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15844388843
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The Eukaryotic Promotor Database was accessed through the National Center for Biotechnology Information Basic Local Alignment Search Tool (BLAST) Network service at ftp://blast@ncbi.nlm nih.gov
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26
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15844413043
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note
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RT-PCR products synthesized from RNA (Qiagen Oligotex, Qiagen, Chatsworth, CA) prepared from affected WS and control individuals were amplified with a variety of primers and the PCR products cycle-sequenced with the dye terminator cycle sequencing kit (Perkin-Elmer). In other experiments, RT-PCR products were gel purified, reamplified with the same primers, and sequenced with a U.S. Biochemical Sequenase PCR Product sequencing kit.
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27
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15844413447
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note
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WRN clones were from a normal fibroblast cell line cDNA library that was primed with polyadenylate and cloned in Lambda ZAP pBK-CMV (Stratagene). The library was arrayed for PCR screening (75) and could be screened either by PCR amplification or by conventional plaque hybridization. The initial 2.1-kb cDNA clone containing the EST R58879 and corresponding to the 3′ end of the gene was obtained by PCR screening with primers A (5′-ACTGGCAAGGATCAAACAGAGAG-3′) and B (5′-CTTTATGAAGCCAATTTCTACCC-3′), which were designed from the DNA sequence of R58879 and produce a 145-bp fragment from WRN cDNA clones. To obtain longer clones, we designed primers 5EA (5′-GAACTTTGAAGTCCATCACGACC-3′) and 5EB (5′-GCATTAATAAAGCTGACATTCGCC-3′) from a GRAIL-predicted exon located 5′ in the P1 clone 2934 genomic sequence to exons containing the initial 2.1-kb clone Primers 5EA and 5EB produce a 110-bp fragment from genomic or cDNA clones, and six additional clones were obtained. An additional eight clones were obtained by plaque hybridization of the same library The longest clone produced by these methods was 4.0 kb. Additional sequence was obtained by 5′ rapid amplification of cDNA ends (5′-RACE) experiments. We used primer 5EA to synthesize first-strand cDNA by reverse transcriptase (SuperScript II RT, Life Technologies). RNA was removed by ribonuclease H, and single-strand DNA was purified with a GlassMAX spin cartridge (Life Technologies). A deoxycytidine tail was added to the 3′ end of the DNA by using terminal deoxynucleotide transferase. After heat inactivation of the terminal transferase (70°C, 10 min), the resulting DNA (5 μl) was amplified with a nested primer 5EM (5′-TCGATCAAAACCAGTACAGGTG-3′) and the 5′-RACE anchor primer (5′-CUACUACUACUAGGCCACGCGTCGACTAGTACGGGIIGGGIIGGGIIG-3′, Life Technologies) A 2 5-kb product was obtained that contained an additional 1.4 kb of unique 5′ sequence.
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15844400580
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note
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The WS patients were from an International Registry of Werner's Syndrome (G.M M) The diagnostic criteria and the ethnic origins of the individuals are as previously described (7, 12). Contributors to the registry are S S. Agarwal, F. Amato, P. Amblard, J. Anders, R. Anschuetz, M. Y. Apak, S. Balci, M. Biancalana, T. D. Bird, J. Bonar, A. Braganza, I. Bournerias, J. Chevrant Breton, W. T. Brown, G. Burg, D P. Cavalcanti, C Danesino, V. Dumas, J. Ellis, C. J. Epstein, W. Fischer, M Fraccaro, K. Fukuchi, Y. Fujiwara, P. Garnier, S. Gilgenkranz, E. Hachulla, T. J. Harrison, H Hoehn, Y. Hosokawa, A. F. Hurlimann, J Jabkowski, K. Kamino, H. Kayserili, S. Kiso, G. Klein, J. Lamit, D. Lewis, H. Little, M. C. Martin, P. Martinet, K. Marumo, M. I. Melagrano, W. Mills, A. Mohan, A. Motulsky, M. Mumenthaler, S. Murano, N. Marakami, J. Matthews, P. Modiano, Tsukasa Murakami, O. Nikaido, G. Natchiar, T. Ogihara, S. Ouais, A Partalci, F. Pasquali, N. Philip, M. Poot, C. Puissan, J. Revuz, M. W. Rizzo, C. Rubin, T. Saida, K R. Sathish, S. Scappaticci, J Schmidtke, K. Singh, R Singh, M. W. Steele, V. P. Sybert, C. Tannock, J. Taziri, B Uyeno, A Verloes, A. Wakayama, and M Yuksel
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29
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15844415359
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note
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A = 63°C. 1.5 mM Mg, and pH 10 0
-
-
-
-
30
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15844404271
-
-
note
-
N = α, where N is the number of chromosomes tested, and a is the desired significance level For mutations 1 to 3, 95% upper confidence limits are 0.03 and 0.015, based on zero observed mutations in 48 and 96 independent controls, respectively. For mutation 4, based on one heterozygote in 178 controls, and assuming a Poisson distribution, the standard deviation is equivalent to the estimated allele frequency (0 0027), giving a 95% upper confidence limit of 0008
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32
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15844423091
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note
-
Abbreviations for the amino acid residues are as follows: A. Ala; C, Cys: D, Asp, E, Glu; F, Phe; G, Gly, H, His; I, Ile; K, Lys; L, Leu; M, Met; N, Asn, P, Pro; Q, Gln, R, Arg; S, Ser; T, Thr; V, Val, W, Trp; and Y, Tyr.
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33
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15844394188
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J. Mulligan, unpublished data
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J. Mulligan, unpublished data
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34
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0016678691
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note
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Supported by National Institute on Aging grants RO1 AG12019 (G.D.S.), PO1 AG01751 (G M M), T32 AG00057 (C E.Y), R37 AG08303 (G.M.M.), and K11 AG00671-01 (F.M.H.); a Yale-L. P. Markey Trust Physician-Scientist Training Fellowship (F M.H.), and a grant from Darwin Molecular (G.D.S.). We thank E. Loomis, L. Anderson, M Sullivan, M. Tsuru, S. Fredell, A. Smith, C. Ogborn, A Jarzebowicz, E. Nemens, and A. Sarthy for technical assistance; the Darwin Molecular DNA sequencing group; R Monnat, P. Poorkaj, and T. Bird for reading the manuscript before publication; and D. Galas for helpful discussions throughout the project. Informed consent was obtained from each participant or next of kin with approval of the University of Washington Human Subjects Review Committee, or by members of the International Registry of Werner's syndrome
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