Non-B DB v2.0: a database of predicted non-B DNA-forming motifs and its associated tools.
Non-B DB v2.0: a database of predicted non-B DNA-forming motifs and its associated tools.
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DOI：
10.1093/nar/gks955
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发表时间：
2013-01
影响因子：
14.9
通讯作者：
Stephens RM
中科院分区：
文献类型：
--
作者：
Cer RZ;Donohue DE;Mudunuri US;Temiz NA;Loss MA;Starner NJ;Halusa GN;Volfovsky N;Yi M;Luke BT;Bacolla A;Collins JR;Stephens RM
可在http://nonb.abcc.ncifcrf.gov上获得的非b DB目录预测了非b dna形成序列基序，包括若干基因组中的Z-DNA、g -四重体、a -阶段重复、反向重复、镜像重复、直接重复及其相应的亚群：十字形、三重体和滑动结构。数据库2.0版修订并重新实现了基序发现算法，以更好地与公认的基序定义和阈值保持一致，通过包括短串联重复序列扩大了非b dna形成基序的覆盖范围，并添加了关键的可视化工具来比较基序位置与其他基因组注释的关系。Non-B DB v2.0扩展了比较基因组学的能力，包括重新注释Non-B DB v1.0中报道的5种生物，人类、黑猩猩、狗、猕猴和小鼠，并增加了7种额外的生物：猩猩、大鼠、牛、猪、马、鸭嘴兽和拟南芥。此外，非b DB v2.0提供了全面改进的图形用户界面和更快的查询性能。
The non-B DB, available at http://nonb.abcc.ncifcrf.gov, catalogs predicted non-B DNA-forming sequence motifs, including Z-DNA, G-quadruplex, A-phased repeats, inverted repeats, mirror repeats, direct repeats and their corresponding subsets: cruciforms, triplexes and slipped structures, in several genomes. Version 2.0 of the database revises and re-implements the motif discovery algorithms to better align with accepted definitions and thresholds for motifs, expands the non-B DNA-forming motifs coverage by including short tandem repeats and adds key visualization tools to compare motif locations relative to other genomic annotations. Non-B DB v2.0 extends the ability for comparative genomics by including re-annotation of the five organisms reported in non-B DB v1.0, human, chimpanzee, dog, macaque and mouse, and adds seven additional organisms: orangutan, rat, cow, pig, horse, platypus and Arabidopsis thaliana. Additionally, the non-B DB v2.0 provides an overall improved graphical user interface and faster query performance.
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影响因子：
8
作者：
Zhao, Junhua;Bacolla, Albino;Wang, Guliang;Vasquez, Karen M.
通讯作者：
Vasquez, Karen M.
影响因子：
7.3
作者：
Boddupally, Peda V. L.;Hahn, Seongmin;Beman, Cristina;De, Biswanath;Brooks, Tracy A.;Gokhale, Vijay;Hurley, Laurence H.
通讯作者：
Hurley, Laurence H.
影响因子：
7
作者：
Fungtammasan A;Walsh E;Chiaromonte F;Eckert KA;Makova KD
通讯作者：
Makova KD
影响因子：
--
作者：
Cer, R Z;Bruce, K H;Donohue, D E;Temiz, N A;Mudunuri, U S;Yi, M;Volfovsky, N;Bacolla, A;Luke, B T;Collins, J R;Stephens, R M
通讯作者：
Stephens, R M
影响因子：
2.3
作者：
Sharma S
通讯作者：
Sharma S