Szlachta K - Search Results

1

CNCC: an analysis tool to determine genome-wide DNA break end structure at single-nucleotide resolution.

Szlachta K, Raimer HM, Comeau LD, Wang YH. Szlachta K, et al. BMC Genomics. 2020 Jan 8;21(1):25. doi: 10.1186/s12864-019-6436-0. BMC Genomics. 2020. PMID: 31914926 Free PMC article.

2

Pausing sites of RNA polymerase II on actively transcribed genes are enriched in DNA double-stranded breaks.

Singh S, Szlachta K, Manukyan A, Raimer HM, Dinda M, Bekiranov S, Wang YH. Singh S, et al. Among authors: szlachta k. J Biol Chem. 2020 Mar 20;295(12):3990-4000. doi: 10.1074/jbc.RA119.011665. Epub 2020 Feb 6. J Biol Chem. 2020. PMID: 32029477 Free PMC article.

3

Topoisomerase II contributes to DNA secondary structure-mediated double-stranded breaks.

Szlachta K, Manukyan A, Raimer HM, Singh S, Salamon A, Guo W, Lobachev KS, Wang YH. Szlachta K, et al. Nucleic Acids Res. 2020 Jul 9;48(12):6654-6671. doi: 10.1093/nar/gkaa483. Nucleic Acids Res. 2020. PMID: 32501506 Free PMC article.

4

Alternative DNA secondary structure formation affects RNA polymerase II promoter-proximal pausing in human.

Szlachta K, Thys RG, Atkin ND, Pierce LCT, Bekiranov S, Wang YH. Szlachta K, et al. Genome Biol. 2018 Jul 12;19(1):89. doi: 10.1186/s13059-018-1463-8. Genome Biol. 2018. PMID: 30001206 Free PMC article.

5

Complex DNA structures trigger copy number variation across the Plasmodium falciparum genome.

Huckaby AC, Granum CS, Carey MA, Szlachta K, Al-Barghouthi B, Wang YH, Guler JL. Huckaby AC, et al. Among authors: szlachta k. Nucleic Acids Res. 2019 Feb 28;47(4):1615-1627. doi: 10.1093/nar/gky1268. Nucleic Acids Res. 2019. PMID: 30576466 Free PMC article.

6

Genomic analysis of DNA repair genes and androgen signaling in prostate cancer.

Jividen K, Kedzierska KZ, Yang CS, Szlachta K, Ratan A, Paschal BM. Jividen K, et al. Among authors: szlachta k. BMC Cancer. 2018 Oct 10;18(1):960. doi: 10.1186/s12885-018-4848-x. BMC Cancer. 2018. PMID: 30305041 Free PMC article.

7

CRISPR-STOP: gene silencing through base-editing-induced nonsense mutations.

Kuscu C, Parlak M, Tufan T, Yang J, Szlachta K, Wei X, Mammadov R, Adli M. Kuscu C, et al. Among authors: szlachta k. Nat Methods. 2017 Jul;14(7):710-712. doi: 10.1038/nmeth.4327. Epub 2017 Jun 5. Nat Methods. 2017. PMID: 28581493

8

CRISPR knockout screening identifies combinatorial drug targets in pancreatic cancer and models cellular drug response.

Szlachta K, Kuscu C, Tufan T, Adair SJ, Shang S, Michaels AD, Mullen MG, Fischer NL, Yang J, Liu L, Trivedi P, Stelow EB, Stukenberg PT, Parsons JT, Bauer TW, Adli M. Szlachta K, et al. Nat Commun. 2018 Oct 15;9(1):4275. doi: 10.1038/s41467-018-06676-2. Nat Commun. 2018. PMID: 30323222 Free PMC article.

9

CICERO: a versatile method for detecting complex and diverse driver fusions using cancer RNA sequencing data.

Tian L, Li Y, Edmonson MN, Zhou X, Newman S, McLeod C, Thrasher A, Liu Y, Tang B, Rusch MC, Easton J, Ma J, Davis E, Trull A, Michael JR, Szlachta K, Mullighan C, Baker SJ, Downing JR, Ellison DW, Zhang J. Tian L, et al. Among authors: szlachta k. Genome Biol. 2020 May 28;21(1):126. doi: 10.1186/s13059-020-02043-x. Genome Biol. 2020. PMID: 32466770 Free PMC article.

10

SequencErr: measuring and suppressing sequencer errors in next-generation sequencing data.

Davis EM, Sun Y, Liu Y, Kolekar P, Shao Y, Szlachta K, Mulder HL, Ren D, Rice SV, Wang Z, Nakitandwe J, Gout AM, Shaner B, Hall S, Robison LL, Pounds S, Klco JM, Easton J, Ma X. Davis EM, et al. Among authors: szlachta k. Genome Biol. 2021 Jan 25;22(1):37. doi: 10.1186/s13059-020-02254-2. Genome Biol. 2021. PMID: 33487172 Free PMC article.

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