TiProD: the Tissue-specific Promoter Database

被引:24
作者
Chen, Xin
Wu, Jian-min
Hornischer, Klaus
Kel, Alexander
Wingender, Edgar [1 ]
机构
[1] Peking Univ, Natl Lab Prot Engn & Plant Genet Engn, Coll Life Sci, Ctr Bioinformat, Beijing 100871, Peoples R China
[2] BIOBASE GmbH, D-38304 Wolfenbuttel, Germany
[3] Univ Gottingen, UKG, Dept Bioinformat, D-37077 Gottingen, Germany
关键词
D O I
10.1093/nar/gkj113
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
TiProD is a database of human promoter sequences for which some functional features are known. It allows a user to query individual promoters and the expression pattern they mediate, gene expression signatures of individual tissues, and to retrieve sets of promoters according to their tissue-specific activity or according to individual Gene Ontology terms the corresponding genes are assigned to. We have defined a measure for tissue-specificity that allows the user to discriminate between ubiquitously and specifically expressed genes. The database is accessible at http://tiprod.cbi.pku.edu.cn:8080/index.html.
引用
收藏
页码:D104 / D107
页数:4
相关论文
共 18 条
  • [1] Gene Ontology: tool for the unification of biology
    Ashburner, M
    Ball, CA
    Blake, JA
    Botstein, D
    Butler, H
    Cherry, JM
    Davis, AP
    Dolinski, K
    Dwight, SS
    Eppig, JT
    Harris, MA
    Hill, DP
    Issel-Tarver, L
    Kasarskis, A
    Lewis, S
    Matese, JC
    Richardson, JE
    Ringwald, M
    Rubin, GM
    Sherlock, G
    [J]. NATURE GENETICS, 2000, 25 (01) : 25 - 29
  • [2] Searching for statistically significant regulatory modules
    Bailey, Timothy L.
    Noble, William Stafford
    [J]. BIOINFORMATICS, 2003, 19 : II16 - II25
  • [3] Frech K, 1998, In Silico Biol, V1, P29
  • [4] Ensembl 2005
    Hubbard, T
    Andrews, D
    Caccamo, M
    Cameron, G
    Chen, Y
    Clamp, M
    Clarke, L
    Coates, G
    Cox, T
    Cunningham, F
    Curwen, V
    Cutts, T
    Down, T
    Durbin, R
    Fernandez-Suarez, XM
    Gilbert, J
    Hammond, M
    Herrero, J
    Hotz, H
    Howe, K
    Iyer, V
    Jekosch, K
    Kahari, A
    Kasprzyk, A
    Keefe, D
    Keenan, S
    Kokocinsci, F
    London, D
    Longden, I
    McVicker, G
    Melsopp, C
    Meidl, P
    Potter, S
    Proctor, G
    Rae, M
    Rios, D
    Schuster, M
    Searle, S
    Severin, J
    Slater, G
    Smedley, D
    Smith, J
    Spooner, W
    Stabenau, A
    Stalker, J
    Storey, R
    Trevanion, S
    Ureta-Vidal, A
    Vogel, J
    White, S
    [J]. NUCLEIC ACIDS RESEARCH, 2005, 33 : D447 - D453
  • [5] A novel computational approach for the prediction of networked transcription factors of aryl hydrocarbon-receptor-regulated genes
    Kel, A
    Reymann, S
    Matys, V
    Nettesheim, P
    Wingender, E
    Borlak, J
    [J]. MOLECULAR PHARMACOLOGY, 2004, 66 (06) : 1557 - 1572
  • [6] Lal A, 1999, CANCER RES, V59, P5403
  • [7] SAGEmap: A public gene expression resource
    Lash, AE
    Tolstoshev, CM
    Wagner, L
    Schuler, GD
    Strausberg, RL
    Riggins, GJ
    Altschul, SF
    [J]. GENOME RESEARCH, 2000, 10 (07) : 1051 - 1060
  • [8] TRANSFAC®:: transcriptional regulation, from patterns to profiles
    Matys, V
    Fricke, E
    Geffers, R
    Gössling, E
    Haubrock, M
    Hehl, R
    Hornischer, K
    Karas, D
    Kel, AE
    Kel-Margoulis, OV
    Kloos, DU
    Land, S
    Lewicki-Potapov, B
    Michael, H
    Münch, R
    Reuter, I
    Rotert, S
    Saxel, H
    Scheer, M
    Thiele, S
    Wingender, E
    [J]. NUCLEIC ACIDS RESEARCH, 2003, 31 (01) : 374 - 378
  • [9] Michael Holger, 2005, In Silico Biology, V5, P61
  • [10] The Eukaryotic Promoter Database EPD
    Perier, RC
    Junier, T
    Bucher, P
    [J]. NUCLEIC ACIDS RESEARCH, 1998, 26 (01) : 353 - 357