H-InvDB statistics

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Protocols

H-InvDB specifications

Information


Unique identifier OMICS_02701
Name H-InvDB
Restrictions to use None
Community driven No
Data access Browse, Application programming interface
User data submission Not allowed
Version 7.5
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

Subtools


  • Locus view
  • Protein view
  • Transcript view

Maintainers


  • person_outline Tadashi Imanishi
  • person_outline H-InvDB team

Publications for H-InvDB

H-InvDB citations

 (18)
library_books

Predictive analysis of long non coding RNA expression profiles in diffuse large B cell lymphoma

2017
Oncotarget
PMCID: 5410299
PMID: 28423571
DOI: 10.18632/oncotarget.15571

[…] ip software, version 2.0 (4*180K; OE Biotech, Shanghai, China), containing 46,506 lncRNAs and 30,656 mRNAs collected from eight authoritative databases, including Agilent_ncRNA, lncRNAdb, GencodeV13, H-invDB, NONCODEv3.0, RefSeqUCR, and UCSC_lncRNAs transcripts. After hybridization and washing, processed slides were scanned with the Agilent G2505C microarray scanner (Agilent Technologies). Raw dat […]

library_books

High expression of the long non coding RNA HEIRCC promotes Renal Cell Carcinoma metastasis by inducing epithelial mesenchymal transition

2016
Oncotarget
PMCID: 5351652
PMID: 28030807
DOI: 10.18632/oncotarget.14149

[…] V4.0 (4 × 180K, format). More than 40,916 lncRNAs were collected from authoritative data sources, including the GENCODE/Ensembl, Human LncRNA Catalog, RefSeq, USCS, ncRNA Expression Database (NRED), H-InvDB, LncRNAs-a (enhancer-like), RNAdb, CombinedLit, Antisense ncRNA pipeline, HoxncRNAs, UCRs, and Chen Runsheng lab. After hybridization and washing, the processed slides were scanned with the Ag […]

library_books

Construction of an integrative regulatory element and variation map of the murine Tst locus

2016
BMC Genet
PMCID: 4902921
PMID: 27287690
DOI: 10.1186/s12863-016-0381-6

[…] in our obesity/leanness mouse lines. To accomplish this, we first needed a high resolution sequence of the Tst locus in both lines to identify all possible polymorphisms. The sequencing strategy and locus view of 10962 bp-long sequenced segment (Chr 15: 78399030 - 78409992 bp) covering the Tst gene plus additional 4133 bp sequence of the promoter (Chr15: 78405859 - 78409992) and 526 bp downstream […]

library_books

Characterization of an extensive rainbow trout miRNA transcriptome by next generation sequencing

2016
BMC Genomics
PMCID: 4774146
PMID: 26931235
DOI: 10.1186/s12864-016-2505-9

[…] /sra/?term=PRJNA227065). A website located at “ngspipelines.toulouse.inra.fr:9064” allows to explore all predicted miRNA providing complete information including functional and structural annotation, locus view and expression visualization by library (Additional file ). […]

library_books

GeneSense: a new approach for human gene annotation integrated with protein protein interaction networks

2014
Sci Rep
PMCID: 3966033
PMID: 24667292
DOI: 10.1038/srep04474

[…] rovide active links to articles that first described the gene in question or that are particularly relevant to the nomenclature of the gene. Additional links such as GeneCards, GENATLAS, GOPubmed and H-InvDB are included in GeneSense based on HGNC. KEGG information is used for pathway analysis in GeneSense. The threads of basic protein-protein interaction information fetched from different data so […]

library_books

Assessing the impact of human genome annotation choice on RNA seq expression estimates

2013
BMC Bioinformatics
PMCID: 3816316
PMID: 24564364
DOI: 10.1186/1471-2105-14-S11-S8

[…] tes leads to the lower average CV. Trends for all genes and uncommon genes are similar. The AceView annotation has the highest average CV, followed by the Vega annotation, the Ensembl annotation, the H-InvDB annotation, the UCSC annotation, and the RefSeq annotation. In the case of all isoforms, sometimes the H-InvDB annotation results in the highest average CV. For common genes, the difference in […]

Citations

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H-InvDB institution(s)
Integrated Database and Systems Biology Team, Biomedicinal Information Research Center, National Institute of Advanced Industrial Science and Technology, Koto-ku, Tokyo, Japan

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