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| 本帖產(chǎn)生 1 個 翻譯EPI ，點擊這里進行查看 | |||
yyn0452木蟲 (正式寫手)
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[交流]
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First, we computed a correlation matrix for each amino acid: All instances of codons for a given amino acid were extracted, and the identity of the next synonymous codon in the same reading frame was determined. Based on this, the frequency of each possible codon pair was established and compared to the frequency expected under the assumption of random distribution, given the observed codon frequencies (product of individual frequencies). The results were then expressed as number of standard deviations from the expected (Z transform) or percent deviation from the expected,respectively. The autocorrelation results in Table 1 and Table S2 were computed as follows. For each sequence and for each of the nine amino acids with isoaccepting tRNAs (Ala, Arg, Gly, Iso, Leu, Pro, Ser, Thr, and Val) the number of consecutive pairs of codons were counted. The expected number of consecutive pairs was computed as the products of the frequencies of the individual codons of each pair in the database. A Z-transform, subtracting the expected counts from the observed and dividing by the standard deviation (estimated assuming a binomial distribution) was performed and the results expressed as standard deviations from the expected value. The same results were expressed as percentages by subtracting the expected counts from the observed counts and dividing by the expected counts. |
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cszhangdy
木蟲 (著名寫手)
- 翻譯EPI: 1
- 應助: 0 (幼兒園)
- 金幣: 1563.2
- 帖子: 1009
- 在線: 66.5小時
- 蟲號: 936787
- 注冊: 2010-01-04
- 性別: GG
- 專業(yè): 計算機應用技術
★ ★
sirljz(金幣+2):謝謝交流 2010-04-29 17:56
yyn0452(金幣+5, 翻譯EPI+1): 2010-05-04 09:05
sirljz(金幣+2):謝謝交流 2010-04-29 17:56
yyn0452(金幣+5, 翻譯EPI+1): 2010-05-04 09:05
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第一段： 首先，對于每一個氨基酸，我們計算一個相關矩陣：對于一個給定的氨基酸，提取其所有的遺傳密碼子，并且其在同一個（reading Frame）內(nèi)的同義密碼子的標識也確定下來了。基于此，可以獲取每一個可能的密碼子對的頻率，同時，假如給定觀測到的密碼子的頻率（各自頻率的乘積，）就可以與假設在隨機分布的前提下的頻率的期望相比較。比較的結(jié)果可以各自的表示成期望+- 標準差，或者（標準差/期望）*100%。 [ Last edited by cszhangdy on 2010-4-29 at 17:02 ] |
2樓2010-04-29 16:56:35
yyn0452(金幣+10): 2010-05-04 09:05
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首先，我們計算每一個相關的氨基酸矩陣：對于一個給定氨基酸，提取所有的密碼子的實例,以及確定同一配對位置的同義密碼子的身份。在此基礎上，對建立每個可能的密碼子配對頻率，由觀測到的密碼子頻率（各自頻率乘積），就能與隨機分布的假設預期頻率相比較。結(jié)果則表示成期望（Z變換）或偏離預期的百分比標準偏差數(shù) 表1和表S2的自相關結(jié)果，分別計算如下。對于每個序列和9個與isoaccepting個tRNA（丙氨酸，精氨酸，甘氨酸，異亮氨酸，脯氨酸，絲氨酸，蘇氨酸，和纈氨酸）的密碼子連續(xù)對數(shù)個氨基酸進行計數(shù)。對預期的連續(xù)數(shù)計算，作為對數(shù)據(jù)庫中的每個個人密碼子配對的頻率的乘積。A Z變換，從觀測減去預期的數(shù)量和除以標準差估計假設一個二項分布（），同時從預期值標準差表示的結(jié)果。同樣的結(jié)果表示為百分比減去預計觀察計數(shù)計數(shù)和計數(shù)除以預期。 |
3樓2010-04-30 07:37:34
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