Fordyce PM - Search Results

1

Comprehensive, high-resolution binding energy landscapes reveal context dependencies of transcription factor binding.

Le DD, Shimko TC, Aditham AK, Keys AM, Longwell SA, Orenstein Y, Fordyce PM. Le DD, et al. Among authors: fordyce pm. Proc Natl Acad Sci U S A. 2018 Apr 17;115(16):E3702-E3711. doi: 10.1073/pnas.1715888115. Epub 2018 Mar 27. Proc Natl Acad Sci U S A. 2018. PMID: 29588420 Free PMC article.

2

High-throughput affinity measurements of direct interactions between activation domains and co-activators.

DelRosso N, Suzuki PH, Griffith D, Lotthammer JM, Novak B, Kocalar S, Sheth MU, Holehouse AS, Bintu L, Fordyce P. DelRosso N, et al. bioRxiv [Preprint]. 2024 Aug 20:2024.08.19.608698. doi: 10.1101/2024.08.19.608698. bioRxiv. 2024. PMID: 39229005 Free PMC article. Preprint.

3

De novo identification and biophysical characterization of transcription-factor binding sites with microfluidic affinity analysis.

Fordyce PM, Gerber D, Tran D, Zheng J, Li H, DeRisi JL, Quake SR. Fordyce PM, et al. Nat Biotechnol. 2010 Sep;28(9):970-5. doi: 10.1038/nbt.1675. Epub 2010 Aug 29. Nat Biotechnol. 2010. PMID: 20802496 Free PMC article.

4

Basic leucine zipper transcription factor Hac1 binds DNA in two distinct modes as revealed by microfluidic analyses.

Fordyce PM, Pincus D, Kimmig P, Nelson CS, El-Samad H, Walter P, DeRisi JL. Fordyce PM, et al. Proc Natl Acad Sci U S A. 2012 Nov 6;109(45):E3084-93. doi: 10.1073/pnas.1212457109. Epub 2012 Oct 10. Proc Natl Acad Sci U S A. 2012. PMID: 23054834 Free PMC article.

5

Identification and characterization of a previously undescribed family of sequence-specific DNA-binding domains.

Lohse MB, Hernday AD, Fordyce PM, Noiman L, Sorrells TR, Hanson-Smith V, Nobile CJ, DeRisi JL, Johnson AD. Lohse MB, et al. Among authors: fordyce pm. Proc Natl Acad Sci U S A. 2013 May 7;110(19):7660-5. doi: 10.1073/pnas.1221734110. Epub 2013 Apr 22. Proc Natl Acad Sci U S A. 2013. PMID: 23610392 Free PMC article.

6

Optimized Sequence Library Design for Efficient In Vitro Interaction Mapping.

Orenstein Y, Puccinelli R, Kim R, Fordyce P, Berger B. Orenstein Y, et al. Cell Syst. 2017 Sep 27;5(3):230-236.e5. doi: 10.1016/j.cels.2017.07.006. Cell Syst. 2017. PMID: 28957657 Free PMC article.

7

Joker de Bruijn: Sequence Libraries to Cover All k-mers Using Joker Characters.

Orenstein Y, Kim R, Fordyce P, Berger B. Orenstein Y, et al. Res Comput Mol Biol. 2017 May;10229:389-390. doi: 10.1007/978-3-319-56970-3. Res Comput Mol Biol. 2017. PMID: 29707702 Free PMC article. No abstract available.

8

An Open-Source, Programmable Pneumatic Setup for Operation and Automated Control of Single- and Multi-Layer Microfluidic Devices.

Brower K, Puccinelli R, Markin CJ, Shimko TC, Longwell SA, Cruz B, Gomez-Sjoberg R, Fordyce PM. Brower K, et al. Among authors: fordyce pm. HardwareX. 2018 Apr;3:117-134. doi: 10.1016/j.ohx.2017.10.001. Epub 2017 Oct 31. HardwareX. 2018. PMID: 30221210 Free PMC article.

9

Discovering epistatic feature interactions from neural network models of regulatory DNA sequences.

Greenside P, Shimko T, Fordyce P, Kundaje A. Greenside P, et al. Bioinformatics. 2018 Sep 1;34(17):i629-i637. doi: 10.1093/bioinformatics/bty575. Bioinformatics. 2018. PMID: 30423062 Free PMC article.

10

BET-seq: Binding energy topographies revealed by microfluidics and high-throughput sequencing.

Aditham AK, Shimko TC, Fordyce PM. Aditham AK, et al. Among authors: fordyce pm. Methods Cell Biol. 2018;148:229-250. doi: 10.1016/bs.mcb.2018.09.011. Epub 2018 Oct 23. Methods Cell Biol. 2018. PMID: 30473071 Free PMC article.

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