ArticleJournal of biomolecular NMR2012
TSAR: a program for automatic resonance assignment using 2D cross-sections of high dimensionality, high-resolution spectra.
Article in Journal of biomolecular NMR, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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18 citing papers in PubMed, 24 citations in OpenAlex.
- Interaction patterns of methoprene-tolerant and germ cell-expressedFrontiers in molecular biosciences · 2023Article
- Linear discriminant analysis reveals hidden patterns in NMR chemical shifts of intrinsically disordered proteins.PLoS computational biology · 2022Article
- Order from disorder in the sarcomere: FATZ forms a fuzzy but tight complex and phase-separated condensates with α-actinin.Science advances · 2021Article
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- POTENCI: prediction of temperature, neighbor and pH-corrected chemical shifts for intrinsically disordered proteins.Journal of biomolecular NMR · 2018Article
- 1H, 15N, 13C resonance assignment of human GAP-43.Biomolecular NMR assignments · 2016Article
- Amino acid recognition for automatic resonance assignment of intrinsically disordered proteins.Journal of biomolecular NMR · 2016Article
- Biochemical and Structural Characterization of the Interaction between the Siderocalin NGAL/LCN2 (Neutrophil Gelatinase-associated Lipocalin/Lipocalin 2) and the N-terminal Domain of Its Endocytic Receptor SLC22A17.The Journal of biological chemistry · 2016Article
- (1)H, (15)N, (13)C resonance assignment of human osteopontin.Biomolecular NMR assignments · 2015Article
- (13)C-detected NMR experiments for automatic resonance assignment of IDPs and multiple-fixing SMFT processing.Journal of biomolecular NMR · 2015Article
- APSY-NMR for protein backbone assignment in high-throughput structural biology.Journal of biomolecular NMR · 2015Article
- A six-dimensional alpha proton detection-based APSY experiment for backbone assignment of intrinsically disordered proteins.Journal of biomolecular NMR · 2014Article
- "CON-CON" assignment strategy for highly flexible intrinsically disordered proteins.Journal of biomolecular NMR · 2014Article
- Backbone and partial side chain assignment of the microtubule binding domain of the MAP1B light chain.Biomolecular NMR assignments · 2014Article
- High-dimensionality 13C direct-detected NMR experiments for the automatic assignment of intrinsically disordered proteins.Journal of biomolecular NMR · 2013Article
- ¹H, ¹³C, and ¹⁵N backbone and side chain resonance assignments of the C-terminal DNA binding and dimerization domain of v-Myc.Biomolecular NMR assignments · 2013Article
- ¹H, ¹³C and ¹⁵N resonance assignments of human BASP1.Biomolecular NMR assignments · 2013Article
- Practical use of chemical shift databases for protein solid-state NMR: 2D chemical shift maps and amino-acid assignment with secondary-structure information.Journal of biomolecular NMR · 2013Article
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3 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
While NMR studies of proteins typically aim at structure, dynamics or interactions, resonance assignments represent in almost all cases the initial step of the analysis. With increasing complexity of the NMR spectra, for example due to decreasing extent of ordered structure, this task often becomes both difficult and time-consuming, and the recording of high-dimensional data with high-resolution may be essential. Random sampling of the evolution time space, combined with sparse multidimensional Fourier transform (SMFT), allows for efficient recording of very high dimensional spectra (≥4 dimensions) while maintaining high resolution. However, the nature of this data demands for automation of the assignment process. Here we present the program TSAR (Tool for SMFT-based Assignment of Resonances), which exploits all advantages of SMFT input. Moreover, its flexibility allows to process data from any type of experiments that provide sequential connectivities. The algorithm was tested on several protein samples, including a disordered 81-residue fragment of the δ subunit of RNA polymerase from Bacillus subtilis containing various repetitive sequences. For our test examples, TSAR achieves a high percentage of assigned residues without any erroneous assignments.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.