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WORDUP: an efficient algorithm for discovering statistically significant patterns in DNA sequences.WORDUP：一种用于在DNA序列中发现具有统计学意义模式的高效算法。
Nucleic Acids Res. 1992 Jun 11;20(11):2871-5. doi: 10.1093/nar/20.11.2871.
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Eukaryotic promoter recognition by binding sites for transcription factors.通过转录因子结合位点进行真核生物启动子识别
Comput Appl Biosci. 1995 Oct;11(5):477-88. doi: 10.1093/bioinformatics/11.5.477.
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Computer tool FUNSITE for analysis of eukaryotic regulatory genomic sequences.用于分析真核生物调控基因组序列的计算机工具FUNSITE
Proc Int Conf Intell Syst Mol Biol. 1995;3:197-205.
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Weight matrix descriptions of four eukaryotic RNA polymerase II promoter elements derived from 502 unrelated promoter sequences.从502个不相关的启动子序列中得出的四种真核生物RNA聚合酶II启动子元件的权重矩阵描述。
J Mol Biol. 1990 Apr 20;212(4):563-78. doi: 10.1016/0022-2836(90)90223-9.
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Predicting Pol II promoter sequences using transcription factor binding sites.利用转录因子结合位点预测RNA聚合酶II启动子序列
J Mol Biol. 1995 Jun 23;249(5):923-32. doi: 10.1006/jmbi.1995.0349.
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Investigating extended regulatory regions of genomic DNA sequences.研究基因组DNA序列的扩展调控区域。
Bioinformatics. 1999 Jul-Aug;15(7-8):644-53. doi: 10.1093/bioinformatics/15.7.644.
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SIMD parallelization of the WORDUP algorithm for detecting statistically significant patterns in DNA sequences.用于检测DNA序列中具有统计学意义模式的WORDUP算法的单指令多数据（SIMD）并行化。
Comput Appl Biosci. 1993 Dec;9(6):701-7. doi: 10.1093/bioinformatics/9.6.701.
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MicroRNA promoter element discovery in Arabidopsis.拟南芥中微小RNA启动子元件的发现
RNA. 2006 Sep;12(9):1612-9. doi: 10.1261/rna.130506. Epub 2006 Aug 3.
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Automatic extraction of position specific cooccurrence of transcription factor bindings on promoters.自动提取启动子上转录因子结合位点的位置特异性共现情况。
Pac Symp Biocomput. 1998:252-63.
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Functional binding of the "TATA" box binding component of transcription factor TFIID to the -30 region of TATA-less promoters.转录因子TFIID的“TATA”盒结合组件与无TATA框启动子的-30区域的功能性结合。
Proc Natl Acad Sci U S A. 1992 Jul 1;89(13):5814-8. doi: 10.1073/pnas.89.13.5814.
引用本文的文献
1
Unsupervised statistical discovery of spaced motifs in prokaryotic genomes.原核生物基因组中间隔基序的无监督统计发现。
BMC Genomics. 2017 Jan 5;18(1):27. doi: 10.1186/s12864-016-3400-0.
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An algorithm for identifying novel targets of transcription factor families: application to hypoxia-inducible factor 1 targets.一种用于识别转录因子家族新靶点的算法：应用于缺氧诱导因子1靶点
Cancer Inform. 2009;7:75-89. doi: 10.4137/cin.s1054. Epub 2009 Mar 4.
3
The RHNumtS compilation: features and bioinformatics approaches to locate and quantify Human NumtS.RHNumtS汇编：定位和量化人类核线粒体DNA插入序列（NumtS）的特征及生物信息学方法
BMC Genomics. 2008 Jun 3;9:267. doi: 10.1186/1471-2164-9-267.
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A survey of DNA motif finding algorithms.DNA基序查找算法综述。
BMC Bioinformatics. 2007 Nov 1;8 Suppl 7(Suppl 7):S21. doi: 10.1186/1471-2105-8-S7-S21.
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Computational identification of transcriptional regulatory elements in DNA sequence.DNA序列中转录调控元件的计算识别
Nucleic Acids Res. 2006 Jul 19;34(12):3585-98. doi: 10.1093/nar/gkl372. Print 2006.
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Remarkable sequence signatures in archaeal genomes.古菌基因组中显著的序列特征。
Archaea. 2003 Oct;1(3):185-90. doi: 10.1155/2003/458235.
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Kangaroo--a pattern-matching program for biological sequences.袋鼠——一个用于生物序列的模式匹配程序。
BMC Bioinformatics. 2002 Jul 31;3:20. doi: 10.1186/1471-2105-3-20.
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Extraction of functional binding sites from unique regulatory regions: the Drosophila early developmental enhancers.从独特调控区域中提取功能性结合位点：果蝇早期发育增强子
Genome Res. 2002 Mar;12(3):470-81. doi: 10.1101/gr.212502.
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Atypical regions in large genomic DNA sequences.大型基因组DNA序列中的非典型区域。
Proc Natl Acad Sci U S A. 1994 Jul 19;91(15):7134-8. doi: 10.1073/pnas.91.15.7134.
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Analysis of eukaryotic promoter sequences reveals a systematically occurring CT-signal.对真核生物启动子序列的分析揭示了一种系统出现的CT信号。
Nucleic Acids Res. 1995 Apr 11;23(7):1223-30. doi: 10.1093/nar/23.7.1223.
本文引用的文献
1
The structure and evolution of the human beta-globin gene family.人类β-珠蛋白基因家族的结构与进化
Cell. 1980 Oct;21(3):653-68. doi: 10.1016/0092-8674(80)90429-8.
2
Statistical characterization of nucleic acid sequence functional domains.核酸序列功能域的统计学特征
Nucleic Acids Res. 1983 Apr 11;11(7):2205-20. doi: 10.1093/nar/11.7.2205.
3
Organization and expression of eucaryotic split genes coding for proteins.编码蛋白质的真核生物断裂基因的组织与表达。
Annu Rev Biochem. 1981;50:349-83. doi: 10.1146/annurev.bi.50.070181.002025.
4
On the statistical significance of nucleic acid similarities.论核酸相似性的统计学意义。
Nucleic Acids Res. 1984 Jan 11;12(1 Pt 1):215-26. doi: 10.1093/nar/12.1part1.215.
5
Doublet frequencies in evolutionary distinct groups.进化上不同群体中的双重频率。
Nucleic Acids Res. 1984 Feb 10;12(3):1749-63. doi: 10.1093/nar/12.3.1749.
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A comprehensive set of sequence analysis programs for the VAX.一套适用于VAX的综合序列分析程序。
Nucleic Acids Res. 1984 Jan 11;12(1 Pt 1):387-95. doi: 10.1093/nar/12.1part1.387.
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Signal search analysis: a new method to localize and characterize functionally important DNA sequences.信号搜索分析：一种定位和表征功能重要DNA序列的新方法。
Nucleic Acids Res. 1984 Jan 11;12(1 Pt 1):287-305. doi: 10.1093/nar/12.1part1.287.
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Pattern recognition in several sequences: consensus and alignment.多个序列中的模式识别：共有序列与比对
Bull Math Biol. 1984;46(4):515-27. doi: 10.1007/BF02459500.
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The repeated GC-rich motifs upstream from the TATA box are important elements of the SV40 early promoter.TATA框上游富含GC的重复基序是SV40早期启动子的重要元件。
Nucleic Acids Res. 1983 Apr 25;11(8):2447-64. doi: 10.1093/nar/11.8.2447.
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Eukaryotic dinucleotide preference rules and their implications for degenerate codon usage.真核生物二核苷酸偏好规则及其对简并密码子使用的影响。
J Mol Biol. 1981 Jun 15;149(1):125-31. doi: 10.1016/0022-2836(81)90264-3.
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