Build and Broaden 3.0 AND Program Evaluation
Laird MR, Melli G, Wagner JR, Yu NY.
GSID: rbQi5qaNCDwJ
NY Yu, JR Wagner, MR Laird, G Melli, S Rey… - …, 2010 - academic.oup.com
Motivation: PSORTb has remained the most precise bacterial protein subcellular localization (SCL) predictor since it was first made available in 2003. However, the recall needs to be improved and no accurate SCL predictors yet make predictions for archaea, nor...
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Yu, N. Y., Wagner, J. R., Laird, M. R., Melli, G., Rey, S., Lo, R., ... & Brinkman, F. S. (2010). PSORTb 3.0: improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes. Bioinformatics, 26(13), 1608-1615.
Yu, Nancy Y., et al. "PSORTb 3.0: improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes." Bioinformatics 26.13 (2010): 1608-1615.
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STEM and diversification
[No authors listed]
GSID: VVxrfdsKX_EJ
W Vandebergh, K Roelants… - 18th Benelux Congress …, 2011 - researchportal.vub.be
The conquest of land was arguably one of the most fundamental ecological transitions in vertebrates, and entailed significant changes in skin structure and appendages to cope with the new environment. In extant tetrapods, the rigidity of the integument is...
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Vandebergh, W., Roelants, K., & Bossuyt, F. (2011, October). Early Radiation and Functional Diversification of Tetrapod Alpha Keratins. In 18th Benelux Congress of Zoology, Utrecht-Oral presentation.
Vandebergh, Wim, Kim Roelants, and Franky Bossuyt. "Early Radiation and Functional Diversification of Tetrapod Alpha Keratins." 18th Benelux Congress of Zoology, Utrecht-Oral presentation. 2011.
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EPSCoR Research Infrastructure Improvement Program AND Program Evaluation
[No authors listed]
GSID: PyvTA2Uo0eUJ
JB Shabb, WW Muhonen, AA Mehus - Methods in Enzymology, 2017 - Elsevier
Metallothioneins (MTs) are a family of small, highly conserved, cysteine-rich metal-binding proteins that are important for zinc and copper homeostasis, protection against oxidative stress, and buffering against toxic heavy metals. Individual human MT isoforms are candidate biomarkers for heavy...
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Shabb, J. B., Muhonen, W. W., & Mehus, A. A. (2017). Quantitation of human metallothionein isoforms in cells, tissues, and cerebrospinal fluid by mass spectrometry. In Methods in Enzymology (Vol. 586, pp. 413-431). Academic Press.
Shabb, J. B., W. W. Muhonen, and A. A. Mehus. "Quantitation of human metallothionein isoforms in cells, tissues, and cerebrospinal fluid by mass spectrometry." Methods in Enzymology. Vol. 586. Academic Press, 2017. 413-431.
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Louis Stokes Alliances for Minority Participation AND Program Evaluation
[No authors listed]
GSID: Q5EPAZOZOJQJ
JA Ream, LK Lewis, KA Lewis - Analytical biochemistry, 2016 - Elsevier
Interactions between proteins and nucleic acids are frequently analyzed using electrophoretic mobility shift assays (EMSAs). This technique separates bound protein: nucleic acid complexes from free nucleic acids by electrophoresis, most commonly using polyacrylamide gels. The current study utilizes recent...
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Ream, J. A., Lewis, L. K., & Lewis, K. A. (2016). Rapid agarose gel electrophoretic mobility shift assay for quantitating protein: RNA interactions. Analytical biochemistry, 511, 36-41.
Ream, Jennifer A., L. Kevin Lewis, and Karen A. Lewis. "Rapid agarose gel electrophoretic mobility shift assay for quantitating protein: RNA interactions." Analytical biochemistry 511 (2016): 36-41.
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STEM and diversity
Zhu X.
GSID: 2WV8PpAnvRcJ
T Li, K Liao, X Xu, Y Gao, Z Wang, X Zhu… - Frontiers in plant …, 2017 - frontiersin.org
Ammonium transporter (AMT) proteins have been reported in many plants, but no comprehensive analysis was performed in wheat. In this study, we identified 23 AMT members (…
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Li, T., Liao, K., Xu, X., Gao, Y., Wang, Z., Zhu, X., ... & Xuan, Y. (2017). Wheat Ammonium Transporter (AMT) Gene family: diversity and possible role in host–pathogen interaction with stem rust. Frontiers in plant science, 8, 1637.
Li, Tianya, et al. "Wheat Ammonium Transporter (AMT) Gene family: diversity and possible role in host–pathogen interaction with stem rust." Frontiers in plant science 8 (2017): 1637.
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science campus
Dissmeyer N.
GSID: tOc3U5A2yl8J
N Dissmeyer, S Rivas, E Graciet - New Phytologist, 2018 - Wiley Online Library
… ND is supported by a grant for a junior research group by the ScienceCampus Halle – Plant‐based Bioeconomy, by grant LSP‐TP2‐1 of the Research Focus Program ‘Molecular biosciences as a motor for a knowledge‐based economy’ from the European...
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Dissmeyer, N., Rivas, S., & Graciet, E. (2018). Life and death of proteins after protease cleavage: protein degradation by the N‐end rule pathway. New Phytologist, 218(3), 929-935.
Dissmeyer, Nico, Susana Rivas, and Emmanuelle Graciet. "Life and death of proteins after protease cleavage: protein degradation by the N‐end rule pathway." New Phytologist 218.3 (2018): 929-935.
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k-12
Germon P.
GSID: w0Y0ioKFfvcJ
T Clavel, P Germon, A Vianney, R Portalier… - Molecular …, 1998 - Wiley Online Library
… coli K-12 consists of several proteins that form two complexes in the cell envelope. The TolQ, TolR and TolA proteins are located in the … coli K-12 strains used in this study were all derivatives of strain JC8056...
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Clavel, T., Germon, P., Vianney, A., Portalier, R., & Lazzaroni, J. C. (1998). TolB protein of Escherichia coli K‐12 interacts with the outer membrane peptidoglycan‐associated proteins Pal, Lpp and OmpA. Molecular microbiology, 29(1), 359-367.
Clavel, Thierry, et al. "TolB protein of Escherichia coli K‐12 interacts with the outer membrane peptidoglycan‐associated proteins Pal, Lpp and OmpA." Molecular microbiology 29.1 (1998): 359-367.
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k-12
Morona R.
GSID: wmfwkoMULxMJ
R Morona, M Klose, U Henning - Journal of bacteriology, 1984 - Am Soc Microbiol
The outer membrane protein OmpA of Escherichia coli K-12 serves as a receptor for a number of T-even-like phages. We have isolated a series of ompA mutants which are resistant to such phages but which still produce the OmpA...
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Morona, R. E. N. A. T. O., Klose, M. I. C. H. A. E. L., & Henning, U. (1984). Escherichia coli K-12 outer membrane protein (OmpA) as a bacteriophage receptor: analysis of mutant genes expressing altered proteins. Journal of bacteriology, 159(2), 570-578.
Morona, R. E. N. A. T. O., M. I. C. H. A. E. L. Klose, and U. Henning. "Escherichia coli K-12 outer membrane protein (OmpA) as a bacteriophage receptor: analysis of mutant genes expressing altered proteins." Journal of bacteriology 159.2 (1984): 570-578.
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program design
[No authors listed]
GSID: So3pDviN0FoJ
A Miranker, M Karplus - Proteins: Structure, Function, and …, 1991 - Wiley Online Library
A new method is proposed for determining energetically favorable positions and orientations for functional groups on the surface of proteins with known three‐dimensional structure …
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Miranker, A., & Karplus, M. (1991). Functionality maps of binding sites: a multiple copy simultaneous search method. Proteins: Structure, Function, and Bioinformatics, 11(1), 29-34.
Miranker, Andrew, and Martin Karplus. "Functionality maps of binding sites: a multiple copy simultaneous search method." Proteins: Structure, Function, and Bioinformatics 11.1 (1991): 29-34.
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program design
[No authors listed]
GSID: USBHuuYuTgkJ
G Sachdeva, K Kumar, P Jain… - Bioinformatics, 2005 - academic.oup.com
Motivation: The adhesion of microbial pathogens to host cells is mediated by adhesins. Experimental methods used for characterizing adhesins are time-consuming and demand …
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Sachdeva, G., Kumar, K., Jain, P., & Ramachandran, S. (2005). SPAAN: a software program for prediction of adhesins and adhesin-like proteins using neural networks. Bioinformatics, 21(4), 483-491.
Sachdeva, Gaurav, et al. "SPAAN: a software program for prediction of adhesins and adhesin-like proteins using neural networks." Bioinformatics 21.4 (2005): 483-491.
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Stem education interventions
[No authors listed]
GSID: 87c1fQfbhuYJ
T Miyata, M Yamamoto, Y Izuhara - Annals of the New York …, 2005 - Wiley Online Library
Proteins are particularly attractive targets for product analysis, which is used to understand pathology. Protein modifications, such as advanced glycation end products (AGEs), serve as footprints of biochemical processes and also help in the search for novel agents that...
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Miyata, T., Yamamoto, M., & Izuhara, Y. (2005). From molecular footprints of disease to new therapeutic interventions in diabetic nephropathy. Annals of the New York Academy of Sciences, 1043(1), 740-749.
Miyata, Toshio, Makoto Yamamoto, and Yuko Izuhara. "From molecular footprints of disease to new therapeutic interventions in diabetic nephropathy." Annals of the New York Academy of Sciences 1043.1 (2005): 740-749.
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STEM and diversification
Haiech J.
GSID: sqMj20CMIbgJ
M Goodman, JF Pechére, J Haiech… - Journal of Molecular …, 1979 - Springer
… of calcium binding activity in the RLC-PAR stem it is possible that some new strong function was acquired in the mid-positions of the RLC stem because these mid-positions continued at …
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Goodman, M., Pechére, J. F., Haiech, J., & Demaille, J. G. (1979). Evolutionary diversification of structure and function in the family of intracellular calcium-binding proteins. Journal of Molecular Evolution, 13(4), 331-352.
Goodman, Morris, et al. "Evolutionary diversification of structure and function in the family of intracellular calcium-binding proteins." Journal of Molecular Evolution 13.4 (1979): 331-352.
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