Novel genes identified by manual annotation and microarray expression analysis in the pancreas.
Novel genes identified by manual annotation and microarray expression analysis in the pancreas.
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通过手动注释和胰腺中微阵列表达分析鉴定出的新基因。
DOI：
10.1016/j.ygeno.2006.04.005
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发表时间：
2006
期刊：
影响因子：
4.4
通讯作者：
Shilov,
中科院分区：
文献类型：
--
作者：
Mazzarelli,JoanM;White,Peter;Gorski,Regina;Brestelli,John;Pinney,DeborahF;Arsenlis,Athanasios;Katokhin,Alexey;Belova,Olga;Bogdanova,Vera;Elisafenko,Eugenij;Gubina,Marina;Nizolenko,Lilia;Perelman,Polina;Puzakov,Mikhail;Shilov,
小鼠PancChip是一种为研究内分泌胰腺发育和糖尿病而开发的微阵列，代表了超过13，000个cDNA。在通过计算将阵列上的cDNA分配给已知基因后，对剩余序列的人工整理鉴定出211种新的转录本。在微阵列实验中，我们发现这些转录本中的196个在总胰腺和/或胰岛中表达。在从这196个转录物中随机选择的50个克隆中，92%被qRT-PCR确认为表达。我们评估了新转录本的编码潜力，发现74%的克隆具有低编码潜力。由于转录本可能是部分mRNA，我们检查了它们翻译的蛋白质的跨膜或信号肽结构域，发现大约40个蛋白质具有这些预测结构域之一。有趣的是，当我们研究这些新的转录本与非编码microRNA的重叠时，我们发现其中一个新的转录本与一个已知的microRNA基因重叠。
The mouse PancChip, a microarray developed for studying endocrine pancreatic development and diabetes, represents over 13,000 cDNAs. After computationally assigning the cDNAs on the array to known genes, manual curation of the remaining sequences identified 211 novel transcripts. In microarray experiments, we found that 196 of these transcripts were expressed in total pancreas and/or pancreatic islets. Of 50 randomly selected clones from these 196 transcripts, 92% were confirmed as expressed by qRT-PCR. We evaluated the coding potential of the novel transcripts and found that 74% of the clones had low coding potential. Since the transcripts may be partial mRNAs, we examined their translated proteins for transmembrane or signal peptide domains and found that about 40 proteins had one of these predicted domains. Interestingly, when we investigated the novel transcripts for their overlap with noncoding microRNAs, we found that 1 of the novel transcripts overlapped a known microRNA gene.