Regulation of nuclear epigenome by mitochondrial DNA heteroplasmy

PK Kopinski, KA Janssen… - Proceedings of the …, 2019 - National Acad Sciences
Diseases associated with mitochondrial DNA (mtDNA) mutations are highly variable in
phenotype, in large part because of differences in the percentage of normal and mutant mtDNAs (…

Recent achievements in characterizing the histone code and approaches to integrating epigenomics and systems biology

KA Janssen, S Sidoli, BA Garcia - Methods in enzymology, 2017 - Elsevier
Functional epigenetic regulation occurs by dynamic modification of chromatin, including
genetic material (ie, DNA methylation), histone proteins, and other nuclear proteins. Due to the …

TET2 chemically modifies tRNAs and regulates tRNA fragment levels

C He, J Bozler, KA Janssen, JE Wilusz… - Nature structural & …, 2021 - nature.com
The ten-eleven translocation 2 (TET2) protein, which oxidizes 5-methylcytosine in DNA, can
also bind RNA; however, the targets and function of TET2–RNA interactions in vivo are not …

EpiProfile 2.0: a computational platform for processing epi-proteomics mass spectrometry data

…, DM Marchione, J Simithy, KA Janssen… - Journal of proteome …, 2018 - ACS Publications
Epigenetics has become a fundamental scientific discipline with various implications for
biology and medicine. Epigenetic marks, mostly DNA methylation and histone post-translational …

[HTML][HTML] How to count our microbes? The effect of different quantitative microbiome profiling approaches

…, N Van Best, BJ Benedikter, K Janssen… - Frontiers in cellular …, 2020 - frontiersin.org
Next-generation sequencing (NGS) has instigated the research on the role of the microbiome
in health and disease. The compositional nature of such microbiome datasets makes it …

Histone H3.3 beyond cancer: Germline mutations in Histone 3 Family 3A and 3B cause a previously unidentified neurodegenerative disorder in 46 patients

…, D Marchione, EF Joiner, K Wilson, K Janssen… - Science …, 2020 - science.org
Although somatic mutations in Histone 3.3 (H3.3) are well-studied drivers of oncogenesis,
the role of germline mutations remains unreported. We analyze 46 patients bearing de novo …

N6‐methyladenosine and RNA secondary structure affect transcript stability and protein abundance during systemic salt stress in Arabidopsis

MC Kramer, KA Janssen, K Palos, ADL Nelson… - Plant …, 2020 - Wiley Online Library
After transcription, a messenger RNA (mRNA) is further post‐transcriptionally regulated by
several features including RNA secondary structure and covalent RNA modifications (…

Combination of common mtDNA variants results in mitochondrial dysfunction and a connective tissue dysregulation

…, J Huang, K Rathi, K Janssen… - Proceedings of the …, 2022 - National Acad Sciences
Mitochondrial dysfunction can be associated with a range of clinical manifestations. Here,
we report a family with a complex phenotype including combinations of connective tissue, …

One minute analysis of 200 histone posttranslational modifications by direct injection mass spectrometry

…, ZF Yuan, HJ Kim, K Kulej, KA Janssen… - Genome …, 2019 - genome.cshlp.org
DNA and histone proteins define the structure and composition of chromatin. Histone
posttranslational modifications (PTMs) are covalent chemical groups capable of modeling …

[HTML][HTML] Viability-PCR Shows That NAAT Detects a High Proportion of DNA from Non-Viable Chlamydia trachomatis

KJH Janssen, CJPA Hoebe, NHTM Dukers-Muijrers… - PLoS …, 2016 - journals.plos.org
Objectives According to the current guidelines for laboratory diagnosis of sexually transmitted
infections (STIs), nucleic acid amplification tests (NAATs) are the preferred diagnostic …