Comparative gene finding in chicken indicates that we are closing in on the set of multi-exonic widely expressed human genes.
Comparative gene finding in chicken indicates that we are closing in on the set of multi-exonic widely expressed human genes.
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DOI：
10.1093/nar/gki328
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发表时间：
2005
影响因子：
14.9
通讯作者：
Eyras, E
中科院分区：
文献类型：
--
作者：
Castelo, R;Reymond, A;Wyss, C;Câmara, F;Parra, G;Antonarakis, SE;Guigó, R;Eyras, E
最近鸡基因组序列的可用性提出了一个问题，即鸡中是否存在目前未包括在人类基因目录中的人类蛋白质编码基因。在这里，我们表明，使用比较基因发现，然后通过RT-PCR对外显子对进行实验验证，该目录的多外显子子集的添加可能只有0.2%，这表明我们可能正在接近人类基因集。然而，我们的方案有两个缺点：（i）用于过滤假阳性的预测基因的生物信息学筛选不能处理无内含子基因;以及（ii）实验验证可能无法识别特定发育时间的表达。这突出了开发方法的重要性，这些方法可以提供这两种类型基因数量的可靠估计。
The recent availability of the chicken genome sequence poses the question of whether there are human protein-coding genes conserved in chicken that are currently not included in the human gene catalog. Here, we show, using comparative gene finding followed by experimental verification of exon pairs by RT–PCR, that the addition to the multi-exonic subset of this catalog could be as little as 0.2%, suggesting that we may be closing in on the human gene set. Our protocol, however, has two shortcomings: (i) the bioinformatic screening of the predicted genes, applied to filter out false positives, cannot handle intronless genes; and (ii) the experimental verification could fail to identify expression at a specific developmental time. This highlights the importance of developing methods that could provide a reliable estimate of the number of these two types of genes.
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影响因子：
9.8
作者：
Imanishi T;Itoh T;Suzuki Y;O'Donovan C;Fukuchi S;Koyanagi KO;Barrero RA;Tamura T;Yamaguchi-Kabata Y;Tanino M;Yura K;Miyazaki S;Ikeo K;Homma K;Kasprzyk A;Nishikawa T;Hirakawa M;Thierry-Mieg J;Thierry-Mieg D;Ashurst J;Jia L;Nakao M;Thomas MA;Mulder N;Karavidopoulou Y;Jin L;Kim S;Yasuda T;Lenhard B;Eveno E;Suzuki Y;Yamasaki C;Takeda J;Gough C;Hilton P;Fujii Y;Sakai H;Tanaka S;Amid C;Bellgard M;Bonaldo Mde F;Bono H;Bromberg SK;Brookes AJ;Bruford E;Carninci P;Chelala C;Couillault C;de Souza SJ;Debily MA;Devignes MD;Dubchak I;Endo T;Estreicher A;Eyras E;Fukami-Kobayashi K;Gopinath GR;Graudens E;Hahn Y;Han M;Han ZG;Hanada K;Hanaoka H;Harada E;Hashimoto K;Hinz U;Hirai M;Hishiki T;Hopkinson I;Imbeaud S;Inoko H;Kanapin A;Kaneko Y;Kasukawa T;Kelso J;Kersey P;Kikuno R;Kimura K;Korn B;Kuryshev V;Makalowska I;Makino T;Mano S;Mariage-Samson R;Mashima J;Matsuda H;Mewes HW;Minoshima S;Nagai K;Nagasaki H;Nagata N;Nigam R;Ogasawara O;Ohara O;Ohtsubo M;Okada N;Okido T;Oota S;Ota M;Ota T;Otsuki T;Piatier-Tonneau D;Poustka A;Ren SX;Saitou N;Sakai K;Sakamoto S;Sakate R;Schupp I;Servant F;Sherry S;Shiba R;Shimizu N;Shimoyama M;Simpson AJ;Soares B;Steward C;Suwa M;Suzuki M;Takahashi A;Tamiya G;Tanaka H;Taylor T;Terwilliger JD;Unneberg P;Veeramachaneni V;Watanabe S;Wilming L;Yasuda N;Yoo HS;Stodolsky M;Makalowski W;Go M;Nakai K;Takagi T;Kanehisa M;Sakaki Y;Quackenbush J;Okazaki Y;Hayashizaki Y;Hide W;Chakraborty R;Nishikawa K;Sugawara H;Tateno Y;Chen Z;Oishi M;Tonellato P;Apweiler R;Okubo K;Wagner L;Wiemann S;Strausberg RL;Isogai T;Auffray C;Nomura N;Gojobori T;Sugano S
通讯作者：
Sugano S
DOI：
10.1073/pnas.0337561100
发表时间：
2003-02-04
影响因子：
11.1
作者：
Guigó, R;Dermitzakis, ET;Brent, MR
通讯作者：
Brent, MR
影响因子：
7
作者：
Curwen, V;Eyras, E;Clamp, M
通讯作者：
Clamp, M
影响因子：
64.8
作者：
Gitton, Y;Dahmane, N;Yaspo, ML
通讯作者：
Yaspo, ML
影响因子：
4.4
作者：
Burset, M;Guigo, R
通讯作者：
Guigo, R