Kevin Johnson
Research Scientist
Research & Publications
Biography
Extensive Research Description
Dr. Kevin Johnson is a Research Scientist in Professor Roel Verhaak's laboratory with a strong background in cancer genomics, epigenetics, and glioma evolution. In the Verhaak Lab, he leads computational analyses of multi-modal bulk and single cell longitudinal genomic data to better understand glioma treatment resistance. Dr. Johnson has a proven track record of producing high-quality research including first or co-first author publications in scientific journals such as Nature, Nature Genetics, and Nature Communications. He is also an active research member in (inter)national scientific consortium such as the Glioma Longitudinal AnalySiS (GLASS) consortium that investigates brain tumor molecular evolution and the Participant Engagement and Cancer Genome Sequencing (PE-CGS) consortium that directly engages patients in cancer genomics research.
Coauthors
Selected Publications
- EPCO-13. IDENTIFYING REGULATORS OF GLIOMA CELL STATE DIVERSITY AND EVOLUTION VIA JOINT SINGLE NUCLEUS RNA AND CHROMATIN ACCESSIBILITYJohnson K, Anderson K, Nehar-Belaid D, Varn F, Gujar A, Courtois E, Robson P, Moon H, Golebiewska A, Paek S, Niclou S, Verhaak R. EPCO-13. IDENTIFYING REGULATORS OF GLIOMA CELL STATE DIVERSITY AND EVOLUTION VIA JOINT SINGLE NUCLEUS RNA AND CHROMATIN ACCESSIBILITY. Neuro-Oncology 2022, 24: vii118-vii118. PMCID: PMC9660532, DOI: 10.1093/neuonc/noac209.448.
- Glioma progression is shaped by genetic evolution and microenvironment interactionsVarn F, Johnson K, Martinek J, Huse J, Nasrallah M, Wesseling P, Cooper L, Malta T, Wade T, Sabedot T, Brat D, Gould P, Wöehrer A, Aldape K, Ismail A, Sivajothi S, Barthel F, Kim H, Kocakavuk E, Ahmed N, White K, Datta I, Moon H, Pollock S, Goldfarb C, Lee G, Garofano L, Anderson K, Nehar-Belaid D, Barnholtz-Sloan J, Bakas S, Byrne A, D’Angelo F, Gan H, Khasraw M, Migliozzi S, Ormond D, Paek S, Van Meir E, Walenkamp A, Watts C, Weiss T, Weller M, Palucka K, Stead L, Poisson L, Noushmehr H, Iavarone A, Verhaak R, Consortium T, Varn F, Johnson K, Martinek J, Huse J, Nasrallah M, Wesseling P, Cooper L, Malta T, Wade T, Sabedot T, Brat D, Gould P, Wöehrer A, Aldape K, Ismail A, Sivajothi S, Barthel F, Kim H, Kocakavuk E, Ahmed N, White K, Datta I, Moon H, Pollock S, Goldfarb C, Lee G, Garofano L, Anderson K, Nehar-Belaid D, Barnholtz-Sloan J, Bakas S, Byrne A, D’Angelo F, Gan H, Khasraw M, Migliozzi S, Ormond D, Paek S, Van Meir E, Walenkamp A, Watts C, Weiss T, Weller M, Alfaro K, Amin S, Ashley D, Bock C, Brodbelt A, Bulsara K, Castro A, Connelly J, Costello J, de Groot J, Finocchiaro G, French P, Golebiewska A, Hau A, Hong C, Horbinski C, Kannan K, Kouwenhoven M, Lasorella A, LaViolette P, Ligon K, Lowman A, Mehta S, Miletic H, Molinaro A, Ng H, Niclou S, Niers J, Phillips J, Rabadan R, Rao G, Reifenberger G, Sanai N, Short S, Smitt P, Sloan A, Smits M, Snyder J, Suzuki H, Tabatabai G, Tanner G, Tomaszewski W, Wells M, Westerman B, Wheeler H, Xie J, Yung W, Zadeh G, Zhao J, Palucka K, Stead L, Poisson L, Noushmehr H, Iavarone A, Verhaak R. Glioma progression is shaped by genetic evolution and microenvironment interactions. Cell 2022, 185: 2184-2199.e16. PMID: 35649412, PMCID: PMC9189056, DOI: 10.1016/j.cell.2022.04.038.
- Live-Cell Imaging Shows Uneven Segregation of Extrachromosomal DNA Elements and Transcriptionally Active Extrachromosomal DNA Hubs in CancerYi E, Gujar A, Guthrie M, Kim H, Zhao D, Johnson K, Amin S, Costa M, Yu Q, Das S, Jillette N, Clow P, Cheng A, Verhaak R. Live-Cell Imaging Shows Uneven Segregation of Extrachromosomal DNA Elements and Transcriptionally Active Extrachromosomal DNA Hubs in Cancer. Cancer Discovery 2022, 12: 468-483. PMID: 34819316, PMCID: PMC8831456, DOI: 10.1158/2159-8290.cd-21-1376.
- Single-cell multimodal glioma analyses identify epigenetic regulators of cellular plasticity and environmental stress responseJohnson K, Anderson K, Courtois E, Gujar A, Barthel F, Varn F, Luo D, Seignon M, Yi E, Kim H, Estecio M, Zhao D, Tang M, Navin N, Maurya R, Ngan C, Verburg N, de Witt Hamer P, Bulsara K, Samuels M, Das S, Robson P, Verhaak R. Single-cell multimodal glioma analyses identify epigenetic regulators of cellular plasticity and environmental stress response. Nature Genetics 2021, 53: 1456-1468. PMID: 34594038, PMCID: PMC8570135, DOI: 10.1038/s41588-021-00926-8.
- Serum cell-free DNA epigenetic biomarkers aid glioma diagnostics and monitoring.Johnson K, Verhaak R. Serum cell-free DNA epigenetic biomarkers aid glioma diagnostics and monitoring. Neuro-Oncology 2021, 23: 1423-1424. PMID: 34139018, PMCID: PMC8408867, DOI: 10.1093/neuonc/noab146.
- Spatial concordance of DNA methylation classification in diffuse gliomaVerburg N, Barthel F, Anderson K, Johnson K, Koopman T, Yaqub M, Hoekstra O, Lammertsma A, Barkhof F, Pouwels P, Reijneveld J, Rozemuller A, Beliën J, Boellaard R, Taylor M, Das S, Costello J, Vandertop W, Wesseling P, de Witt Hamer P, Verhaak R. Spatial concordance of DNA methylation classification in diffuse glioma. Neuro-Oncology 2021, 23: noab134. PMID: 34049406, PMCID: PMC8643482, DOI: 10.1093/neuonc/noab134.
- Radiotherapy is associated with a deletion signature that contributes to poor outcomes in patients with cancerKocakavuk E, Anderson K, Varn F, Johnson K, Amin S, Sulman E, Lolkema M, Barthel F, Verhaak R. Radiotherapy is associated with a deletion signature that contributes to poor outcomes in patients with cancer. Nature Genetics 2021, 53: 1088-1096. PMID: 34045764, PMCID: PMC8483261, DOI: 10.1038/s41588-021-00874-3.
- Molecular and clonal evolution in recurrent metastatic gliosarcomaAnderson K, Tan A, Parkinson J, Back M, Kastelan M, Newey A, Brewer J, Wheeler H, Hudson A, Amin S, Johnson K, Barthel F, Verhaak R, Khasraw M. Molecular and clonal evolution in recurrent metastatic gliosarcoma. Molecular Case Studies 2020, 6: a004671. PMID: 31896544, PMCID: PMC6996521, DOI: 10.1101/mcs.a004671.
- Genome-wide characterization of cytosine-specific 5-hydroxymethylation in normal breast tissueWilkins O, Johnson K, Houseman E, King J, Marsit C, Christensen B. Genome-wide characterization of cytosine-specific 5-hydroxymethylation in normal breast tissue. Epigenetics 2019, 15: 398-418. PMID: 31842685, PMCID: PMC7153548, DOI: 10.1080/15592294.2019.1695332.
- BMP signaling mediates glioma stem cell quiescence and confers treatment resistance in glioblastomaSachdeva R, Wu M, Johnson K, Kim H, Celebre A, Shahzad U, Graham M, Kessler J, Chuang J, Karamchandani J, Bredel M, Verhaak R, Das S. BMP signaling mediates glioma stem cell quiescence and confers treatment resistance in glioblastoma. Scientific Reports 2019, 9: 14569. PMID: 31602000, PMCID: PMC6787003, DOI: 10.1038/s41598-019-51270-1.
- Evolving Insights into the Molecular Neuropathology of Diffuse Gliomas in AdultsBarthel F, Johnson K, Wesseling P, Verhaak R. Evolving Insights into the Molecular Neuropathology of Diffuse Gliomas in Adults. Neurologic Clinics 2018, 36: 421-437. PMID: 30072063, PMCID: PMC6322909, DOI: 10.1016/j.ncl.2018.04.002.
- 5-Hydroxymethylcytosine localizes to enhancer elements and is associated with survival in glioblastoma patientsJohnson K, Houseman E, King J, von Herrmann K, Fadul C, Christensen B. 5-Hydroxymethylcytosine localizes to enhancer elements and is associated with survival in glioblastoma patients. Nature Communications 2016, 7: 13177. PMID: 27886174, PMCID: PMC5133638, DOI: 10.1038/ncomms13177.
- OxyBS: estimation of 5-methylcytosine and 5-hydroxymethylcytosine from tandem-treated oxidative bisulfite and bisulfite DNAHouseman E, Johnson K, Christensen B. OxyBS: estimation of 5-methylcytosine and 5-hydroxymethylcytosine from tandem-treated oxidative bisulfite and bisulfite DNA. Bioinformatics 2016, 32: 2505-2507. PMID: 27153596, PMCID: PMC4978924, DOI: 10.1093/bioinformatics/btw158.
- DNA methylation in ductal carcinoma in situ related with future development of invasive breast cancerJohnson K, Koestler D, Fleischer T, Chen P, Jenson E, Marotti J, Onega T, Kristensen V, Christensen B. DNA methylation in ductal carcinoma in situ related with future development of invasive breast cancer. Clinical Epigenetics 2015, 7: 75. PMID: 26213588, PMCID: PMC4514996, DOI: 10.1186/s13148-015-0094-0.
- Genome-wide DNA methylation profiles in progression to in situand invasive carcinoma of the breast with impact on gene transcription and prognosisFleischer T, Frigessi A, Johnson K, Edvardsen H, Touleimat N, Klajic J, Riis M, Haakensen V, Wärnberg F, Naume B, Helland Å, Børresen-Dale A, Tost J, Christensen B, Kristensen V. Genome-wide DNA methylation profiles in progression to in situand invasive carcinoma of the breast with impact on gene transcription and prognosis. Genome Biology 2014, 15: 435. PMID: 25146004, PMCID: PMC4165906, DOI: 10.1186/s13059-014-0435-x.
- Age-related DNA methylation in normal breast tissue and its relationship with invasive breast tumor methylationJohnson K, Koestler D, Cheng C, Christensen B. Age-related DNA methylation in normal breast tissue and its relationship with invasive breast tumor methylation. Epigenetics 2013, 9: 268-275. PMID: 24196486, PMCID: PMC3962537, DOI: 10.4161/epi.27015.