) of 100-kb sequence windows. d, Gene density (the number of genes, excluding pseudogenes, per Mb) in 1-Mb sequence windows. e, Replication timing ratio (S/G1) at tile-path resolution (horizontal red line denotes the midpoint of replication). f, Log of the probability of gene expression at tile-path resolution (horizontal red line denotes the midpoint of log(expression)). g, Positions of copy number polymorphisms (CNPs; 1.4 kb–1 Mb in size). h, Positions of selected gene families and genes lying within regions of copy number polymorphism (CNP). i, Positions of other selected genes of interest on chromosome 1. j, Population differences in SNP allele frequency between the CEU, YRI and JPT + CHB HapMap analysis panels24 (see the text for population definitions). The differentiation measure (0–240, on the y axis) is the log-likelihood ratio test statistic. Triangles indicate the most highly differentiated SNPs (see the text for details), and are colour-coded as follows: black, intergenic; purple, intronic; turquoise, untranslated region; red, non-synonymous coding variant. k, Haplotype diversity measured for each of the three HapMap panels separately. The blue traces measure the average SNP heterozygosity in windows of 21 SNPs. The horizontal red lines indicate extended haplotypes (defined as the most extreme 1% in terms of length) associated with derived (that is, recent) mutations. The heights of the haplotype bars are arbitrary. l, Recombination profile of chromosome 1. The histogram shows recombination rate (cM per Mb) in 100-kb windows. Bars are coloured according to the number of recombination hotspots. Dark red shading indicates the highest level of recombination (5 hotspots per Mb). Dark blue represents regions of least recombination (1 hotspot per Mb). Vertical grey lines in c–f and j–l represent gaps in the euchromatic sequence of the chromosome. The grey bar located between approximately 121 Mb and 141 Mb shows the position of the centromere and the long-arm heterochromatic block.
