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Multiplex PCR Assays for Identifying all Major Severe Acute Respiratory Syndrome Coronavirus 2 Variants

Ryan J. Dikdan, Salvatore A.E. Marras, Amanda P. Field, Alicia Brownlee, Alexander Cironi, D. Ashley Hill, and Sanjay Tyagi (2022)

Journal of Molecular Diagnostics 24: 309-319.

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Reduction in gene expression noise by targeted increase in accessibility at gene loci.

LaTasha C. R. Fraser, Ryan J. Dikdan, Supravat Dey, Abhyudai Singhb, and Sanjay Tyagi (2021)

PNAS 118: e2018640118.

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High-fidelity amplified FISH for the detection and allelic discrimination of single mRNA molecules

Salvatore A. E. Marrasa, Yuri Bushkina, and Sanjay Tyagi (2019)

PNAS 116: 113921–13926.

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FISH-Flow, a protocol for the concurrent detection of mRNA and protein in single cells using
fluorescence in situ hybridization and flow cytometry.

Arrigucci R, Bushkin Y, Radford F, Lakehal K, Vir P, Pine R, Martin D, Sugarman J, Zhao Y, Yap GS, Lardizabal AA, Tyagi S, Gennaro ML (2017)

Nat Protocols 12: 1245-1260.

Barriers to transmission of transcriptional noise in a c-fos c-jun pathway.

Shah K, Tyagi S (2013) Molecular Systems Biology 9: 687.

Tuning noise in gene expression. Review

Tyagi S (2015) Mol Syst Biol 11: 805.

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Neuronal mRNAs travel singly into dendrites.

Batish M, van den Bogaard P, Kramer FR, Tyagi S (2012) Proc Natl Acad Sci USA 109: 4645-4650.


Single-molecule imaging of transcriptionally coupled and uncoupled splicing

Vargas DY, Shah K, Batish M, Levandoski M, Sinha S, Marras SA, Schedl P, Tyagi S (2011) Cell 147: 1054-1065.

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E. coli, what a noisy bug. Review

Tyagi S (2010) Science 329: 518-519.

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Imaging intracellular RNA distribution and dynamics in living cells. Review

Tyagi S (2009) Nat Methods 6: 331-338.

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Imaging individual mRNA molecules using multiple singly labeled probes

Raj A, van den Bogaard P, Rifkin SA, van Oudenaarden A, Tyagi S (2008) . Nat Methods 5: 877-879.


RT-PCR enters the realm of stochastic gene expression. Review

Tyagi S (2007) Genetic Engineering News: March 2007.

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Stochastic mRNA synthesis in mammalian cells.

Raj A, Peskin CS, Tranchina D, Vargas DY, Tyagi S (2006) PLoS Biol 4: e309.

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Mechanism of mRNA transport in the nucleus.

Vargas DY, Raj A, Marras SAE, Kramer FR, Tyagi S (2005) Proc Natl Acad Sci USA 102: 17008-17013


tRNA-linked molecular beacons for imaging mRNAs in the cytoplasm of living cells.

Mhlanga MM, Vargas DY, Fung CW, Kramer FR, Tyagi S (2005) Nucleic Acids Res 33: 1902-1912.


Imaging native beta-actin mRNA in motile fibroblasts.

Tyagi S, Alsmadi O (2004) Biophys J 87: 4153-4162.

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Visualizing the distribution and transport of mRNAs in living cells.

Bratu DP, Cha BJ, Mhlanga MM, Kramer FR, Tyagi S (2003) Proc Natl Acad Sci USA 100: 13308-13313.

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Efficiencies of fluorescence resonance energy transfer and contact-mediated quenching in oligonucleotide probes.

Marras SAE, Kramer FR, Tyagi S (2002) Nucleic Acids Research 30: e122.

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Wavelength-shifting molecular beacons.

Tyagi S, Marras SAE, Kramer FR (2000) Nature Biotechnology 18: 1191-1196.

Multiplex detection of single-nucleotide variations using molecular beacons.

Marras SAE, Kramer FR, Tyagi S (1999) Genetic Analysis: Biomolecular Engineering 14: 151-156.

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Thermodynamic basis of the enhanced specificity of structured DNA probes.

Bonnet G, Tyagi S, Libchaber A, Kramer FR (1999) Proc Natl Acad Sci USA 96: 6171-6176.

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Molecular beacon sequence analysis for detecting drug resistance in Mycobacterium tuberculosis.

Piatek AS, Tyagi S, Pol AC, Telenti A, Miller LP, Kramer FR, Alland D (1998) Nat Biotechnol 16: 359-363.

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Spectral genotyping of human alleles.

Kostrikis LG, Tyagi S, Mhlanga MM, Ho DD, Kramer FR (1998) Science 279: 1228-1229.

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Multicolor molecular beacons for allele discrimination.

Tyagi S, Bratu DP, Kramer FR (1998) Nat Biotechnol 16: 49-53.

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Molecular beacons: probes that fluoresce upon hybridization.

Tyagi S, Kramer FR (1996) Nat Biotechnol 14: 303-308.

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Extremely sensitive, background-free gene detection using binary probes and beta replicase.

Tyagi S, Landegren U, Tazi M, Lizardi PM, Kramer FR (1996) Proc Natl Acad Sci USA 93: 5395-5400.

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Quantitative assays based on the use of replicatable hybridization probes.

Lomeli H, Tyagi S, Pritchard CG, Lizardi PM, Kramer FR (1989) Clin Chem 35: 1826-1831.

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Nonrandomness in prebiotic peptide synthesis.

Tyagi S, Ponnamperuma C (1990) J Mol Evol 30: 391-399.

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Origins of translation: the hypothesis of permanently attached adaptors.

Tyagi S (1981) Origins of Life 11: 343-351.

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