21 Citations (Scopus)

Abstract

Proteomics aspires to elucidate the functions of all proteins. Protein microarrays provide an important step by enabling high-throughput studies of displayed proteins. However, many functional assays of proteins include untethered intermediates or products, which could frustrate the use of planar arrays at very high densities because of diffusion to neighboring features. The nucleic acid programmable protein array (NAPPA) is a robust in situ synthesis method for producing functional proteins just-in-time, which includes steps with diffusible intermediates. We determined that diffusion of expressed proteins led to cross-binding at neighboring spots at very high densities with reduced interspot spacing. To address this limitation, we have developed an innovative platform using photolithographically etched discrete silicon nanowells and used NAPPA as a test case. This arrested protein diffusion and cross-binding. We present confined high density protein expression and display, as well as functional protein-protein interactions, in 8000 nanowell arrays. This is the highest density of individual proteins in nanovessels demonstrated on a single slide. We further present proof of principle results on ultrahigh density protein arrays capable of up to 24000 nanowells on a single slide.

Original languageEnglish (US)
Pages (from-to)4382-4391
Number of pages10
JournalJournal of Proteome Research
Volume11
Issue number8
DOIs
StatePublished - Aug 3 2012

Fingerprint

Protein Array Analysis
Proteins
Nucleic Acids
Silicon
Proteomics
Microarrays
Assays
Display devices
Throughput

Keywords

  • diffusion-free
  • functional proteins
  • high density arrays
  • in situ synthesis
  • nanowells
  • NAPPA
  • piezoelectric printing
  • protein microarrays
  • proteome on chip
  • silicon microwells

ASJC Scopus subject areas

  • Biochemistry
  • Chemistry(all)

Cite this

High density diffusion-free nanowell arrays. / Takulapalli, Bharath R.; Qiu, Ji; Magee, Dewey; Kahn, Peter; Brunner, Al; Barker, Kristi; Means, Steven; Miersch, Shane; Bian, Xiaofang; Mendoza, Alex; Festa, Fernanda; Syal, Karan; Park, Jin; LaBaer, Joshua; Wiktor, Peter.

In: Journal of Proteome Research, Vol. 11, No. 8, 03.08.2012, p. 4382-4391.

Research output: Contribution to journalArticle

Takulapalli, BR, Qiu, J, Magee, D, Kahn, P, Brunner, A, Barker, K, Means, S, Miersch, S, Bian, X, Mendoza, A, Festa, F, Syal, K, Park, J, LaBaer, J & Wiktor, P 2012, 'High density diffusion-free nanowell arrays', Journal of Proteome Research, vol. 11, no. 8, pp. 4382-4391. https://doi.org/10.1021/pr300467q
Takulapalli BR, Qiu J, Magee D, Kahn P, Brunner A, Barker K et al. High density diffusion-free nanowell arrays. Journal of Proteome Research. 2012 Aug 3;11(8):4382-4391. https://doi.org/10.1021/pr300467q
Takulapalli, Bharath R. ; Qiu, Ji ; Magee, Dewey ; Kahn, Peter ; Brunner, Al ; Barker, Kristi ; Means, Steven ; Miersch, Shane ; Bian, Xiaofang ; Mendoza, Alex ; Festa, Fernanda ; Syal, Karan ; Park, Jin ; LaBaer, Joshua ; Wiktor, Peter. / High density diffusion-free nanowell arrays. In: Journal of Proteome Research. 2012 ; Vol. 11, No. 8. pp. 4382-4391.
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