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Protein Bioinformatics Databases and Resources [PDF]

, 2010
In the past decades, a variety of publicly available data repositories and resources have been developed to support protein related information management, data-driven hypothesis generation and biological knowledge discovery. However, there is also an increasing confusion for the researchers who are trying to quickly find the appropriate resources to ...
Chuming, Chen, Hongzhan, Huang, Cathy H, Wu   +2 more
openaire   +3 more sources

PROTEIN IDENTIFICATION USING SEQUENCE DATABASES

Scientific Journal of Astana IT University, 2020
The bottom-up proteomics approach (also known as the shotgun approach), based on the digestion of proteins in peptides and their sequencing using tandem mass spectrometry (MS/MS), has become widespread. The identification of peptides from the obtained MS/
Golenko Ye., A. Ismailova, Ye. Rais
doaj  

The Protein Identifier Cross-Referencing (PICR) service: reconciling protein identifiers across multiple source databases

BMC Bioinformatics, 2007
Background Each major protein database uses its own conventions when assigning protein identifiers. Resolving the various, potentially unstable, identifiers that refer to identical proteins is a major challenge.
Leinonen Rasko, Lin Quan, Reisinger Florian, Kerrien Samuel, Martens Lennart, Jones Philip, Côté Richard G, Apweiler Rolf, Hermjakob Henning   +8 more
doaj   +1 more source

Proteomics: taking over where genomics leaves off

Czech Journal of Genetics and Plant Breeding, 2010
The proteomic studies are simultaneously developed in several directions and significantly influence our notions on the capabilities of biological sciences.
Ritu MAHAJAN, Priyanka GUPTA
doaj   +1 more source

Comparative Assessment of Protein Kinase Inhibitors in Public Databases and in PKIDB

Molecules, 2020
Since the first approval of a protein kinase inhibitor (PKI) by the Food and Drug Administration (FDA) in 2001, 55 new PKIs have reached the market, and many inhibitors are currently being evaluated in clinical trials.
Colin Bournez, Fabrice Carles, Gautier Peyrat, Samia Aci-Sèche, Stéphane Bourg, Christophe Meyer, Pascal Bonnet   +6 more
doaj   +1 more source

Pattern matching and pattern discovery algorithms for protein topologies

, 2001
We describe algorithms for pattern matching and pattern learning in TOPS diagrams (formal descriptions of protein topologies). These problems can be reduced to checking for subgraph isomorphism and finding maximal common subgraphs in a restricted ...
Viksna, J, Juris Víksna, Gilbert, D, David Gilbert   +3 more
core   +1 more source

The SIB Swiss Institute of Bioinformatics' resources: focus on curated databases [PDF]

, 2016
The SIB Swiss Institute of Bioinformatics (www.isb-sib.ch) provides world-class bioinformatics databases, software tools, services and training to the international life science community in academia and industry. These solutions allow life scientists to
Swiss Institute of Bioinformatics Members, SIB, SIB Swiss Institute of Bioinformatics   +1 more
core   +1 more source

TOPAZ: asymmetric suffix array neighbourhood search for massive protein databases

BMC Bioinformatics, 2018
Background Protein homology search is an important, yet time-consuming, step in everything from protein annotation to metagenomics. Its application, however, has become increasingly challenging, due to the exponential growth of protein databases.
Alan Medlar, Liisa Holm
doaj   +1 more source

PCDDB: the Protein Circular Dichroism Data Bank, a repository for circular dichroism spectral and metadata

, 2010
The Protein Circular Dichroism Data Bank (PCDDB) is a public repository that archives and freely distributes circular dichroism (CD) and synchrotron radiation CD (SRCD) spectral data and their associated experimental metadata.
Klose, D.P., Benjamin Woollett, B. A. Wallace, Woollett, Benjamin, Janes, R.W., Wallace, Bonnie A., Robert W. Janes, Lee Whitmore, Andrew John Miles, Whitmore, Lee, Miles, Andrew J., D. P. Klose   +11 more
core   +1 more source

MedProDB: A database of Mediator proteins

Computational and Structural Biotechnology Journal, 2021
In the last three decades, the multi-subunit Mediator complex has emerged as the key component of transcriptional regulation of eukaryotic gene expression. Although there were initial hiccups, recent advancements in bioinformatics tools contributed significantly to in-silico prediction and characterization of Mediator subunits from several organisms ...
Rohan Bhardwaj, Jitendra Kumar Thakur, Shailesh Kumar   +2 more
openaire   +3 more sources