Karol Szlachta
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Explore the profile of Karol Szlachta including associated specialties, affiliations and a list of published articles.
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19
Citations
744
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Recent Articles
1.
Lei S, Jia S, Takalkar S, Chang T, Ma X, Szlachta K, et al.
Leukemia
. 2024 Nov;
39(2):420-430.
PMID: 39523434
The utility of circulating tumor DNA (ctDNA) analysis has not been well-established for disease detection and monitoring of childhood cancers, especially leukemias. We developed PeCan-Seq, a deep sequencing method targeting...
2.
Arunachalam S, Szlachta K, Brady S, Ma X, Ju B, Shaner B, et al.
Acta Neuropathol Commun
. 2022 Jun;
10(1):80.
PMID: 35642016
The majority of diffuse midline gliomas, H3 K27-altered (DMG-H3 K27-a), are infiltrating pediatric brain tumors that arise in the pons with no effective treatment. To understand how clonal evolution contributes...
3.
Davis E, Sun Y, Liu Y, Kolekar P, Shao Y, Szlachta K, et al.
Genome Biol
. 2021 Jan;
22(1):37.
PMID: 33487172
Background: There is currently no method to precisely measure the errors that occur in the sequencing instrument/sequencer, which is critical for next-generation sequencing applications aimed at discovering the genetic makeup...
4.
Liu Y, Li C, Shen S, Chen X, Szlachta K, Edmonson M, et al.
Nat Genet
. 2020 Jul;
52(8):811-818.
PMID: 32632335
We developed cis-X, a computational method for discovering regulatory noncoding variants in cancer by integrating whole-genome and transcriptome sequencing data from a single cancer sample. cis-X first finds aberrantly cis-activated...
5.
Szlachta K, Manukyan A, Raimer H, Singh S, Salamon A, Guo W, et al.
Nucleic Acids Res
. 2020 Jun;
48(12):6654-6671.
PMID: 32501506
DNA double-stranded breaks (DSBs) trigger human genome instability, therefore identifying what factors contribute to DSB induction is critical for our understanding of human disease etiology. Using an unbiased, genome-wide approach,...
6.
Tian L, Li Y, Edmonson M, Zhou X, Newman S, McLeod C, et al.
Genome Biol
. 2020 May;
21(1):126.
PMID: 32466770
To discover driver fusions beyond canonical exon-to-exon chimeric transcripts, we develop CICERO, a local assembly-based algorithm that integrates RNA-seq read support with extensive annotation for candidate ranking. CICERO outperforms commonly...
7.
Singh S, Szlachta K, Manukyan A, Raimer H, Dinda M, Bekiranov S, et al.
J Biol Chem
. 2020 Feb;
295(12):3990-4000.
PMID: 32029477
DNA double-stranded breaks (DSBs) are strongly associated with active transcription, and promoter-proximal pausing of RNA polymerase II (Pol II) is a critical step in transcriptional regulation. Mapping the distribution of...
8.
Szlachta K, Raimer H, Comeau L, Wang Y
BMC Genomics
. 2020 Jan;
21(1):25.
PMID: 31914926
Background: DNA double-stranded breaks (DSBs) are potentially deleterious events in a cell. The end structures (blunt, 3'- and 5'-overhangs) at DSB sites contribute to the fate of their repair and...
9.
Li B, Brady S, Ma X, Shen S, Zhang Y, Li Y, et al.
Blood
. 2019 Nov;
135(1):41-55.
PMID: 31697823
To study the mechanisms of relapse in acute lymphoblastic leukemia (ALL), we performed whole-genome sequencing of 103 diagnosis-relapse-germline trios and ultra-deep sequencing of 208 serial samples in 16 patients. Relapse-specific...
10.
Huckaby A, Granum C, Carey M, Szlachta K, Al-Barghouthi B, Wang Y, et al.
Nucleic Acids Res
. 2018 Dec;
47(4):1615-1627.
PMID: 30576466
Antimalarial resistance is a major obstacle in the eradication of the human malaria parasite, Plasmodium falciparum. Genome amplifications, a type of DNA copy number variation (CNV), facilitate overexpression of drug...