-Omics of acute leukemia
We use modern technology for analysis of DNA, RNA, and protein levels in bulk and single-cells from patients with acute lymphoblastic leukemia (ALL) and acute myeloid leukemia (AML).
Project description
The aim of our research is to identify genetic, epigenetic or protein signatures that can be used as biomarkers and may render new knowledge on cellular mechanisms behind treatment response, cancer dissemination, toxicity and outcome. A second objective of our project is machine and deep learning implementation to uncover hidden patterns on patient -omics data aiming to improve diagnosis and subtype classification on the individual level, which may lead to new options for precision treatment and improved long-term survival in the future.
In our projects we are analyzing samples from a unique collection of bone marrow and blood samples from children with acute leukemia, collected in the Nordic countries by the Nordic Society for Paediatric Oncology (NOPHO). The projects involve a close collaboration with pediatric oncologists at the Children’s Hospital in Uppsala.
Selected publications
Krali O, Marincevic-Zuniga Y, Arvidsson G, Enblad AP, Lundmark A, Sayyab S, Zachariadis V, Heinäniemi M, Suhonen J, OksaL, Vepsäläinen K, Öfverholm I, Barbany G, Nordgren A, Lilljebjörn H, Fioretos T, Madsen HO, Marquart HV, Flaegstad T, Forestier E, Jónsson ÓG, Kanerva J, Lohi O, Norén-Nyström U, Schmiegelow K, Harila A, Heyman M, Lönnerholm G, Syvänen AC, Nordlund J. Multimodal classification of molecular subtypes in pediatric acute lymphoblastic leukemia. NPJ Precis Oncol. 2023 Dec 8;7(1):131. doi: 10.1038/s41698-023-00479-5. PubMed PMID: 38066241; PubMed Central PMCID: PMC10709574
Lysenkova Wiklander M, Övernäs E, Lagensjö J, Raine A, Petri A, Wiman AC, Ramsell J, Marincevic-Zuniga Y, Gezelius H, Martin T, Bunikis I, Ekberg S, Erlandsson R, Larsson P, Mosbech MB, Häggqvist S, Hellstedt Kerje S, Feuk L, Ameur A, Liljedahl U, Nordlund J. Genomic, transcriptomic and epigenomic sequencing data of the B-cell leukemia cell line REH. BMC Res Notes. 2023 Oct 10;16(1):265. doi: 10.1186/s13104-023-06537-2. PubMed PMID: 37817248; PubMed Central PMCID: PMC10566058.
Sayyab S, Lundmark A, Larsson M, Ringnér M, Nystedt S, Marincevic-Zuniga Y, Tamm KP, Abrahamsson J, Fogelstrand L, Heyman M, Norén-Nyström U, Lönnerholm G, Harila-Saari A, Berglund EC, Nordlund J, Syvänen AC. Mutational patterns and clonal evolution from diagnosis to relapse in pediatric acute lymphoblastic leukemia. Sci Rep. 2021 Aug 6;11(1):15988. doi: 10.1038/s41598-021-95109-0. PubMed PMID: 34362951; PubMed Central PMCID: PMC8346595.
Duran-Ferrer M, Clot G, Nadeu F, Beekman R, Baumann T, Nordlund J, Marincevic-Zuniga Y, Lönnerholm G, Rivas-Delgado A, Martín S, Ordoñez R, Castellano G, Kulis M, Queirós AC, Lee ST, Wiemels J, Royo R, Puiggrós M, Lu J, Giné E, Beà S, JaresP, Agirre X, Prosper F, López-Otín C, Puente XS, Oakes CC, Zenz T, Delgado J, López-Guillermo A, Campo E, Martín-Subero JI. The proliferative history shapes the DNA methylome of B-cell tumors and predicts clinical outcome. Nat Cancer. 2020 Nov;1(11):1066-1081. doi: 10.1038/s43018-020-00131-2. Epub 2020 Nov 2. PubMed PMID: 34079956; PubMed Central PMCID: PMC8168619.
Nordlund J, Syvänen AC. Epigenetics in pediatric acute lymphoblastic leukemia. Semin Cancer Biol. 2018 Aug;51:129-138. doi: 10.1016/j.semcancer.2017.09.001. Epub 2017 Sep 5. Review. PubMed PMID: 28887175.
Nordlund J, Bäcklin CL, Wahlberg P, Busche S, Berglund EC, Eloranta ML, Flaegstad T, Forestier E, Frost BM, Harila-Saari A, Heyman M, Jónsson OG, Larsson R, Palle J, Rönnblom L, Schmiegelow K, Sinnett D, Söderhäll S, Pastinen T, Gustafsson MG, Lönnerholm G, Syvänen AC. Genome-wide signatures of differential DNA methylation in pediatric acute lymphoblastic leukemia. Genome Biol. 2013 Sep 24;14(9):r105. doi: 10.1186/gb-2013-14-9-r105. PubMed PMID: 24063430; PubMed Central PMCID: PMC4014804.