Calcium ion indicators


A long Stokes shift red fluorescent Ca(2+) indicator protein for two-photon and ratiometric imaging

Wu et al. Nat. Commun., 2014PubMed / Journal

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Red fluorescent genetically encoded Ca2+ indicators for use in mitochondria and endoplasmic reticulum

Wu et al. Biochem. J., 2014. PubMed / Journal

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Microfluidic cell sorter-aided directed evolution of a protein-based calcium ion indicator with an inverted fluorescent response

Zhao et al. Integr. Biol. (Camb.), 2014PubMed / Journal

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Improved Orange and Red Ca2+ Indicators and Photophysical Considerations for Optogenetic Applications

Wu et al. ACS Chem. Neurosci. 2013PubMed / Journal

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Circular permutated red fluorescent proteins and calcium ion indicators based on mCherry

Carlson and Campbell Prot. Eng. Des. Sel. 2013PubMed / Journal

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Highlightable Ca2+ Indicators for Live Cell Imaging

Hoi et al., J. Am. Chem. Soc. 2012PubMed / Journal

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Voltage indicators


A bright and fast red fluorescent protein voltage indicator that reports neuronal activity in organotypic brain slices

Abdelfattah et alJ. Neurosci. 2016. Pubmed Journal

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All-optical electrophysiology in mammalian neurons using engineered microbial rhodopsins

Hochbaum, Zhao et alNat. Methods, 2014. Pubmed Journal

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Fluorescent proteins


An engineered monomeric Zoanthus sp. yellow fluorescent protein

Hoi et al. Chem. Biol. 2013PubMed / Journal

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Circularly permuted monomeric red fluorescent proteins with new termini in the beta-sheet

Carlson et al. Protein Sci. 2010PubMed / Journal

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Hue-shifted monomeric variants of Clavularia cyan fluorescent protein: identification of the molecular determinants of color and applications in fluorescence imaging

Ai et al. BMC Biol., 2008PubMed / Journal

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Ai et al. Biochemistry 2007PubMed / Journal

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Directed evolution of a monomeric, bright, and photostable version of Clavularia cyan fluorescent protein: structural characterization and applications in fluorescence imaging

Ai et al. Biochem. J., 2006PubMed / Journal

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Dimerization-dependent FPs


Ratiometric biosensors based on dimerization-dependent fluorescent protein exchange. 

Ding et al. Nat. Methods 2015. PubMed Journal

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Dimerization-dependent green and yellow fluorescent proteins

Alford et al. ACS Synth. Biol. 2012PubMed / Journal

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A fluorogenic red fluorescent protein heterodimer

Alford et al. Chem. Biol. 2012PubMed / Journal

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pH indicators


pHuji, a pH sensitive red fluorescent protein for imaging of exo- and endocytosis

Shen et al, J. Cell Biol., 2014. Pubmed  Journal

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Red fluorescent protein pH biosensor to detect concentrative nucleoside transport

Johnson, Ai et al. J. Biol. Chem. 2009PubMed / Journal

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Photoconvertible fluorescent proteins


mMaple: a photoconvertible fluorescent protein for use in multiple imaging modalities

McEvoy, Hoi, et al. PLoS ONE, 2012PubMed / Journal

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Also see mMaple2 and mMaple3 from the Zhuang lab.

A Monomeric Photoconvertible Fluorescent Protein for Imaging of Dynamic Protein Localization

Hoi et al.  J. Mol. Biol., 2010PubMed / Journal

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FRET-based biosensors


Optimization of a genetically encoded biosensor for cyclin B1-cyclin dependent kinase 1

Belal et al. Mol. Biosyst. 2014PubMed / Journal

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Forster resonance energy transfer-based biosensors for multiparameter ratiometric imaging of Ca2+ dynamics and caspase-3 activity in single cells

Ding et al. Anal. Chem. 2011PubMed / Journal

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Fluorescent protein FRET pairs for ratiometric imaging of dual biosensors.

Ai et al. Nat. Methods. 2008PubMed / Journal

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