-
1
-
-
0024403619
-
High-resolution epitope mapping of hGH-receptor interactions by alanine-scanning mutagenesis
-
Cunningham, B.C. & Wells, J.A. High-resolution epitope mapping of hGH-receptor interactions by alanine-scanning mutagenesis. Science 244, 1081-1085 (1989).
-
(1989)
Science
, vol.244
, pp. 1081-1085
-
-
Cunningham, B.C.1
Wells, J.A.2
-
2
-
-
33746799726
-
Comprehensive and quantitative mapping of energy landscapes for protein-protein interactions by rapid combinatorial scanning
-
Pál, G., Kouadio, J.-L.K., Artis, D.R., Kossiakoff, A.A. & Sidhu, S.S. Comprehensive and quantitative mapping of energy landscapes for protein-protein interactions by rapid combinatorial scanning. J. Biol. Chem. 281, 22378-22385 (2006).
-
(2006)
J. Biol. Chem.
, vol.281
, pp. 22378-22385
-
-
Pál, G.1
Kouadio, J.-L.K.2
Artis, D.R.3
Kossiakoff, A.A.4
Sidhu, S.S.5
-
3
-
-
20444453307
-
Protein length in eukaryotic and prokaryotic proteomes
-
Brocchieri, L. & Karlin, S. Protein length in eukaryotic and prokaryotic proteomes. Nucleic Acids Res. 33, 3390-3400 (2005).
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 3390-3400
-
-
Brocchieri, L.1
Karlin, S.2
-
4
-
-
77956338533
-
High-resolution mapping of protein sequence-function relationships
-
Fowler, D.M. et al. High-resolution mapping of protein sequence-function relationships. Nat. Methods 7, 741-746 (2010).
-
(2010)
Nat. Methods
, vol.7
, pp. 741-746
-
-
Fowler, D.M.1
-
5
-
-
80051794613
-
Deep mutational scanning: Assessing protein function on a massive scale
-
Araya, C.L. & Fowler, D.M. Deep mutational scanning: assessing protein function on a massive scale. Trends Biotechnol. 29, 435-442 (2011).
-
(2011)
Trends Biotechnol.
, vol.29
, pp. 435-442
-
-
Araya, C.L.1
Fowler, D.M.2
-
6
-
-
84905217368
-
Deep mutational scanning: A new style of protein science
-
Fowler, D.M. & Fields, S. Deep mutational scanning: a new style of protein science. Nat. Methods 11, 801-807 (2014).
-
(2014)
Nat. Methods
, vol.11
, pp. 801-807
-
-
Fowler, D.M.1
Fields, S.2
-
7
-
-
33645523763
-
Optimizing the affinity and specificity of proteins with molecular display
-
Levin, A.M. & Weiss, G.A. Optimizing the affinity and specificity of proteins with molecular display. Mol. Biosyst. 2, 49-57 (2006).
-
(2006)
Mol. Biosyst.
, vol.2
, pp. 49-57
-
-
Levin, A.M.1
Weiss, G.A.2
-
8
-
-
77956544553
-
Coevolution of PDZ domain-ligand interactions analyzed by high-throughput phage display and deep sequencing
-
Ernst, A. et al. Coevolution of PDZ domain-ligand interactions analyzed by high-throughput phage display and deep sequencing. Mol. Biosyst. 6, 1782-1790 (2010).
-
(2010)
Mol. Biosyst.
, vol.6
, pp. 1782-1790
-
-
Ernst, A.1
-
9
-
-
84879055275
-
Engineering A-kinase anchoring protein (AKAP)-selective regulatory subunits of protein kinase A (PKA) through structure-based phage selection
-
Gold, M.G. et al. Engineering A-kinase anchoring protein (AKAP)-selective regulatory subunits of protein kinase A (PKA) through structure-based phage selection. J. Biol. Chem. 288, 17111-17121 (2013).
-
(2013)
J. Biol. Chem.
, vol.288
, pp. 17111-17121
-
-
Gold, M.G.1
-
10
-
-
84455167671
-
Hot spots for allosteric regulation on protein surfaces
-
Reynolds, K.A., McLaughlin, R.N. & Ranganathan, R. Hot spots for allosteric regulation on protein surfaces. Cell 147, 1564-1575 (2011).
-
(2011)
Cell
, vol.147
, pp. 1564-1575
-
-
Reynolds, K.A.1
McLaughlin, R.N.2
Ranganathan, R.3
-
11
-
-
84869868746
-
Robust in vitro affinity maturation strategy based on interface-focused high-throughput mutational scanning
-
Fujino, Y. et al. Robust in vitro affinity maturation strategy based on interface-focused high-throughput mutational scanning. Biochem. Biophys. Res. Commun. 428, 395-400 (2012).
-
(2012)
Biochem. Biophys. Res. Commun.
, vol.428
, pp. 395-400
-
-
Fujino, Y.1
-
12
-
-
84883277095
-
Computational design of a protein-based enzyme inhibitor
-
Procko, E. et al. Computational design of a protein-based enzyme inhibitor. J. Mol. Biol. 425, 3563-3575 (2013).
-
(2013)
J. Mol. Biol.
, vol.425
, pp. 3563-3575
-
-
Procko, E.1
-
13
-
-
84862025262
-
Optimization of affinity, specificity and function of designed influenza inhibitors using deep sequencing
-
Whitehead, T.A. et al. Optimization of affinity, specificity and function of designed influenza inhibitors using deep sequencing. Nat. Biotechnol. 30, 543-548 (2012).
-
(2012)
Nat. Biotechnol.
, vol.30
, pp. 543-548
-
-
Whitehead, T.A.1
-
14
-
-
84867069553
-
Construction of a stability landscape of the CH3 domain of human IgG1 by combining directed evolution with high throughput sequencing
-
Traxlmayr, M.W. et al. Construction of a stability landscape of the CH3 domain of human IgG1 by combining directed evolution with high throughput sequencing. J. Mol. Biol. 423, 397-412 (2012).
-
(2012)
J. Mol. Biol.
, vol.423
, pp. 397-412
-
-
Traxlmayr, M.W.1
-
15
-
-
84884166196
-
Computational design of ligand-binding proteins with high affinity and selectivity
-
Tinberg, C.E. et al. Computational design of ligand-binding proteins with high affinity and selectivity. Nature 501, 212-216 (2013).
-
(2013)
Nature
, vol.501
, pp. 212-216
-
-
Tinberg, C.E.1
-
16
-
-
84884867393
-
High-throughput analysis of in vivo protein stability
-
Kim, I., Miller, C.R., Young, D.L. & Fields, S. High-throughput analysis of in vivo protein stability. Mol. Cell Proteomics 12, 3370-3378 (2013).
-
(2013)
Mol. Cell Proteomics
, vol.12
, pp. 3370-3378
-
-
Kim, I.1
Miller, C.R.2
Young, D.L.3
Fields, S.4
-
17
-
-
84856702590
-
Protein model discrimination using mutational sensitivity derived from deep sequencing
-
Adkar, B.V. et al. Protein model discrimination using mutational sensitivity derived from deep sequencing. Structure 20, 371-381 (2012).
-
(2012)
Structure
, vol.20
, pp. 371-381
-
-
Adkar, B.V.1
-
18
-
-
79956357160
-
Experimental illumination of a fitness landscape
-
Hietpas, R.T., Jensen, J.D. & Bolon, D.N.A. Experimental illumination of a fitness landscape. Proc. Natl. Acad. Sci. USA. 108, 7896-7901 (2011).
-
(2011)
Proc. Natl. Acad. Sci. USA
, vol.108
, pp. 7896-7901
-
-
Hietpas, R.T.1
Jensen, J.D.2
Bolon, D.N.A.3
-
19
-
-
84871965903
-
Systematic identification of H274Y compensatory mutations in influenza A virus neuraminidase by high-throughput screening
-
Wu, N.C. et al. Systematic identification of H274Y compensatory mutations in influenza A virus neuraminidase by high-throughput screening. J. Virol. 87, 1193-1199 (2013).
-
(2013)
J. Virol.
, vol.87
, pp. 1193-1199
-
-
Wu, N.C.1
-
20
-
-
84890800883
-
Resistance to vemurafenib resulting from a novel mutation in the BRAFV600E kinase domain
-
Wagenaar, T.R. et al. Resistance to vemurafenib resulting from a novel mutation in the BRAFV600E kinase domain. Pigment Cell Melanoma Res. 27, 124-133 (2014).
-
(2014)
Pigment Cell Melanoma Res.
, vol.27
, pp. 124-133
-
-
Wagenaar, T.R.1
-
21
-
-
27544479631
-
Survey of allelic expression using EST mining
-
Ge, B. et al. Survey of allelic expression using EST mining. Genome Res. 15, 1584-1591 (2005).
-
(2005)
Genome Res.
, vol.15
, pp. 1584-1591
-
-
Ge, B.1
-
22
-
-
77449144323
-
Parallel, tag-directed assembly of locally derived short sequence reads
-
Hiatt, J.B., Patwardhan, R.P., Turner, E.H., Lee, C. & Shendure, J. Parallel, tag-directed assembly of locally derived short sequence reads. Nat. Methods 7, 119-122 (2010).
-
(2010)
Nat. Methods
, vol.7
, pp. 119-122
-
-
Hiatt, J.B.1
Patwardhan, R.P.2
Turner, E.H.3
Lee, C.4
Shendure, J.5
-
23
-
-
84875870975
-
Activity-enhancing mutations in an E3 ubiquitin ligase identified by high-throughput mutagenesis
-
Starita, L.M. et al. Activity-enhancing mutations in an E3 ubiquitin ligase identified by high-throughput mutagenesis. Proc. Natl. Acad. Sci. USA 110, E1263-E1272 (2013).
-
(2013)
Proc. Natl. Acad. Sci. USA
, vol.110
-
-
Starita, L.M.1
-
24
-
-
84886037483
-
Deep mutational scanning of an RRM domain of the Saccharomyces cerevisiae poly(A)-binding protein
-
Melamed, D., Young, D.L., Gamble, C.E., Miller, C.R. & Fields, S. Deep mutational scanning of an RRM domain of the Saccharomyces cerevisiae poly(A)-binding protein. RNA 19, 1537-1551 (2013).
-
(2013)
RNA
, vol.19
, pp. 1537-1551
-
-
Melamed, D.1
Young, D.L.2
Gamble, C.E.3
Miller, C.R.4
Fields, S.5
-
25
-
-
84871288267
-
PFunkel: Efficient, expansive, user-defined mutagenesis
-
Firnberg, E. & Ostermeier, M. PFunkel: efficient, expansive, user-defined mutagenesis. PLoS ONE 7, e52031 (2012).
-
(2012)
PLoS ONE
, vol.7
-
-
Firnberg, E.1
Ostermeier, M.2
-
26
-
-
84892698156
-
A rapid, efficient, and economical inverse polymerase chain reaction-based method for generating a site saturation mutant library
-
Jain, P.C. & Varadarajan, R. A rapid, efficient, and economical inverse polymerase chain reaction-based method for generating a site saturation mutant library. Anal. Biochem. 449C, 90-98 (2013).
-
(2013)
Anal. Biochem.
, vol.449 C
, pp. 90-98
-
-
Jain, P.C.1
Varadarajan, R.2
-
27
-
-
67349270900
-
Enzymatic assembly of DNA molecules up to several hundred kilobases
-
Gibson, D.G. et al. Enzymatic assembly of DNA molecules up to several hundred kilobases. Nat. Methods 6, 343-345 (2009).
-
(2009)
Nat. Methods
, vol.6
, pp. 343-345
-
-
Gibson, D.G.1
-
28
-
-
0037445220
-
Analyzing partially randomized nucleic acid pools: Straight dope on doping
-
Knight, R. & Yarus, M. Analyzing partially randomized nucleic acid pools: straight dope on doping. Nucleic Acids Res. 31, e30 (2003).
-
(2003)
Nucleic Acids Res.
, vol.31
-
-
Knight, R.1
Yarus, M.2
-
29
-
-
34548838274
-
Phage display for engineering and analyzing protein interaction interfaces
-
Sidhu, S.S. & Koide, S. Phage display for engineering and analyzing protein interaction interfaces. Curr. Opin. Struct. Biol. 17, 481-487 (2007).
-
(2007)
Curr. Opin. Struct. Biol.
, vol.17
, pp. 481-487
-
-
Sidhu, S.S.1
Koide, S.2
-
30
-
-
81355147147
-
Identification and correction of systematic error in high-throughput sequence data
-
Meacham, F. et al. Identification and correction of systematic error in high-throughput sequence data. BMC Bioinformatics 12, 451 (2011).
-
(2011)
BMC Bioinformatics
, vol.12
, pp. 451
-
-
Meacham, F.1
-
31
-
-
84860756398
-
Performance comparison of benchtop high-throughput sequencing platforms
-
Loman, N.J. et al. Performance comparison of benchtop high-throughput sequencing platforms. Nat. Biotechnol. 30, 434-439 (2012).
-
(2012)
Nat. Biotechnol.
, vol.30
, pp. 434-439
-
-
Loman, N.J.1
-
32
-
-
83355174920
-
Enrich: Software for analysis of protein function by enrichment and depletion of variants
-
Fowler, D.M., Araya, C.L., Gerard, W. & Fields, S. Enrich: software for analysis of protein function by enrichment and depletion of variants. Bioinformatics 27, 3430-3431 (2011).
-
(2011)
Bioinformatics
, vol.27
, pp. 3430-3431
-
-
Fowler, D.M.1
Araya, C.L.2
Gerard, W.3
Fields, S.4
-
33
-
-
84867644046
-
A fundamental protein property, thermodynamic stability, revealed solely from large-scale measurements of protein function
-
Araya, C.L. et al. A fundamental protein property, thermodynamic stability, revealed solely from large-scale measurements of protein function. Proc. Natl. Acad. Sci. USA 109, 16858-16863 (2012).
-
(2012)
Proc. Natl. Acad. Sci. USA
, vol.109
, pp. 16858-16863
-
-
Araya, C.L.1
-
34
-
-
34648832245
-
Yeast surface display for protein engineering and characterization
-
Gai, S.A. & Wittrup, K.D. Yeast surface display for protein engineering and characterization. Curr. Opin. Struct. Biol. 17, 467-473 (2007).
-
(2007)
Curr. Opin. Struct. Biol.
, vol.17
, pp. 467-473
-
-
Gai, S.A.1
Wittrup, K.D.2
-
35
-
-
45849135545
-
Using T7 phage display to select GFP-based binders
-
Dai, M. et al. Using T7 phage display to select GFP-based binders. Protein Eng. Des. Sel. 21, 413-424 (2008).
-
(2008)
Protein Eng. Des. Sel.
, vol.21
, pp. 413-424
-
-
Dai, M.1
-
36
-
-
77957151956
-
SolexaQA: At-a-glance quality assessment of Illumina second-generation sequencing data
-
Cox, M.P., Peterson, D.A. & Biggs, P.J. SolexaQA: At-a-glance quality assessment of Illumina second-generation sequencing data. BMC Bioinformatics 11, 485 (2010).
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 485
-
-
Cox, M.P.1
Peterson, D.A.2
Biggs, P.J.3
-
37
-
-
34347206860
-
High-efficiency yeast transformation using the LiAc/SS carrier DNA/PEG method
-
Gietz, R.D. & Schiestl, R.H. High-efficiency yeast transformation using the LiAc/SS carrier DNA/PEG method. Nat. Protoc. 2, 31-34 (2007).
-
(2007)
Nat. Protoc.
, vol.2
, pp. 31-34
-
-
Gietz, R.D.1
Schiestl, R.H.2
-
38
-
-
65749093802
-
Optimization and troubleshooting in PCR
-
doi:10.1101/pdb.ip66
-
Roux, K.H. Optimization and troubleshooting in PCR. Cold Spring Harb. Protoc. 2009 doi:10.1101/pdb.ip66 (2009).
-
(2009)
Cold Spring Harb. Protoc.
, vol.2009
-
-
Roux, K.H.1
-
39
-
-
84868365613
-
The spatial architecture of protein function and adaptation
-
McLaughlin, R.N., Poelwijk, F.J., Raman, A., Gosal, W.S. & Ranganathan, R. The spatial architecture of protein function and adaptation. Nature 491, 138-142 (2012).
-
(2012)
Nature
, vol.491
, pp. 138-142
-
-
McLaughlin, R.N.1
Poelwijk, F.J.2
Raman, A.3
Gosal, W.S.4
Ranganathan, R.5
|