The DOI matches its Crossref record; 5 of the 5 references it cites were found in a registry or an index.
Human Protein Reference Database and Human Proteinpedia as Discovery Tools for Systems Biology
Abstract
Although high-throughput technologies used in biology have resulted in the accumulation of vast amounts of data in the literature, it is becoming difficult for individual investigators to directly benefit from this data because they are not easily accessible. Databases have assumed a crucial role in assimilating and storing information that could enable future discoveries. To this end, our group has developed two resources - Human Protein Reference Database (HPRD) and Human Proteinpedia - that provide integrated information pertaining to human proteins. These databases contain information on a number of features of proteins that have been discovered using various experimental methods. Human Proteinpedia was developed as a portal for community participation to annotate and share proteomic data using HPRD as the scaffold. It allows proteomic investigators to even share unpublished data and provides an effective medium for data sharing. As proteomic information reflects a direct view of cellular systems, proteomics is expected to complement other areas of biology such as genomics, transcriptomics, classical genetics, and chemical genetics in understanding the relationships among genome, gene functions, and living systems.
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Subramanian, A., Tamayo, P., Mootha, V. K., Mukherjee, S., Ebert, B. L., Gillette, M. A., Paulovich, A., Pomeroy, S. L., Golub, T. R., Lander, E. S., et al. (2005) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0506580102 · Cited by 53,625
High-Quality Binary Protein Interaction Map of the Yeast Interactome Network
Yu, H., Braun, P., Yıldırım, M. A., Lemmens, I., Venkatesan, K., Sahalie, J., Hirozane-Kishikawa, T., Gebreab, F., Li, N., Simonis, N., et al. (2008) · Science · doi:10.1126/science.1158684 · Cited by 1,392
ConsensusPathDB--a database for integrating human functional interaction networks
Kamburov, A., Wierling, C., Lehrach, H., & Herwig, R. (2009) · Nucleic Acids Research · doi:10.1093/nar/gkn698 · Cited by 565
PepBank - a database of peptides based on sequence text mining and public peptide data sources.
Shtatland, T., Guettler, D., Kossodo, M., Pivovarov, M., & Weissleder, R. (2007) · BMC Bioinformatics · doi:10.1186/1471-2105-8-280 · Cited by 181
Barsky, A., Gardy, J. L., Hancock, R. E. W., & Munzner, T. (2007) · Bioinformatics · doi:10.1093/bioinformatics/btm057 · Cited by 175
Cited by
Rauniyar, N. (2015) · International Journal of Molecular Sciences · doi:10.3390/ijms161226120 · Cited by 406
“The quantotypic peptides for targeted experiments can be selected from discovery-based experiments performed in the investigator’s own laboratory or searching publicly available databases, such as Global Proteome Machine (GPM) [38], PeptideAtlas [39], or Human Proteinpedia [40].”
Bhasin, M. K., Dusek, J. A., Chang, B.-H., Joseph, M. G., Denninger, J. W., Fricchione, G. L., Benson, H., & Libermann, T. A. (2013) · PLoS ONE · doi:10.1371/journal.pone.0062817 · Cited by 304
“Guilt by Association” Is the Exception Rather Than the Rule in Gene Networks
Gillis, J., & Pavlidis, P. (2012) · PLoS Computational Biology · doi:10.1371/journal.pcbi.1002444 · Cited by 214
Autism genetics: searching for specificity and convergence
Berg, J. M., & Geschwind, D. H. (2012) · Genome Biology · doi:10.1186/gb-2012-13-7-247 · Cited by 192
Scheckel, C., Drapeau, E., Frias, M. A., Park, C. Y., Fak, J., Zucker-Scharff, I., Kou, Y., Haroutunian, V., Ma'ayan, A., Buxbaum, J. D., et al. (2016) · eLife · doi:10.7554/elife.10421 · Cited by 139
Metadata
- Authors
- Prasad, T. S. K., Kandasamy, K., & Pandey, A.
- Venue
- Methods in Molecular Biology
- Publisher
- Humana Press
- Published
- 2009
- Volume
- 577
- Pages
- 67-79
- ISSN
- 1064-3745 (ISSN-L)
- 1940-6029
- OpenAlex
- W80748578
- Cited by
- 277
- References
- 5
- FWCI
- 36.62
- Type
- book chapter
- Language
- en
- Open access
- closed
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- Prasad, T. S. K., Kandasamy, K., & Pandey, A. (2009). Human Protein Reference Database and Human Proteinpedia as Discovery Tools for Systems Biology. Methods in Molecular Biology. https://doi.org/10.1007/978-1-60761-232-2_6
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