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Timothy Whitehead Lab Materials

Timothy Whitehead Lab Materials

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Showing 1 to 10 of 16 entries

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Title	Authors	Publication
A method for generating user-defined circular single-stranded DNA from plasmid DNA using Golden Gate intramolecular ligation.	Strawn IK, Steiner PJ, Newton MS, Baumer ZT, Whitehead TA	Biotechnol Bioeng. 2023 Oct;120(10):3057-3066. doi: 10.1002/bit.28471. Epub 2023 Jun 27.
An Automated Data-Driven Pipeline for Improving Heterologous Enzyme Expression.	Wrenbeck EE, Bedewitz MA, Klesmith JR, Noshin S, Barry CS, Whitehead TA	ACS Synth Biol. 2019 Mar 15;8(3):474-481. doi: 10.1021/acssynbio.8b00486. Epub 2019 Feb 8.
An integrated technology for quantitative wide mutational scanning of human antibody Fab libraries.	Petersen BM, Kirby MB, Chrispens KM, Irvin OM, Strawn IK, Haas CM, Walker AM, Baumer ZT, Ulmer SA, Ayala E, Rhodes ER, Guthmiller JJ, Steiner PJ, Whitehead TA	Nat Commun. 2024 May 10;15(1):3974. doi: 10.1038/s41467-024-48072-z.
Comprehensive sequence-flux mapping of a levoglucosan utilization pathway in E. coli.	Klesmith JR, Bacik JP, Michalczyk R, Whitehead TA	ACS Synth Biol. 2015 Sep 14.
Computational redesign of the lipid-facing surface of the outer membrane protein OmpA.	Stapleton JA, Whitehead TA, Nanda V	Proc Natl Acad Sci U S A. 2015 Jul 21. pii: 201501836.
Determination of binding affinity upon mutation for type I dockerin-cohesin complexes from Clostridium thermocellum and Clostridium cellulolyticum using deep sequencing.	Kowalsky CA, Whitehead TA	Proteins. 2016 Dec;84(12):1914-1928. doi: 10.1002/prot.25175. Epub 2016 Oct 26.
Engineered Stop and Go T7 RNA Polymerases.	Baumer ZT, Newton MS, Lofstrand L, Carpio Paucar GN, Farny NG, Whitehead TA	ACS Synth Biol. 2024 Dec 20;13(12):4165-4174. doi: 10.1021/acssynbio.4c00627. Epub 2024 Nov 28.
Impact of In Vivo Protein Folding Probability on Local Fitness Landscapes.	Faber MS, Wrenbeck EE, Azouz LR, Steiner PJ, Whitehead TA	Mol Biol Evol. 2019 Dec 1;36(12):2764-2777. doi: 10.1093/molbev/msz184.
One-shot identification of SARS-CoV-2 S RBD escape mutants using yeast screening.	Francino-Urdaniz IM, Steiner PJ, Kirby MB, Zhao F, Haas CM, Barman S, Rhodes ER, Leonard AC, Peng L, Sprenger KG, Jardine JG, Whitehead TA	Cell Rep. 2021 Aug 31;36(9):109627. doi: 10.1016/j.celrep.2021.109627. Epub 2021 Aug 10.
Plasmid-based one-pot saturation mutagenesis.	Wrenbeck EE, Klesmith JR, Stapleton JA, Adeniran A, Tyo KE, Whitehead TA	Nat Methods. 2016 Nov;13(11):928-930. doi: 10.1038/nmeth.4029. Epub 2016 Oct 10.

Showing 1 to 10 of 83 entries

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	ID	Plasmid	Gene/Insert	Vector Type	Publication
20.3.603092.80085	80085	pEDA5_GFPmut3_Y66H	GFPmut3_Y66H	Bacterial Expression	Plasmid-based one-pot saturation mutagenesis. Nat Methods. 2016 Nov;13(11):928-930. doi: 10.1038/nmeth.4029. Epub 2016 Oct 10.
20.0.461987.81169	81169	pETconNK		Bacterial Expression, Yeast Expression	Trade-offs between enzyme fitness and solubility illuminated by deep mutational scanning. Proc Natl Acad Sci U S A. 2017 Feb 14. pii: 201614437. doi: 10.1073/pnas.1614437114.
	59836	pJK_proB_amiE	ALIPHATIC AMIDASE (amiE )	Bacterial Expression	The Interrelationship between Promoter Strength, Gene Expression, and Growth Rate. PLoS One. 2014 Oct 6;9(10):e109105. doi: 10.1371/journal.pone.0109105. eCollection 2014.
	59837	pJK_proK17_amiE	ALIPHATIC AMIDASE (amiE )	Bacterial Expression	The Interrelationship between Promoter Strength, Gene Expression, and Growth Rate. PLoS One. 2014 Oct 6;9(10):e109105. doi: 10.1371/journal.pone.0109105. eCollection 2014.
	59838	pJK_proK16_amiE	ALIPHATIC AMIDASE (amiE )	Bacterial Expression	The Interrelationship between Promoter Strength, Gene Expression, and Growth Rate. PLoS One. 2014 Oct 6;9(10):e109105. doi: 10.1371/journal.pone.0109105. eCollection 2014.
	59839	pJK_proK14_amiE	ALIPHATIC AMIDASE (amiE )	Bacterial Expression	The Interrelationship between Promoter Strength, Gene Expression, and Growth Rate. PLoS One. 2014 Oct 6;9(10):e109105. doi: 10.1371/journal.pone.0109105. eCollection 2014.
	59840	pJK_proK9_amiE	ALIPHATIC AMIDASE (amiE )	Bacterial Expression	The Interrelationship between Promoter Strength, Gene Expression, and Growth Rate. PLoS One. 2014 Oct 6;9(10):e109105. doi: 10.1371/journal.pone.0109105. eCollection 2014.
	59841	pJK_proK6_amiE	ALIPHATIC AMIDASE (amiE )	Bacterial Expression	The Interrelationship between Promoter Strength, Gene Expression, and Growth Rate. PLoS One. 2014 Oct 6;9(10):e109105. doi: 10.1371/journal.pone.0109105. eCollection 2014.
	59842	pJK_proK3_amiE	ALIPHATIC AMIDASE (amiE )	Bacterial Expression	The Interrelationship between Promoter Strength, Gene Expression, and Growth Rate. PLoS One. 2014 Oct 6;9(10):e109105. doi: 10.1371/journal.pone.0109105. eCollection 2014.
	59843	pJK_proK1_amiE	ALIPHATIC AMIDASE (amiE )	Bacterial Expression	The Interrelationship between Promoter Strength, Gene Expression, and Growth Rate. PLoS One. 2014 Oct 6;9(10):e109105. doi: 10.1371/journal.pone.0109105. eCollection 2014.

Showing 1 to 10 of 10 entries

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ID	Pooled Library	Vector Type	Publication
157971	SARS-CoV-2 Spike (S) Ectodomain Library A	Bacterial Expression, Yeast Expression	One-shot identification of SARS-CoV-2 S RBD escape mutants using yeast screening. Cell Rep. 2021 Aug 31;36(9):109627. doi: 10.1016/j.celrep.2021.109627. Epub 2021 Aug 10.
157972	SARS-CoV-2 Spike (S) Ectodomain Library B	Bacterial Expression, Yeast Expression	One-shot identification of SARS-CoV-2 S RBD escape mutants using yeast screening. Cell Rep. 2021 Aug 31;36(9):109627. doi: 10.1016/j.celrep.2021.109627. Epub 2021 Aug 10.
157973	SARS-CoV-2 Spike (S) Ectodomain Library C	Bacterial Expression, Yeast Expression	One-shot identification of SARS-CoV-2 S RBD escape mutants using yeast screening. Cell Rep. 2021 Aug 31;36(9):109627. doi: 10.1016/j.celrep.2021.109627. Epub 2021 Aug 10.
168776	SARS-CoV-2 Spike (S) Receptor Binding Domain (RBD) library 1	Yeast Expression	One-shot identification of SARS-CoV-2 S RBD escape mutants using yeast screening. Cell Rep. 2021 Aug 31;36(9):109627. doi: 10.1016/j.celrep.2021.109627. Epub 2021 Aug 10.
168777	SARS-CoV-2 Spike (S) Receptor Binding Domain (RBD) library 2	Yeast Expression	One-shot identification of SARS-CoV-2 S RBD escape mutants using yeast screening. Cell Rep. 2021 Aug 31;36(9):109627. doi: 10.1016/j.celrep.2021.109627. Epub 2021 Aug 10.
174293	SARS-CoV-2 Spike (S) Receptor Binding Domain (RBD) library E484K Tile 1 (positions 333-436)	Yeast Expression	One-shot identification of SARS-CoV-2 S RBD escape mutants using yeast screening. Cell Rep. 2021 Aug 31;36(9):109627. doi: 10.1016/j.celrep.2021.109627. Epub 2021 Aug 10.
174294	SARS-CoV-2 Spike (S) Receptor Binding Domain (RBD) library E484K Tile 2 (positions 437-527)	Yeast Expression	One-shot identification of SARS-CoV-2 S RBD escape mutants using yeast screening. Cell Rep. 2021 Aug 31;36(9):109627. doi: 10.1016/j.celrep.2021.109627. Epub 2021 Aug 10.
174295	SARS-CoV-2 Spike (S) Receptor Binding Domain (RBD) library N501Y Tile 1 (positions 333-436)	Yeast Expression	One-shot identification of SARS-CoV-2 S RBD escape mutants using yeast screening. Cell Rep. 2021 Aug 31;36(9):109627. doi: 10.1016/j.celrep.2021.109627. Epub 2021 Aug 10.
174296	SARS-CoV-2 Spike (S) Receptor Binding Domain (RBD) library N501Y Tile 2 (positions 437-527)	Yeast Expression	One-shot identification of SARS-CoV-2 S RBD escape mutants using yeast screening. Cell Rep. 2021 Aug 31;36(9):109627. doi: 10.1016/j.celrep.2021.109627. Epub 2021 Aug 10.
1000000181	PYR1 Double Mutant Library

	ID	Bacterial Strain
	228512	US0 pyrF-/hisB-/tnaA-
	228513	MG1655 tnaA-

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