Recent Publications from the Mirkin Lab

Research Publications Genetics


Neil AJ, Liang MU, Khristich AN, Shah KA, Mirkin SM. 2018. RNA-DNA hybrids promote the expansion of Friedreich's ataxia (GAA)n repeats via break-induced replication. Nucleic Acids Res. Epub ahead of print. books

McGinty RJ, Rubinstein RG, Neil AJ, Dominska M, Kiktev D, Petes TD, Mirkin SM. 2017. Nanopore sequencing of complex genomic rearrangements in yeast reveals mechanisms of repeat-mediated double-strand break repair. Genome Res. Epub ahead of print. books

Radchenko EA, McGinty RJ, Aksenova AY, Neil AJ, Mirkin SM 2017. Quantitative Analysis of the Rates for Repeat-Mediated Genome Instability in a Yeast Experimental System. Methods Mol Biol. 1672: 421-428. books

McGinty RJ, Puleo F, Aksenova AY, Hisey JA, Shishkin AA, Pearson EL, Wang ET, Housman DE, Moore C, Mirkin SM. 2017. A defective mRNA cleavage and polyadenylation complex facilitates expansions of transcribed (GAA)n repeats associated with Friedreich's Ataxia. Cell Rep. 20: 2490-2500.  books

Tsutakawa SE, Thompson MJ, Arvai AS, Neil AJ, Shaw SJ, Algasaier SI, Kim JC, Finger LD, Jardine E, Gotham VJB, Sarker AH, Her MZ, Rashid F, Hamdan SM, Mirkin SM, Grasby JA, Tainer JA. 2017. Nat Comm. 8: 15855. books

Neil AJ, Kim JC, Mirkin SM. 2017. Precarious maintenance of simple DNA repeats in eukaryotes. Bioessays Epub ahead of print.  books

Kim JC, Harris ST, Dinter T, Shah KA, Mirkin SM. 2017. The role of break-induced replication in large-scale expansions of (CAG)n/(CTG)n repeats. Nat Struct Mol Biol. 24: 55-60.  books

Aksenova AY, Han G, Shishkin AA, Volkov KV, Mirkin SM. 2015. Expansion of interstitial telomeric sequences in yeast. Cell Rep. 13: 1545-1551.  books

Kim JC, Mirkin SM. 2015. Putting the brakes on Huntington Disease in a mouse experimental model. PLoS Genet. 11: e1005409.  books

Pandey S, Ogloblina AM, Belotserkovskii BP, Dolinnaya NG, Yakubovskaya MG, Mirkin SM, Hanawalt PC. 2015. Transcription blockage by stable H-DNA analogs in vitro. Nucleic Acids Res. 43: 6994-7004.  books

Shah KA, Mirkin SM. 2015. The hidden side of unstable DNA repeats: Mutagenesis at a distance. DNA Repair (Amst). 32: 106-112. books

Shah KA, McGinty RJ, Egorova VI, Mirkin SM. 2014. Coupling Transcriptional State to Large-Scale Repeat Expansions in Yeast. Cell Rep. 9: 1594-1602. books

Mirkin EV, Mirkin SM. 2014. To switch or not to switch: at the origin of repeat expansion disease. Mol Cell 53: 1-3. books

Aksenova AY, Greenwell PW, Dominska M, Shishkin AA, Kim JC, Petes TD, Mirkin SM. 2013. Genome rearrangements caused by interstitial telomeric sequences in yeast. Proc Natl Acad Sci USA 110: 19866-19871. books

Kim JC, Mirkin SM. 2013. The balancing act of DNA repeat expansions. Curr Opin Genet Dev. 23: 280-288. books

Mirkin, S. 2013. DNA replication: Driving past four-stranded snags. Nature 497: 449-450. books

Shah KA, Shishkin AA, Voineagu I, Pavlov YI, Shcherbakova PV, Mirkin SM. 2012. Role of DNA polymerases in repeat-mediated genome instability. Cell Rep. 29: 1088-1095. books

Zhang Y, Shishkin AA, Nishida Y, Marcinkowski-Desmond D, Saini N, Volkov KV, Mirkin SM, Lobachev KS. 2012. Genome-wide screen identifies pathways that govern GAA/TTC repeat fragility and expansions in dividing and nondividing yeast cells. Mol Cell 48: 254-265. books

Chandok GS, Patel MP, Mirkin SM, Krasilnikova MM.  2012. Effects of Friedreich's ataxia GAA repeats on DNA replication in mammalian cells. Nucleic Acids Res. 40: 3964-3974. books

Anand RP, Shah KA, Niu H, Sung P, Mirkin SM, Freudenreich CH.  2012. Overcoming natural replication barriers: differential helicase requirements. Nucleic Acids Res. 40: 1091-1105. books

Cherng N, Shishkin AA, Schlager LI, Tuck RH, Sloan L, Matera R, Sarkar PS, Ashizawa T, Freudenreich CH, Mirkin SM. 2011. Expansions, contractions, and fragility of the spinocerebellar ataxia type 10 pentanucleotide repeat in yeast. Proc Natl Acad Sci USA 108: 2843-2848. books

Tang W, Dominska M, Greenwell PW, Harvanek Z, Lobachev KS, Kim HM, Narayanan V, Mirkin SM, Petes TD. 2011. Friedreich's ataxia (GAA)n•(TTC)n repeats strongly stimulate mitotic crossovers in Saccharomyces cerevisae. PLoS Genetics 7: e1001270. books

Mirkin SM. 2010. Getting to the core of repeat expansions by cell reprogramming. Cell Stem Cell 7: 545-546. books

Belotserkovskii BP, Liu R, Tornaletti S, Krasilnikova MM, Mirkin SM, Hanawalt PC. 2010. Mechanisms and implications of transcription blockage by guanine-rich DNA sequences. Proc Natl Acad Sci USA 107: 12816-12821.  books

Shishkin AA, Voineagu I, Matera R, Cherng N, Chernet BT, Krasilnikova MM, Narayanan V, Lobachev KS, Mirkin SM. 2009. Large-scale expansions of Friedreich's ataxia GAA repeats in yeast. Mol Cell 35: 82-92. books

Voineagu I, Freudenreich CH, Mirkin SM. 2009. Checkpoint responses to unusual structures formed by DNA repeats. Mol Carcinogen. 48: 309-318. books

Stamatoyannopoulos JA, Adzhubei I, Thurman RE, Kryukov GV, Mirkin SM, Sunyaev SR. 2009. Human mutation rate associated with DNA replication timing. Nat Genet. 41: 393-395. books

Voineagu I, Surka CF, Shishkin AA, Krasilnikova MM, Mirkin SM. 2009. Replisome stalling and stabilization at CGG repeats, which are responsible for chromosomal fragility. Nat Struct Biol. 16: 226-228. books

Kim HM, Narayanan V, Mieczkowski PA, Petes TD, Krasilnikova MM, Mirkin SM, Lobachev KS. 2008. Chromosome fragility at GAA tracts in yeast depends on repeat orientation and requires mismatch repair. EMBO J 27: 2896-2906. books

Voineagu I, Narayanan V, Lobachev KS, Mirkin SM. 2008. Replication stalling at unstable inverted repeats: interplay between DNA hairpins and fork stabilizing proteins. Proc Natl Acad Sci USA 106: 9936-9941. books

Mirkin SM. 2008. Discovery of alternative DNA structures: a heroic decade (1979-1989). Front Biosci 13: 1064-1071. books

Mirkin SM. 2007. Expandable DNA repeats and human disease. Nature 447: 932-940. books

Mirkin EV, Mirkin SM. 2007. Replication fork stalling and natural impediments. Microbiol Mol Biol Rev. 71: 13-35. books

Krasilnikova MM, Kireeva ML, Petrovic V, Knijnikova N, Kashlev M, Mirkin SM. 2007. Effects of Friedreich’s ataxia (GAA)n. (TTC)n repeats on RNA synthesis and stability. Nucleic Acids Res. 35: 1075-1084. books

Mirkin S. 2006. Replication of Expandable Repeats. In: Genetic Instabilities and Neurological Diseases, 2nd ed, Wells RD, Ashizawa T, eds, pp. 637-644. 

Mirkin SM. 2006. DNA structures, repeat expansions and human hereditary disorders. Curr Opin Struct Biol. 16: 1-8. books

Mirkin EV, Castro Roa D, Nudler E, Mirkin SM. 2006. Transcription regulatory elements are punctuation marks for DNA replication. Proc Natl Acad Sci USA 103: 7276-7281. books

Mirkin SM. 2005. Toward a unified theory for repeat expansions. Nat Struct Mol Biol. 12: 635-637. books

Mirkin EV, Mirkin SM. 2005. Mechanisms of transcription-replication collisions in bacteria. Mol Cell Biol. 25: 888-895. books

Krasilnikova MM, Mirkin SM. 2004. Replication stalling at Friedreich’s ataxia (GAA)n repeats in vivo. Mol Cell Biol. 24: 2286-2295. books

Krasilnikova MM, Mirkin SM. 2004. Analysis of triplet repeat replication by 2-dimensional gel-electrophoresis. Methods Mol Biol. 277: 19-28. books

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