G測序數(shù)據(jù)
個樣本數(shù)據(jù)
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共表達分析中,整合大量相關公共樣本測序數(shù)據(jù),可構建出相較于常規(guī)樣本量下可靠度更高的基因共表達網(wǎng)絡,從而基于該網(wǎng)絡進行更加準確的后續(xù)分析:a)預測目標轉錄因子的下游調控基因、目標調控網(wǎng)絡中的關鍵轉錄因子;b)預測ncRNA與mRNA之間的靶向關系;c)基于網(wǎng)絡中已知功能基因推測同網(wǎng)絡中其他功能未知基因功能;d) 將每個共表達模塊分別作為一個整體,計算其與各組織或各發(fā)育時間點之間的相關性,建立各組織相關或各時期相關基因表達網(wǎng)絡……
[1] Wisecaver JH et al. A Global Coexpression Network Approach for Connecting Genes to Specialized Metabolic Pathways in Plants. Plant Cell. 2017
[2]?Wen Z et al.Expression profiling and functional annotation of noncoding genes across 11 distinct organs in rat development.?Sci Rep.?2016
研究某一類基因的轉錄水平在不同處理下(或不同組織部位間、或不同發(fā)育時間點等)的變化規(guī)律,可整合多個類似研究中的公共測序數(shù)據(jù)來共同揭示該變化規(guī)律,使結果更加可靠。
[1] Patil G. et al. Soybean (Glycine max) SWEET gene family: insights through comparative genomics, transcriptome profiling and whole genome re-sequence analysis. BMC Genomics. 2015
[2] Matthijs M et al.Profiling of the Early Nitrogen Stress Response in the Diatom Phaeodactylum tricornutum Reveals a Novel Family of RING-Domain Transcription Factors. Plant Physiol. 2016
1. 整合同一物種公共測序數(shù)據(jù),構建物種完備轉錄本序列參考集,用于后續(xù)功能分析。
Iyer MK et al. The landscape of long noncoding RNAs in the human transcriptome. Nat Genet. 2015
2. mRNA-ncRNA聯(lián)合分析中,利用公共數(shù)據(jù)補充其中一種類型的RNA測序數(shù)據(jù)。
Liu X et al. MicroRNA-mRNA regulatory networking fine-tunes the porcine muscle fiber type, muscular mitochondrial respiratory and metabolic enzyme activities. BMC Genomics. 2016
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條豬基因功能信息
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條豬基因功能信息