Piotr A. Mieczkowski
A5090151610- Cancer Genomics and Diagnostics
- DNA Repair Mechanisms
- Genomics and Chromatin Dynamics
- Fungal and yeast genetics research
- Cocoa and Sweet Potato Agronomy
- CRISPR and Genetic Engineering
- RNA modifications and cancer
- Occupational and environmental lung diseases
- Medical Imaging and Pathology Studies
- Genetic factors in colorectal cancer
- RNA Research and Splicing
- Plant Disease Resistance and Genetics
- Genomics and Phylogenetic Studies
- Chromosomal and Genetic Variations
- Epigenetics and DNA Methylation
- Phytochemical compounds biological activities
- Fungal Infections and Studies
- RNA and protein synthesis mechanisms
- Genomics and Rare Diseases
- Ferroptosis and cancer prognosis
- Cancer-related molecular mechanisms research
- Cancer-related Molecular Pathways
- Evolution and Genetic Dynamics
- Genomic variations and chromosomal abnormalities
- Biofuel production and bioconversion
University of North Carolina at Chapel Hill
2016-2025
University of North Carolina Health Care
2021-2025
UNC Lineberger Comprehensive Cancer Center
2014-2024
Medical University of Białystok
2024
High Throughput Biology (United States)
2012-2021
Pediatrics and Genetics
2010-2021
Fusion Academy
2020
Fusion (United States)
2020
Clinical Research Consortium
2020
Duke University
2006-2019
We performed an integrated genomic, transcriptomic and proteomic characterization of 373 endometrial carcinomas using array- sequencing-based technologies. Uterine serous tumours ∼25% high-grade endometrioid had extensive copy number alterations, few DNA methylation changes, low oestrogen receptor/progesterone receptor levels, frequent TP53 mutations. Most alterations or mutations, but mutations in PTEN, CTNNB1, PIK3CA, ARID1A KRAS novel the SWI/SNF chromatin remodelling complex gene ARID5B....
The Cancer Genome Atlas profiled 279 head and neck squamous cell carcinomas (HNSCCs) to provide a comprehensive landscape of somatic genomic alterations. Here we show that human-papillomavirus-associated tumours are dominated by helical domain mutations the oncogene PIK3CA, novel alterations involving loss TRAF3, amplification cycle gene E2F1. Smoking-related HNSCCs demonstrate near universal loss-of-function TP53 CDKN2A inactivation with frequent copy number including 3q26/28 11q13/22. A...
The accurate mapping of reads that span splice junctions is a critical component all analytic techniques work with RNA-seq data. We introduce second generation detection algorithm, MapSplice, whose focus high sensitivity and specificity in the splices as well CPU memory efficiency. MapSplice can be applied to both short (<75 bp) long (≥75 bp). not dependent on site features or intron length, consequently it detect novel canonical non-canonical splices. leverages quality diversity read...
Diffuse large B-cell lymphoma (DLBCL) is the most common form of in adults. The disease exhibits a striking heterogeneity gene expression profiles and clinical outcomes, but its genetic causes remain to be fully defined. Through whole genome exome sequencing, we characterized diversity DLBCL. In all, sequenced 73 DLBCL primary tumors (34 with matched normal DNA). Separately, exomes 21 cell lines. We identified 322 cancer genes that were recurrently mutated DLBCLs. recurrent mutations...
We studied 137 primary testicular germ cell tumors (TGCTs) using high-dimensional assays of genomic, epigenomic, transcriptomic, and proteomic features. These exhibited high aneuploidy a paucity somatic mutations. Somatic mutation only three genes achieved significance—KIT, KRAS, NRAS—exclusively in samples with seminoma components. Integrated analyses identified distinct molecular patterns that characterized the major recognized histologic subtypes TGCT: seminoma, embryonal carcinoma, yolk...
Cryptococcus neoformans is a pathogenic basidiomycetous yeast responsible for more than 600,000 deaths each year. It occurs as two serotypes (A and D) representing varieties (i.e. grubii neoformans, respectively). Here, we sequenced the genome performed an RNA-Seq-based analysis of C. var. transcriptome structure. We determined chromosomal locations, analyzed sequence/structural features centromeres, identified origins replication. The was annotated based on automated manual curation. More...
Malassezia is a unique lipophilic genus in class Malasseziomycetes Ustilaginomycotina, (Basidiomycota, fungi) that otherwise consists almost exclusively of plant pathogens. are typically isolated from warm-blooded animals, dominant members the human skin mycobiome and associated with common disorders. To characterize genetic basis phenotypes spp., we sequenced genomes all 14 accepted species used comparative genomics against broad panel fungal to comprehensively identify distinct features...
APOBEC family cytidine deaminases have recently been implicated as powerful mutators of cancer genomes. How APOBECs, which are ssDNA-specific enzymes, gain access to chromosomal DNA is unclear. To ascertain the ssDNA substrates we expressed APOBEC3A and APOBEC3B, two most probable APOBECs mediating mutagenesis, in a yeast model system. We demonstrate, using mutation reporters whole genome sequencing, that APOBEC3A- APOBEC3B-induced mutagenesis primarily results from deamination lagging...
Significance In natural environments, plants establish intimate interactions with a wide diversity of microbes. It is unknown, however, how microbiota composed commensal bacteria colonize roots in the face sophisticated plant immune system that evolved to recognize microbial-associated molecular patterns. We investigate interaction between function and root microbiota. report root-associated actively suppress host response context community. Suppressors nonsuppressors co-occur microbiome...
Bioethanol is a biofuel produced mainly from the fermentation of carbohydrates derived agricultural feedstocks by yeast Saccharomyces cerevisiae . One most widely adopted strains PE-2, heterothallic diploid naturally adapted to sugar cane process used in Brazil. Here we report molecular genetic analysis PE-2 (JAY270), and complete genome sequence haploid derivative (JAY291). The JAY270 highly heterozygous (∼2 SNPs/kb) has several structural polymorphisms between homologous chromosomes. These...
Ionizing radiation is an established source of chromosome aberrations (CAs). Although double-strand breaks (DSBs) are implicated in radiation-induced and other CAs, the underlying mechanisms poorly understood. Here, we show that, although vast majority randomly induced DSBs G 2 diploid yeast cells repaired efficiently through homologous recombination (HR) between sister chromatids or chromosomes, ≈2% all give rise to CAs. Complete molecular analysis genome revealed that nearly CAs resulted...
Clusters of simultaneous multiple mutations can be a source rapid change during carcinogenesis and evolution. Such mutation clusters have been recently shown to originate from DNA damage within long single-stranded (ssDNA) formed at resected double-strand breaks dysfunctional replication forks. Here, we identify break (DSB)-induced (BIR) as another powerful that in nearly half wild-type yeast cells undergoing BIR the presence alkylating damage. Clustered were primarily along track synthesis...