NAR 2008 - PDF Preprint Papers

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2008

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AtPID: Arabidopsis thaliana protein interactome database - an integrative platform for plant systems biology

14 years 11 days ago

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Arabidopsis thaliana Protein Interactome Database (AtPID) is an object database that integrates data from several bioinformatics prediction methods and manually collected informat...

Jian Cui, Peng Li, Guang Li, Feng Xu, Chen Zhao, Y...

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Id	Views	Title	Status

1	223	AtPID: Arabidopsis thaliana protein interactome database - an integrative platform for plant systems biology	claim
2	204	ppdb: a plant promoter database	claim
3	191	The BioGRID Interaction Database: 2008 update	claim
4	175	Onto-CC: a web server for identifying Gene Ontology conceptual clusters	claim
5	174	miRGator: an integrated system for functional annotation of microRNAs	claim
6	165	4DXpress: a database for cross-species expression pattern comparisons	claim
7	159	The UCSC Genome Browser Database: 2008 update	claim
8	152	PROMALS3D web server for accurate multiple protein sequence and structure alignments	claim
9	142	CMGSDB: integrating heterogeneous Caenorhabditis elegans data sources using compositional data mining	claim
10	141	MethyCancer: the database of human DNA methylation and cancer	claim
11	138	TarO: a target optimisation system for structural biology	claim
12	127	miRBase: tools for microRNA genomics	claim
13	125	Phylogeny.fr: robust phylogenetic analysis for the non-specialist	claim
14	122	The Rice Annotation Project Database (RAP-DB): 2008 update	claim
15	122	EPGD: a comprehensive web resource for integrating and displaying eukaryotic paralog/paralogon information	claim
16	122	SIMAP - structuring the network of protein similarities	claim
17	122	PlantTFDB: a comprehensive plant transcription factor database	claim
18	119	TreeFam: 2008 Update	claim
19	119	MALISAM: a database of structurally analogous motifs in proteins	claim
20	119	Phospho.ELM: a database of phosphorylation sites - update 2008	claim
21	118	SuperTarget and Matador: resources for exploring drug-target relationships	claim
22	116	SuperPred: drug classification and target prediction	claim
23	115	Data growth and its impact on the SCOP database: new developments	claim
24	114	NetworKIN: a resource for exploring cellular phosphorylation networks	claim
25	114	ENDEAVOUR update: a web resource for gene prioritization in multiple species	claim
26	113	miRNAMap 2.0: genomic maps of microRNAs in metazoan genomes	claim
27	112	AAindex: amino acid index database, progress report 2008	claim
28	107	MutDB: update on development of tools for the biochemical analysis of genetic variation	claim
29	107	ISPIDER Central: an integrated database web-server for proteomics	claim
30	106	Enteropathogen Resource Integration Center (ERIC): bioinformatics support for research on biodefense-relevant enterobacteria	claim
31	103	DBD--taxonomically broad transcription factor predictions: new content and functionality	claim
32	103	The Generation Challenge Programme comparative plant stress-responsive gene catalogue	claim
33	103	STITCH: interaction networks of chemicals and proteins	claim
34	101	PVS: a web server for protein sequence variability analysis tuned to facilitate conserved epitope discovery	claim
35	101	RNALogo: a new approach to display structural RNA alignment	claim
36	100	The H-Invitational Database (H-InvDB), a comprehensive annotation resource for human genes and transcripts	claim
37	100	DAhunter: a web-based server that identifies homologous proteins by comparing domain architecture	claim
38	97	Database resources of the National Center for Biotechnology Information	claim
39	94	The Gene Ontology project in 2008	claim
40	91	GenBank	claim
41	90	Many Microbe Microarrays Database: uniformly normalized Affymetrix compendia with structured experimental metadata	claim
42	89	CATdb: a public access to Arabidopsis transcriptome data from the URGV-CATMA platform	claim
43	87	The CGView Server: a comparative genomics tool for circular genomes	claim
44	85	Panzea: an update on new content and features	claim
45	82	PIE: an online prediction system for protein-protein interactions from text	claim
46	78	InParanoid 6: eukaryotic ortholog clusters with inparalogs	claim
47	77	ORegAnno: an open-access community-driven resource for regulatory annotation	claim
48	75	MEROPS: the peptidase database	claim
49	74	Gene Ontology annotations at SGD: new data sources and annotation methods	claim
50	73	LocalMove: computing on-lattice fits for biopolymers	claim
51	71	EuroPhenome and EMPReSS: online mouse phenotyping resource	claim
52	67	EpiToolKit - a web server for computational immunomics	claim
53	62	TOPDB: topology data bank of transmembrane proteins	claim
54	60	The RosettaDock server for local protein-protein docking	claim
55	58	The Pfam protein families database	claim

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