Karolis Koncevičius

My work combines biomedical research, applied statistics, computational biology, and R programming.

Currently focusing on epigenome-based prediction of chronological and biological age.

First/shared author

• Epigenetic age oscillates during the day. Karolis Koncevičius, Akhil Nair, Aušrinė Šveikauskaitė, Agnė Šeštokaitė, Auksė Kazlauskaitė, Audrius Dulskas, Artūras Petronis.
  2024, Aging Cell.

• Circadian oscillations of cytosine modification in humans contribute to epigenetic variability, aging, and complex disease. Gabriel Oh, Karolis Koncevičius, Sasha Ebrahimi, Matthew Carlucci, Daniel Erik Groot, Akhil Nair, Aiping Zhang, Algimantas Kriščiūnas, Edward S. Oh, Viviane Labrie, Albert H. C. Wong, Juozas Gordevičius, Peixin Jia, Miki Susic, Artūras Petronis.
  2019, Genome Biology.

Coauthor

• Scikick: A sidekick for workflow clarity and reproducibility during extensive data analysis. Matthew Carlucci, Tadas Bareikis, Karolis Koncevičius, Povilas Gibas, Algimantas Kriščiūnas, Artūras Petronis, Gabriel Oh.
  2023, Plos One.

• DiscoRhythm: an easy-to-use web application and R package for discovering rhythmicity. Matthew Carlucci, Algimantas Kriščiūnas, Haohan Li, Povilas Gibas, Karolis Koncevičius, Artūras Petronis, Gabriel Oh.
  2020, Bioinformatics.

• Cytosine modifications exhibit circadian oscillations that are involved in epigenetic diversity and aging. Gabriel Oh, Sasha Ebrahimi, Matthew Carlucci, Aiping Zhang, Akhil Nair, Daniel E. Groot, Viviane Labrie, Peixin Jia, Edward S. Oh, Richie H. Jeremian, Miki Susic, Tenjin C. Shrestha, Martin R. Ralph, Juozas Gordevičius, Karolis Koncevičius, Artūras Petronis.
  2018, Nature Communications.

• Lactase nonpersistence is directed by DNA-variation-dependent epigenetic aging. Viviane Labrie, Orion J Buske, Edward Oh, Richie Jeremian, Carolyn Ptak, Giedrius Gasiūnas, Almantas Maleckas, Rūta Petereit, Aida Žvirblienė, Kęstutis Adamonis, Edita Kriukienė, Karolis Koncevičius, Juozas Gordevičius, Akhil Nair, Aiping Zhang, Sasha Ebrahimi, Gabriel Oh, Virginijus Šikšnys, Limas Kupčinskas, Michael Brudno, Artūras Petronis.
  2016, Nature Structural and Molecular Biology.

• DNA unmethylome profiling by covalent capture of CpG sites. Edita Kriukienė, Viviane Labrie, Tarang Khare, Giedrė Urbanavičiūtė, Audronė Lapinaitė, Karolis Koncevičius, Daofeng Li, Ting Wang, Shraddha Pai, Carolyn Ptak, Juozas Gordevičius, Sun-Chong Wang, Artūras Petronis, Saulius Klimašauskas.
  2013, Nature Communications.

• 5-hmC in the brain is abundant in synaptic genes and shows differences at the exon-intron boundary. Tarang Khare, Shraddha Pai, Karolis Koncevičius, Mrinal Pal, Edita Kriukienė, Zita Liutkevičiutė, Manuel Irimia, Peixin Jia, Carolyn Ptak, Menghang Xia, Raymond Tice, Mamoru Tochigi, Solange Moréra, Anaies Nazarians, Denise Belsham, Albert H C Wong, Benjamin J Blencowe, Sun Chong Wang, Philipp Kapranov, Rafal Kustra, Viviane Labrie, Saulius Klimašauskas, Artūras Petronis.
  2012, Nature Structural and Molecular Biology.

Author

• R package matrixTests - fast hypothesis tests on rows and columns of data matrices.
• R package annmatrix - a matrix object with persistent row and column annotations.
• R package basetheme - system for adding themes to base graphics plots.

Coauthor

• R package DiscoRhythm - methods for discovering rhythmicity in biological data.
• R package inops - infix operators for detection, subsetting, and replacement.
• R package ridgeline - ridgeline density plots (coauthor by courtesy).

Courses

• "Biomedical Data Analysis".
  2019 - present, Faculty of Mathematics and Informatics, Vilnius University.

Students

• "DNA modification in accelerated and decelerated aging syndromes".
  2026, Minor program thesis, Jolita Cibulskaitė.

• "How epigenetic age is influenced by the time of year and the time of day".
  2025, Bachelor's thesis, Gabrielė Vilutytė.

• "Ensemble learning methods for the prediction of epigenetic age".
  2023, Bachelor's thesis, Rugilė Peleckytė.

• "How the estimation of epigenetic age is influenced by environmental factors and human disease".
  2022, Bachelor's thesis, Aušrinė Šveikauskaitė.

• "R package for visualizing results of various epigenome wide association studies".
  2021, Bachelor's thesis. Asta Kvedaraitė.

• "Analysis of genomic regions exhibiting differential DNA modification between phenotypes".
  2021, Bachelor's thesis, Simas Bijeikis.

• "Visualization and Comparison of Epigenetic Disease Profiles".
  2020, Bachelor's thesis, Artūras Terasenka & Ignas Račinskas.

• Lesser Known Base R Features.
  2020, LA R Users Group (remote talk).

• The annual MLSP competition: third place.
  2014, IEEE MLSP conference (competition award).

• A Half Hour to Learn R
• R Base Plotting Without Wrappers

• List of publications on Google Scholar.
• Open source software contributions on GitHub.
• Sparsely active on StackOverflow and CrossValidated.