Barry L. Stoddard

Molecular Biology · 1998–2020

A researcher in the Science corpus: 18 papers; trusts 12 researchers and is trusted by 18 researchers here, as inferred from the citation graph.

Subfields

• Molecular Biology — 161 citations into it; #1,961 of 17,773 by trust here, #1,583 by citations
• Materials Chemistry — 78 citations into it; #3,496 of 11,513 by trust here, #5,818 by citations
• Computational Biology & Bioinformatics — 42 citations into it

Whom Barry L. Stoddard trusts overall

Their strongest outbound trust, strongest first, inferred from their citations.

1. David Baker
2. Brian Kuhlman
3. Adrian A. Canutescu
4. Carol A. Rohl
5. Justin Ashworth
6. Tanja Kortemme

Who trusts Barry L. Stoddard overall

1. I. Samish
2. Summer B. Thyme
3. Yi Liu
4. Sarel Jacob Fleishman
5. Andrew Leaver-Fay
6. Po-Ssu Huang
7. Tanja Kortemme
8. Xingjie Pan

Papers from Barry L. Stoddard's perspective

Ordered by how strongly the researchers Barry L. Stoddard trusts endorse each paper. Same corpus, a different order for every researcher.

1. De novo protein design: fully automated sequence selection.
2. Computational redesign of protein-protein interaction specificity (Nature Structural &Molecular Biology)
3. Modeling structurally variable regions in homologous proteins with rosetta
4. Macromolecular modeling with rosetta.
5. An orientation-dependent hydrogen bonding potential improves prediction of specificity and structure for proteins and protein-protein complexes.
6. [20] Processing of X-ray diffraction data collected in oscillation mode.
7. PROCHECK: a program to check the stereochemical quality of protein structures
8. Assessment of the optimization of affinity and specificity at protein–DNA interfaces
9. Predicting protein structures with a multiplayer online game
10. Kemp elimination catalysts by computational enzyme design

Their papers

• De Novo Computational Design of Retro-Aldol Enzymes (2008) — 1,138 citations
• Computational redesign of protein-protein interaction specificity (2004) — 303 citations
• Computational reprogramming of homing endonuclease specificity at multiple adjacent base pairs (2010) — 111 citations
• Alteration of enzyme specificity by computational loop remodeling and design (2009) — 134 citations
• Computational Design of Ligand Binding Proteins with High Affinity and Selectivity (2013) — 425 citations
• Exploitation of binding energy for catalysis and design (2009) — 106 citations
• De novo design of a fluorescence-activating β-barrel (2018) — 312 citations
• Computational Thermostabilization of an Enzyme (2005) — 362 citations
• Computational redesign of endonuclease DNA binding and cleavage specificity (2006) — 78 citations
• Rational design of alpha-helical tandem repeat proteins with closed architectures (2015) — 123 citations
• Sampling and energy evaluation challenges in ligand binding protein design (2017) — 49 citations
• A nomenclature for restriction enzymes, DNA methyltransferases, homing endonucleases and their genes. (2003) — 766 citations
• Computational protein design enables a novel one-carbon assimilation pathway (2015) — 353 citations
• Engineering and functionalization of large circular tandem repeat protein nanoparticles (2020) — 25 citations
• Biocontainment of genetically modified organisms by synthetic protein design (2015) — 423 citations
• Computational Design of an Unnatural Amino Acid Dependent Metalloprotein with Atomic Level Accuracy (2013) — 104 citations
• Computational design of an enzyme catalyst for a stereoselective bimolecular Diels-Alder reaction (2010) — 884 citations
• DNA binding and cleavage by the nuclear intron-encoded homing endonuclease I-PpoI (1998)