Volume 36; Issue Database

Nucleic Acids Research

Volume 36; Issue Database
1

NORINE: a database of nonribosomal peptides

Caboche, S., Pupin, M., Leclere, V., Fontaine, A., Jacques, P., Kucherov, G.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 2.88 MB
english, 2007
2

miRBase: tools for microRNA genomics

Griffiths-Jones, S., Saini, H. K., van Dongen, S., Enright, A. J.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 1.72 MB
english, 2007
4

SmedGD: the Schmidtea mediterranea genome database

Robb, S. M.C., Ross, E., Alvarado, A. S.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 9.96 MB
english, 2007
5

DOMINE: a database of protein domain interactions

Raghavachari, B., Tasneem, A., Przytycka, T. M., Jothi, R.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 1.93 MB
english, 2007
8

The Universal Protein Resource (UniProt)

Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 95 KB
english, 2007
13

The Gene Ontology project in 2008

Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 1.67 MB
english, 2007
18

NONCODE v2.0: decoding the non-coding

He, S., Liu, C., Skogerbo, G., Zhao, H., Wang, J., Liu, T., Bai, B., Zhao, Y., Chen, R.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 2.87 MB
english, 2007
21

The microRNA.org resource: targets and expression

Betel, D., Wilson, M., Gabow, A., Marks, D. S., Sander, C.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 17.58 MB
english, 2007
28

ppdb: a plant promoter database

Yamamoto, Y. Y., Obokata, J.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 619 KB
english, 2007
31

GISSD: Group I Intron Sequence and Structure Database

Zhou, Y., Lu, C., Wu, Q.-J., Wang, Y., Sun, Z.-T., Deng, J.-C., Zhang, Y.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 6.33 MB
english, 2007
36

InParanoid 6: eukaryotic ortholog clusters with inparalogs

Berglund, A.-C., Sjolund, E., Ostlund, G., Sonnhammer, E. L. L.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 816 KB
english, 2007
37

TOPDB: topology data bank of transmembrane proteins

Tusnady, G. E., Kalmar, L., Simon, I.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 2.64 MB
english, 2007
40

coliSNP database server mapping nsSNPs on protein structures

Kono, H., Yuasa, T., Nishiue, S., Yura, K.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 2.63 MB
english, 2007
45

STITCH: interaction networks of chemicals and proteins

Kuhn, M., von Mering, C., Campillos, M., Jensen, L. J., Bork, P.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 1.15 MB
english, 2007
46

VFDB 2008 release: an enhanced web-based resource for comparative pathogenomics

Yang, J., Chen, L., Sun, L., Yu, J., Jin, Q.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 3.71 MB
english, 2007
47

CanGEM: mining gene copy number changes in cancer

Scheinin, I., Myllykangas, S., Borze, I., Bohling, T., Knuutila, S., Saharinen, J.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 2.22 MB
english, 2007
48

Editorial

Bateman, A.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 34 KB
english, 2007
51

DBTSS: database of transcription start sites, progress report 2008

Wakaguri, H., Yamashita, R., Suzuki, Y., Sugano, S., Nakai, K.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 9.32 MB
english, 2007
56

OrthoDB: the hierarchical catalog of eukaryotic orthologs

Kriventseva, E. V., Rahman, N., Espinosa, O., Zdobnov, E. M.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 2.59 MB
english, 2007
60

Panzea: an update on new content and features

Canaran, P., Buckler, E. S., Glaubitz, J. C., Stein, L., Sun, Q., Zhao, W., Ware, D.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 71 KB
english, 2007
62

ATDB: a uni-database platform for animal toxins

He, Q.-Y., He, Q.-Z., Deng, X.-C., Yao, L., Meng, E., Liu, Z.-H., Liang, S.-P.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 4.36 MB
english, 2007
66

The Gypsy Database (GyDB) of mobile genetic elements

Llorens, C., Futami, R., Bezemer, D., Moya, A.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 9.39 MB
english, 2007
67

PROCOGNATE: a cognate ligand domain mapping for enzymes

Bashton, M., Nobeli, I., Thornton, J. M.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 2.48 MB
english, 2007
74

IDBD: Infectious Disease Biomarker Database

Yang, I. S., Ryu, C., Cho, K. J., Kim, J. K., Ong, S. H., Mitchell, W. P., Kim, B. S., Oh, H.-B., Kim, K. H.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 6.31 MB
english, 2007
75

F-SNP: computationally predicted functional SNPs for disease association studies

Lee, P. H., Shatkay, H.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 3.37 MB
english, 2007
80

UTRome.org: a platform for 3'UTR biology in C. elegans

Mangone, M., MacMenamin, P., Zegar, C., Piano, F., Gunsalus, K. C.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 12.55 MB
english, 2007
82

CTCFBSDB: a CTCF-binding site database for characterization of vertebrate genomic insulators

Bao, L., Zhou, M., Cui, Y.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 1.41 MB
english, 2007
84

KNOTTIN: the knottin or inhibitor cystine knot scaffold in 2007

Gracy, J., Le-Nguyen, D., Gelly, J.-C., Kaas, Q., Heitz, A., Chiche, L.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 2.05 MB
english, 2007
87

UgMicroSatdb: database for mining microsatellites from unigenes

Aishwarya, V., Sharma, P. C.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 1.85 MB
english, 2007
93

The Telomerase Database

Podlevsky, J. D., Bley, C. J., Omana, R. V., Qi, X., Chen, J. J.-L.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 2.01 MB
english, 2007
94

Vir-Mir db: prediction of viral microRNA candidate hairpins

Li, S.-C., Shiau, C.-K., Lin, W.-c.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 4.86 MB
english, 2007
96

The Molecular Biology Database Collection: 2008 update

Galperin, M. Y.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 64 KB
english, 2007
102

MALISAM: a database of structurally analogous motifs in proteins

Cheng, H., Kim, B.-H., Grishin, N. V.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 3.59 MB
english, 2007
103

HotSprint: database of computational hot spots in protein interfaces

Guney, E., Tuncbag, N., Keskin, O., Gursoy, A.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 4.72 MB
english, 2007
105

The cell cycle DB: a systems biology approach to cell cycle analysis

Alfieri, R., Merelli, I., Mosca, E., Milanesi, L.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 2.77 MB
english, 2007
112

DB-PABP: a database of polyanion-binding proteins

Fang, J., Dong, Y., Salamat-Miller, N., Russell Middaugh, C.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 2.57 MB
english, 2007
114

COXPRESdb: a database of coexpressed gene networks in mammals

Obayashi, T., Hayashi, S., Shibaoka, M., Saeki, M., Ohta, H., Kinoshita, K.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 7.28 MB
english, 2007
116

PairsDB atlas of protein sequence space

Heger, A., Korpelainen, E., Hupponen, T., Mattila, K., Ollikainen, V., Holm, L.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 100 KB
english, 2007
120

FlyBase: integration and improvements to query tools

Wilson, R. J., Goodman, J. L., Strelets, V. B.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 7.36 MB
english, 2007
122

FunSimMat: a comprehensive functional similarity database

Schlicker, A., Albrecht, M.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 2.53 MB
english, 2007
126

DDBJ with new system and face

Sugawara, H., Ogasawara, O., Okubo, K., Gojobori, T., Tateno, Y.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 1.94 MB
english, 2007
128

The Rice Annotation Project Database (RAP-DB): 2008 update

Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 2.65 MB
english, 2007
137

The vertebrate genome annotation (Vega) database

Wilming, L. G., Gilbert, J. G. R., Howe, K., Trevanion, S., Hubbard, T., Harrow, J. L.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 16.52 MB
english, 2007
140

The hepatitis C sequence database in Los Alamos

Kuiken, C., Hraber, P., Thurmond, J., Yusim, K.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 3.48 MB
english, 2007
141

GreenPhylDB: a database for plant comparative genomics

Conte, M. G., Gaillard, S., Lanau, N., Rouard, M., Perin, C.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 7.68 MB
english, 2007
142

OPTIC: orthologous and paralogous transcripts in clades

Heger, A., Ponting, C. P.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 2.87 MB
english, 2007
143

piRNABank: a web resource on classified and clustered Piwi-interacting RNAs

Sai Lakshmi, S., Agrawal, S.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 1.57 MB
english, 2007
145

miRGator: an integrated system for functional annotation of microRNAs

Nam, S., Kim, B., Shin, S., Lee, S.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 4.73 MB
english, 2007
152

PRIDE: new developments and new datasets

Jones, P., Cote, R. G., Cho, S. Y., Klie, S., Martens, L., Quinn, A. F., Thorneycroft, D., Hermjakob, H.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 3.98 MB
english, 2007
161

Development of a heme protein structure electrochemical function database

Reedy, C. J., Elvekrog, M. M., Gibney, B. R.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 3.14 MB
english, 2007
162

Phospho.ELM: a database of phosphorylation sites update 2008

Diella, F., Gould, C. M., Chica, C., Via, A., Gibson, T. J.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 2.92 MB
english, 2007
164

ChromDB: The Chromatin Database

Gendler, K., Paulsen, T., Napoli, C.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 1.90 MB
english, 2007
167

EuroPhenome and EMPReSS: online mouse phenotyping resource

Mallon, A.-M., Blake, A., Hancock, J. M.
Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 1.74 MB
english, 2007
168

The H-Invitational Database (H-InvDB), a comprehensive annotation resource for human genes and transcripts

Journal:
Nucleic Acids Research
Year:
2007
Language:
english
File:
PDF, 2.67 MB
english, 2007