Jessica Nordlund

Error Reduction in Leukemia Machine Learning Classification With Conformal Prediction

Lysenkova, Mariya; Zachariah, Dave; Krali, Olga; Nordlund, Jessica

Ingår i JCO Clinical Cancer Informatics, 2025

• DOI för Error Reduction in Leukemia Machine Learning Classification With Conformal Prediction
• Ladda ner fulltext (pdf) av Error Reduction in Leukemia Machine Learning Classification With Conformal Prediction

Ex vivo drug responses and molecular profiles of 597 pediatric acute lymphoblastic leukemia patients

Enblad, Anna Pia; Krali, Olga; Gezelius, Henrik; Lundmark, Anders et al.

Ingår i HemaSphere, 2025

• DOI för Ex vivo drug responses and molecular profiles of 597 pediatric acute lymphoblastic leukemia patients
• Ladda ner fulltext (pdf) av Ex vivo drug responses and molecular profiles of 597 pediatric acute lymphoblastic leukemia patients

Epigenomic diagnosis and prognosis of Acute Myeloid Leukemia

Marchi, Francisco; Shastri, Vivek M.; Marrero, Richard J.; Nguyen, Nam H. K. et al.

Ingår i Nature Communications, 2025

• DOI för Epigenomic diagnosis and prognosis of Acute Myeloid Leukemia
• Ladda ner fulltext (pdf) av Epigenomic diagnosis and prognosis of Acute Myeloid Leukemia

A multiomic characterization of the leukemia cell line REH using short- and long-read sequencing

Lysenkova, Mariya; Arvidsson, Gustav; Bunikis, Ignas; Lundmark, Anders et al.

Ingår i Life Science Alliance, 2024

• DOI för A multiomic characterization of the leukemia cell line REH using short- and long-read sequencing
• Ladda ner fulltext (pdf) av A multiomic characterization of the leukemia cell line REH using short- and long-read sequencing

Comparison of high-throughput single-cell RNA-seq methods for ex vivo drug screening

Gezelius, Henrik; Enblad, Anna Pia; Lundmark, Anders; Åberg, Martin et al.

Ingår i NAR Genomics and Bioinformatics, 2024

• DOI för Comparison of high-throughput single-cell RNA-seq methods for ex vivo drug screening
• Ladda ner fulltext (pdf) av Comparison of high-throughput single-cell RNA-seq methods for ex vivo drug screening

Epigenome-wide analysis across the development span of pediatric acute lymphoblastic leukemia: backtracking to birth

Ghantous, Akram; Nussle, Semira Gonseth; Nassar, Farah J.; Spitz, Natalia et al.

Ingår i Molecular Cancer, 2024

• DOI för Epigenome-wide analysis across the development span of pediatric acute lymphoblastic leukemia: backtracking to birth
• Ladda ner fulltext (pdf) av Epigenome-wide analysis across the development span of pediatric acute lymphoblastic leukemia: backtracking to birth

BCP neoplasms: same or different?

Nordlund, Jessica

Ingår i Blood, s. 4-6, 2024

• DOI för BCP neoplasms: same or different?

Multimodal classification of molecular subtypes in pediatric acute lymphoblastic leukemia

Krali, Olga; Marincevic-Zuniga, Yanara; Arvidsson, Gustav; Enblad, Anna Pia et al.

Ingår i npj Precision Oncology, 2023

• DOI för Multimodal classification of molecular subtypes in pediatric acute lymphoblastic leukemia
• Ladda ner fulltext (pdf) av Multimodal classification of molecular subtypes in pediatric acute lymphoblastic leukemia

Toward best practice in cancer mutation detection with whole-genome and whole-exome sequencing

Xiao, Wenming; Ren, Luyao; Chen, Zhong; Fang, Li Tai et al.

Ingår i Nature Biotechnology, s. 1141-1150, 2021

• DOI för Toward best practice in cancer mutation detection with whole-genome and whole-exome sequencing

The SEQC2 epigenomics quality control (EpiQC) study

Foox, Jonathan; Nordlund, Jessica; Lalancette, Claudia; Gong, Ting et al.

Ingår i Genome Biology, 2021

• DOI för The SEQC2 epigenomics quality control (EpiQC) study
• Ladda ner fulltext (pdf) av The SEQC2 epigenomics quality control (EpiQC) study

Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-genome sequencing

Fang, Li Tai; Zhu, Bin; Zhao, Yongmei; Chen, Wanqiu et al.

Ingår i Nature Biotechnology, s. 1151-1160, 2021

• DOI för Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-genome sequencing

SPlinted Ligation Adapter Tagging (SPLAT), a novel library preparation method for whole genome bisulphite sequencing

Raine, Amanda; Manlig, Erika; Wahlberg, Per; Syvänen, Ann-Christine et al.

Ingår i Nucleic Acids Research, 2017

• DOI för SPlinted Ligation Adapter Tagging (SPLAT), a novel library preparation method for whole genome bisulphite sequencing
• Ladda ner fulltext (pdf) av SPlinted Ligation Adapter Tagging (SPLAT), a novel library preparation method for whole genome bisulphite sequencing

Genome-wide signatures of differential DNA methylation in pediatric acute lymphoblastic leukemia

Nordlund, Jessica; Bäcklin, Christofer L; Wahlberg, Per; Busche, Stephan et al.

Ingår i Genome Biology, 2013

• DOI för Genome-wide signatures of differential DNA methylation in pediatric acute lymphoblastic leukemia

Interferon-α–Driven Stratification of B Cells Reveals Metabolic Reprogramming of Double-Negative, Naïve, and Transitional Cell Subsets and Refines Molecular Classification in Sjögren's Disease

Iperi, Cristian; Rekha, Akhiya Anilkumar; Arvidsson, Gustav; Nordmark, Gunnel et al.

Ingår i European Journal of Immunology, 2026

• DOI för Interferon-α–Driven Stratification of B Cells Reveals Metabolic Reprogramming of Double-Negative, Naïve, and Transitional Cell Subsets and Refines Molecular Classification in Sjögren's Disease

Midostaurin response in AML is shaped by a progenitor-like cell state selectively targeted by SMAC mimetics

Struyf, Nona; Gezelius, Henrik; Lundmark, Anders; Barizza, Chiara et al.

Ingår i npj Precision Oncology, 2026

• DOI för Midostaurin response in AML is shaped by a progenitor-like cell state selectively targeted by SMAC mimetics
• Ladda ner fulltext (pdf) av Midostaurin response in AML is shaped by a progenitor-like cell state selectively targeted by SMAC mimetics

Whole-genome sequencing with AVITI and NovaSeq X Plus reveals comparable performance with contextual biases

Höjer, Pontus; Alneberg, Johannes; Lundin, Pär; Martin, Tom et al.

Ingår i NAR Genomics and Bioinformatics, 2026

• DOI för Whole-genome sequencing with AVITI and NovaSeq X Plus reveals comparable performance with contextual biases
• Ladda ner fulltext (pdf) av Whole-genome sequencing with AVITI and NovaSeq X Plus reveals comparable performance with contextual biases

Author's Response to the Commentary by Raitoharju E et al. on "Epigenome-wide analysis across the development span of pediatric acute lymphoblastic leukemia: backtracking to birth"

Nassar, Farah J.; Cahais, Vincent; McKay, Jill A.; Strathdee, Gordon et al.

Ingår i Molecular Cancer, 2026

• DOI för Author's Response to the Commentary by Raitoharju E et al. on "Epigenome-wide analysis across the development span of pediatric acute lymphoblastic leukemia: backtracking to birth"
• Ladda ner fulltext (pdf) av Author's Response to the Commentary by Raitoharju E et al. on "Epigenome-wide analysis across the development span of pediatric acute lymphoblastic leukemia: backtracking to birth"

An integrative molecular map of pediatric B-cell precursor acute lymphoblastic leukemia

Krali, Olga; Enblad, Anna Pia; Sulyaeva, Julia; Gogishvili, Dea et al.

Ingår i Communications Medicine, 2026

• DOI för An integrative molecular map of pediatric B-cell precursor acute lymphoblastic leukemia
• Ladda ner fulltext (pdf) av An integrative molecular map of pediatric B-cell precursor acute lymphoblastic leukemia

Interferon-α–Driven Stratification of B Cells Reveals Metabolic Reprogramming of Double-Negative, Naïve, and Transitional Cell Subsets and Refines Molecular Classification in Sjögren's Disease

Iperi, Cristian; Rekha, Akhiya Anilkumar; Arvidsson, Gustav; Nordmark, Gunnel et al.

Ingår i European Journal of Immunology, 2026

• DOI för Interferon-α–Driven Stratification of B Cells Reveals Metabolic Reprogramming of Double-Negative, Naïve, and Transitional Cell Subsets and Refines Molecular Classification in Sjögren's Disease

Midostaurin response in AML is shaped by a progenitor-like cell state selectively targeted by SMAC mimetics

Struyf, Nona; Gezelius, Henrik; Lundmark, Anders; Barizza, Chiara et al.

Ingår i npj Precision Oncology, 2026

• DOI för Midostaurin response in AML is shaped by a progenitor-like cell state selectively targeted by SMAC mimetics
• Ladda ner fulltext (pdf) av Midostaurin response in AML is shaped by a progenitor-like cell state selectively targeted by SMAC mimetics

Whole-genome sequencing with AVITI and NovaSeq X Plus reveals comparable performance with contextual biases

Höjer, Pontus; Alneberg, Johannes; Lundin, Pär; Martin, Tom et al.

Ingår i NAR Genomics and Bioinformatics, 2026

• DOI för Whole-genome sequencing with AVITI and NovaSeq X Plus reveals comparable performance with contextual biases
• Ladda ner fulltext (pdf) av Whole-genome sequencing with AVITI and NovaSeq X Plus reveals comparable performance with contextual biases

Author's Response to the Commentary by Raitoharju E et al. on "Epigenome-wide analysis across the development span of pediatric acute lymphoblastic leukemia: backtracking to birth"

Nassar, Farah J.; Cahais, Vincent; McKay, Jill A.; Strathdee, Gordon et al.

Ingår i Molecular Cancer, 2026

• DOI för Author's Response to the Commentary by Raitoharju E et al. on "Epigenome-wide analysis across the development span of pediatric acute lymphoblastic leukemia: backtracking to birth"
• Ladda ner fulltext (pdf) av Author's Response to the Commentary by Raitoharju E et al. on "Epigenome-wide analysis across the development span of pediatric acute lymphoblastic leukemia: backtracking to birth"

An integrative molecular map of pediatric B-cell precursor acute lymphoblastic leukemia

Krali, Olga; Enblad, Anna Pia; Sulyaeva, Julia; Gogishvili, Dea et al.

Ingår i Communications Medicine, 2026

• DOI för An integrative molecular map of pediatric B-cell precursor acute lymphoblastic leukemia
• Ladda ner fulltext (pdf) av An integrative molecular map of pediatric B-cell precursor acute lymphoblastic leukemia

Error Reduction in Leukemia Machine Learning Classification With Conformal Prediction

Lysenkova, Mariya; Zachariah, Dave; Krali, Olga; Nordlund, Jessica

Ingår i JCO Clinical Cancer Informatics, 2025

• DOI för Error Reduction in Leukemia Machine Learning Classification With Conformal Prediction
• Ladda ner fulltext (pdf) av Error Reduction in Leukemia Machine Learning Classification With Conformal Prediction

Ex vivo drug responses and molecular profiles of 597 pediatric acute lymphoblastic leukemia patients

Enblad, Anna Pia; Krali, Olga; Gezelius, Henrik; Lundmark, Anders et al.

Ingår i HemaSphere, 2025

• DOI för Ex vivo drug responses and molecular profiles of 597 pediatric acute lymphoblastic leukemia patients
• Ladda ner fulltext (pdf) av Ex vivo drug responses and molecular profiles of 597 pediatric acute lymphoblastic leukemia patients

Fluctuating DNA methylation tracks cancer evolution at clinical scale

Gabbutt, Calum; Duran-Ferrer, Martí; Grant, Heather E.; Mallo, Diego et al.

Ingår i Nature, s. 764-773, 2025

• DOI för Fluctuating DNA methylation tracks cancer evolution at clinical scale
• Ladda ner fulltext (pdf) av Fluctuating DNA methylation tracks cancer evolution at clinical scale

The potential role of environmentally associated DNA methylation in childhood acute lymphoblastic leukaemia subtypes

Saville, Jessica R.; Russell, Lisa J.; Padget, Kay; Ghantous, Akram et al.

Ingår i International Journal of Cancer, s. 1600-1612, 2025

• DOI för The potential role of environmentally associated DNA methylation in childhood acute lymphoblastic leukaemia subtypes
• Ladda ner fulltext (pdf) av The potential role of environmentally associated DNA methylation in childhood acute lymphoblastic leukaemia subtypes

Genomic determinants of therapy response in ETV6::RUNX1 leukemia

Oksa, Laura; Moisio, Sanni; Maqbool, Khurram; Kramer, Roger et al.

Ingår i Leukemia, s. 2125-2139, 2025

• DOI för Genomic determinants of therapy response in ETV6::RUNX1 leukemia
• Ladda ner fulltext (pdf) av Genomic determinants of therapy response in ETV6::RUNX1 leukemia

A human pan-disease blood atlas of the circulating proteome

Álvez, María Bueno; Bergström, Sofia; Kenrick, Josefin; Johansson, Emil et al.

Ingår i Science, 2025

• DOI för A human pan-disease blood atlas of the circulating proteome

Epigenomic diagnosis and prognosis of Acute Myeloid Leukemia

Marchi, Francisco; Shastri, Vivek M.; Marrero, Richard J.; Nguyen, Nam H. K. et al.

Ingår i Nature Communications, 2025

• DOI för Epigenomic diagnosis and prognosis of Acute Myeloid Leukemia
• Ladda ner fulltext (pdf) av Epigenomic diagnosis and prognosis of Acute Myeloid Leukemia

Exploring a pico-well based scRNA-seq method (HIVE) for simplified processing of equine bronchoalveolar lavage cells

Fegraeus, Kim; Riihimäki, Miia; Nordlund, Jessica; Akula, Srinivas et al.

Ingår i PLOS ONE, 2025

• DOI för Exploring a pico-well based scRNA-seq method (HIVE) for simplified processing of equine bronchoalveolar lavage cells
• Ladda ner fulltext (pdf) av Exploring a pico-well based scRNA-seq method (HIVE) for simplified processing of equine bronchoalveolar lavage cells

A multiomic characterization of the leukemia cell line REH using short- and long-read sequencing

Lysenkova, Mariya; Arvidsson, Gustav; Bunikis, Ignas; Lundmark, Anders et al.

Ingår i Life Science Alliance, 2024

• DOI för A multiomic characterization of the leukemia cell line REH using short- and long-read sequencing
• Ladda ner fulltext (pdf) av A multiomic characterization of the leukemia cell line REH using short- and long-read sequencing

Comparison of high-throughput single-cell RNA-seq methods for ex vivo drug screening

Gezelius, Henrik; Enblad, Anna Pia; Lundmark, Anders; Åberg, Martin et al.

Ingår i NAR Genomics and Bioinformatics, 2024

• DOI för Comparison of high-throughput single-cell RNA-seq methods for ex vivo drug screening
• Ladda ner fulltext (pdf) av Comparison of high-throughput single-cell RNA-seq methods for ex vivo drug screening

Refining risk prediction in pediatric acute lymphoblastic leukemia through DNA methylation profiling

Orgueira, Adrian Mosquera; Krali, Olga; Miguez, Carlos Perez; Raindo, Andres Peleteiro et al.

Ingår i Clinical Epigenetics, 2024

• DOI för Refining risk prediction in pediatric acute lymphoblastic leukemia through DNA methylation profiling
• Ladda ner fulltext (pdf) av Refining risk prediction in pediatric acute lymphoblastic leukemia through DNA methylation profiling

Multi-modal single cell sequencing of B cells in primary Sjögren's Syndrome.

Arvidsson, Gustav; Czarnewski, Paulo; Johansson, Alina; Raine, Amanda et al.

Ingår i Arthritis & Rheumatology, s. 255-267, 2024

• DOI för Multi-modal single cell sequencing of B cells in primary Sjögren's Syndrome.
• Ladda ner fulltext (pdf) av Multi-modal single cell sequencing of B cells in primary Sjögren's Syndrome.

Pushing the boundaries of rare disease diagnostics with the help of the first Undiagnosed Hackathon

Delgado-Vega, Angelica Maria; Höijer, Ida; Corcoran, Pádraic; Lysenkova, Mariya et al.

Ingår i Nature Genetics, s. 2287-2294, 2024

• DOI för Pushing the boundaries of rare disease diagnostics with the help of the first Undiagnosed Hackathon

Epigenome-wide analysis across the development span of pediatric acute lymphoblastic leukemia: backtracking to birth

Ghantous, Akram; Nussle, Semira Gonseth; Nassar, Farah J.; Spitz, Natalia et al.

Ingår i Molecular Cancer, 2024

• DOI för Epigenome-wide analysis across the development span of pediatric acute lymphoblastic leukemia: backtracking to birth
• Ladda ner fulltext (pdf) av Epigenome-wide analysis across the development span of pediatric acute lymphoblastic leukemia: backtracking to birth

BCP neoplasms: same or different?

Nordlund, Jessica

Ingår i Blood, s. 4-6, 2024

• DOI för BCP neoplasms: same or different?

Next generation pan-cancer blood proteome profiling using proximity extension assay

Alvez, Maria Bueno; Edfors, Fredrik; von Feilitzen, Kalle; Zwahlen, Martin et al.

Ingår i Nature Communications, 2023

• DOI för Next generation pan-cancer blood proteome profiling using proximity extension assay
• Ladda ner fulltext (pdf) av Next generation pan-cancer blood proteome profiling using proximity extension assay

Multimodal classification of molecular subtypes in pediatric acute lymphoblastic leukemia

Krali, Olga; Marincevic-Zuniga, Yanara; Arvidsson, Gustav; Enblad, Anna Pia et al.

Ingår i npj Precision Oncology, 2023

• DOI för Multimodal classification of molecular subtypes in pediatric acute lymphoblastic leukemia
• Ladda ner fulltext (pdf) av Multimodal classification of molecular subtypes in pediatric acute lymphoblastic leukemia

Increased MYB alternative promoter usage is associated with relapse in acute lymphoblastic leukemia

Fehr, André; Arvidsson, Gustav; Nordlund, Jessica; Lönnerholm, Gudmar et al.

Ingår i Genes, Chromosomes and Cancer, s. 597-606, 2023

• DOI för Increased MYB alternative promoter usage is associated with relapse in acute lymphoblastic leukemia
• Ladda ner fulltext (pdf) av Increased MYB alternative promoter usage is associated with relapse in acute lymphoblastic leukemia

Quartet DNA reference materials and datasets for comprehensively evaluating germline variant calling performance

Ren, Luyao; Duan, Xiaoke; Dong, Lianhua; Zhang, Rui et al.

Ingår i Genome Biology, 2023

• DOI för Quartet DNA reference materials and datasets for comprehensively evaluating germline variant calling performance
• Ladda ner fulltext (pdf) av Quartet DNA reference materials and datasets for comprehensively evaluating germline variant calling performance

Feasibility to use whole-genome sequencing as a sole diagnostic method to detect genomic aberrations in pediatric B-cell acute lymphoblastic leukemia

Rezayee, Fatemah; Eisfeldt, Jesper; Skaftason, Aron; Ofverholm, Ingegerd et al.

Ingår i Frontiers in Oncology, 2023

• DOI för Feasibility to use whole-genome sequencing as a sole diagnostic method to detect genomic aberrations in pediatric B-cell acute lymphoblastic leukemia
• Ladda ner fulltext (pdf) av Feasibility to use whole-genome sequencing as a sole diagnostic method to detect genomic aberrations in pediatric B-cell acute lymphoblastic leukemia

Long-read whole-genome analysis of human single cells

Hård, Joanna; Mold, Jeff E; Eisfeldt, Jesper; Tellgren-Roth, Christian et al.

Ingår i Nature Communications, 2023

• DOI för Long-read whole-genome analysis of human single cells
• Ladda ner fulltext (pdf) av Long-read whole-genome analysis of human single cells

Genomic, transcriptomic and epigenomic sequencing data of the B-cell leukemia cell line REH

Lysenkova Wiklander, Mariya; Övernäs, Elin; Lagensjö, Johanna; Raine, Amanda et al.

Ingår i BMC Research Notes, 2023

• DOI för Genomic, transcriptomic and epigenomic sequencing data of the B-cell leukemia cell line REH
• Ladda ner fulltext (pdf) av Genomic, transcriptomic and epigenomic sequencing data of the B-cell leukemia cell line REH

Single-cell transcriptomics delineates the immune cell landscape in equine lower airways and reveals upregulation of FKBP5 in horses with asthma.

Riihimäki, Miia; Fegraeus, K. Jaderkvist; Nordlund, Jessica; Waern, Ida et al.

Ingår i Scientific Reports, s. 16261, 2023

• DOI för Single-cell transcriptomics delineates the immune cell landscape in equine lower airways and reveals upregulation of FKBP5 in horses with asthma.
• Ladda ner fulltext (pdf) av Single-cell transcriptomics delineates the immune cell landscape in equine lower airways and reveals upregulation of FKBP5 in horses with asthma.

Transcriptome sequencing of archived lymphoma specimens is feasible and clinically relevant using exome capture technology

Skaftason, Aron; Qu, Ying; Abdulla, Maysaa; Nordlund, Jessica et al.

Ingår i Genes, Chromosomes and Cancer, s. 27-36, 2022

• DOI för Transcriptome sequencing of archived lymphoma specimens is feasible and clinically relevant using exome capture technology
• Ladda ner fulltext (pdf) av Transcriptome sequencing of archived lymphoma specimens is feasible and clinically relevant using exome capture technology

Exome-wide association study to identify rare variants influencing COVID-19 outcomes: Results from the Host Genetics Initiative

Butler-Laporte, Guillaume; Povysil, Gundula; Kosmicki, Jack A; Cirulli, Elizabeth T et al.

Ingår i PLOS Genetics, 2022

• DOI för Exome-wide association study to identify rare variants influencing COVID-19 outcomes: Results from the Host Genetics Initiative
• Ladda ner fulltext (pdf) av Exome-wide association study to identify rare variants influencing COVID-19 outcomes: Results from the Host Genetics Initiative

Next Generation Plasma Proteomics Identifies High-Precision Biomarker Candidates for Ovarian Cancer.

Gyllensten, Ulf B.; Hedlund-Lindberg, Julia; Svensson, Johanna; Manninen, Johanna et al.

Ingår i Cancers, 2022

• DOI för Next Generation Plasma Proteomics Identifies High-Precision Biomarker Candidates for Ovarian Cancer.
• Ladda ner fulltext (pdf) av Next Generation Plasma Proteomics Identifies High-Precision Biomarker Candidates for Ovarian Cancer.

A Study Protocol for Validation and Implementation of Whole-Genome and -Transcriptome Sequencing as a Comprehensive Precision Diagnostic Test in Acute Leukemias

Berglund, Eva Caroline; Barbany, Gisela; Orsmark-Pietras, Christina; Fogelstrand, Linda et al.

Ingår i Frontiers in Medicine, 2022

• DOI för A Study Protocol for Validation and Implementation of Whole-Genome and -Transcriptome Sequencing as a Comprehensive Precision Diagnostic Test in Acute Leukemias
• Ladda ner fulltext (pdf) av A Study Protocol for Validation and Implementation of Whole-Genome and -Transcriptome Sequencing as a Comprehensive Precision Diagnostic Test in Acute Leukemias

scSPLAT, a scalable plate-based protocol for single cell WGBS library preparation

Raine, Amanda; Lundmark, Anders; Annett, Alva; Wiman, Ann-Christin et al.

Ingår i Scientific Reports, 2022

• DOI för scSPLAT, a scalable plate-based protocol for single cell WGBS library preparation
• Ladda ner fulltext (pdf) av scSPLAT, a scalable plate-based protocol for single cell WGBS library preparation

Tackling the translational challenges of multi-omics research in the realm of European personalised medicine: A workshop report

Oldoni, Emanuela; Saunders, Gary; Bietrix, Florence; Garcia Bermejo, Maria Laura et al.

Ingår i Frontiers in Molecular Biosciences, 2022

• DOI för Tackling the translational challenges of multi-omics research in the realm of European personalised medicine: A workshop report
• Ladda ner fulltext (pdf) av Tackling the translational challenges of multi-omics research in the realm of European personalised medicine: A workshop report

Expression of BCL6 in paediatric B-cell acute lymphoblastic leukaemia and association with prognosis

Mäkinen, Artturi; Nikkilä, Atte; Mehtonen, Juha; Teppo, Susanna et al.

Ingår i Pathology, s. 875-882, 2021

• DOI för Expression of BCL6 in paediatric B-cell acute lymphoblastic leukaemia and association with prognosis
• Ladda ner fulltext (pdf) av Expression of BCL6 in paediatric B-cell acute lymphoblastic leukaemia and association with prognosis

Leukocytes with chromosome Y loss have reduced abundance of the cell surface immunoprotein CD99

Mattisson, Jonas; Danielsson, Marcus; Hammond, Maria; Davies, Hanna et al.

Ingår i Scientific Reports, 2021

• DOI för Leukocytes with chromosome Y loss have reduced abundance of the cell surface immunoprotein CD99
• Ladda ner fulltext (pdf) av Leukocytes with chromosome Y loss have reduced abundance of the cell surface immunoprotein CD99

DNA Methylation Signatures Predict Cytogenetic Subtype and Outcome in Pediatric Acute Myeloid Leukemia (AML)

Krali, Olga; Palle, J; Bäcklin, Christofer; Abrahamsson, Jonas et al.

Ingår i Genes, 2021

• DOI för DNA Methylation Signatures Predict Cytogenetic Subtype and Outcome in Pediatric Acute Myeloid Leukemia (AML)
• Ladda ner fulltext (pdf) av DNA Methylation Signatures Predict Cytogenetic Subtype and Outcome in Pediatric Acute Myeloid Leukemia (AML)

Immune cells lacking Y chromosome show dysregulation of autosomal gene expression

Dumanski, Jan P.; Halvardson, Jonatan; Davies, Hanna; Rychlicka-Buniowska, Edyta et al.

Ingår i Cellular and Molecular Life Sciences (CMLS), s. 4019-4033, 2021

• DOI för Immune cells lacking Y chromosome show dysregulation of autosomal gene expression
• Ladda ner fulltext (pdf) av Immune cells lacking Y chromosome show dysregulation of autosomal gene expression

Toward best practice in cancer mutation detection with whole-genome and whole-exome sequencing

Xiao, Wenming; Ren, Luyao; Chen, Zhong; Fang, Li Tai et al.

Ingår i Nature Biotechnology, s. 1141-1150, 2021

• DOI för Toward best practice in cancer mutation detection with whole-genome and whole-exome sequencing

Whole genome and exome sequencing reference datasets from a multi-center and cross-platform benchmark study

Zhao, Yongmei; Fang, Li Tai; Shen, Tsai-wei; Choudhari, Sulbha et al.

Ingår i Scientific Data, 2021

• DOI för Whole genome and exome sequencing reference datasets from a multi-center and cross-platform benchmark study
• Ladda ner fulltext (pdf) av Whole genome and exome sequencing reference datasets from a multi-center and cross-platform benchmark study

The SEQC2 epigenomics quality control (EpiQC) study

Foox, Jonathan; Nordlund, Jessica; Lalancette, Claudia; Gong, Ting et al.

Ingår i Genome Biology, 2021

• DOI för The SEQC2 epigenomics quality control (EpiQC) study
• Ladda ner fulltext (pdf) av The SEQC2 epigenomics quality control (EpiQC) study

RAG1 co-expression signature identifies ETV6-RUNX1-like B-cell precursor acute lymphoblastic leukemia in children

Chen, Dongfeng; Camponeschi, Alessandro; Nordlund, Jessica; Marincevic-Zuniga, Yanara et al.

Ingår i Cancer Medicine, s. 3997-4003, 2021

• DOI för RAG1 co-expression signature identifies ETV6-RUNX1-like B-cell precursor acute lymphoblastic leukemia in children
• Ladda ner fulltext (pdf) av RAG1 co-expression signature identifies ETV6-RUNX1-like B-cell precursor acute lymphoblastic leukemia in children

Mutational patterns and clonal evolution from diagnosis to relapse in pediatric acute lymphoblastic leukemia

Sayyab, Shumaila; Lundmark, Anders; Larsson, Malin; Ringner, Markus et al.

Ingår i Scientific Reports, 2021

• DOI för Mutational patterns and clonal evolution from diagnosis to relapse in pediatric acute lymphoblastic leukemia
• Ladda ner fulltext (pdf) av Mutational patterns and clonal evolution from diagnosis to relapse in pediatric acute lymphoblastic leukemia

Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-genome sequencing

Fang, Li Tai; Zhu, Bin; Zhao, Yongmei; Chen, Wanqiu et al.

Ingår i Nature Biotechnology, s. 1151-1160, 2021

• DOI för Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-genome sequencing

The proliferative history shapes the DNA methylome of B-cell tumors and predicts clinical outcome

Duran-Ferrer, Marti; Clot, Guillem; Nadeu, Ferran; Beekman, Renee et al.

Ingår i Nature Cancer, s. 1066-1081, 2020

• DOI för The proliferative history shapes the DNA methylome of B-cell tumors and predicts clinical outcome

Refined detection and phasing of structural aberrations in pediatric acute lymphoblastic leukemia by linked-read whole-genome sequencing

Nordlund, Jessica; Marincevic-Zuniga, Yanara; Cavelier, Lucia; Raine, Amanda et al.

Ingår i Scientific Reports, 2020

• DOI för Refined detection and phasing of structural aberrations in pediatric acute lymphoblastic leukemia by linked-read whole-genome sequencing
• Ladda ner fulltext (pdf) av Refined detection and phasing of structural aberrations in pediatric acute lymphoblastic leukemia by linked-read whole-genome sequencing

Genome assembly of the basket willow, Salix viminalis, reveals earliest stages of sex chromosome expansion

Almeida, Pedro; Proux-Wera, Estelle; Churcher, Allison; Soler, Lucile et al.

Ingår i BMC Biology, 2020

• DOI för Genome assembly of the basket willow, Salix viminalis, reveals earliest stages of sex chromosome expansion
• Ladda ner fulltext (pdf) av Genome assembly of the basket willow, Salix viminalis, reveals earliest stages of sex chromosome expansion

Overexpression of chromatin remodeling and tyrosine kinase genes in iAMP21-positive acute lymphoblastic leukemia

Ivanov Öfverholm, I.; Zachariadis, V.; Taylan, F.; Marincevic-Zuniga, Yanara et al.

Ingår i Leukemia and Lymphoma, s. 604-613, 2020

• DOI för Overexpression of chromatin remodeling and tyrosine kinase genes in iAMP21-positive acute lymphoblastic leukemia
• Ladda ner fulltext (pdf) av Overexpression of chromatin remodeling and tyrosine kinase genes in iAMP21-positive acute lymphoblastic leukemia

Clinicopathological features and prognostic value of SOX11 in childhood acute lymphoblastic leukemia

Gronroos, Toni; Makinen, Artturi; Laukkanen, Saara; Mehtonen, Juha et al.

Ingår i Scientific Reports, 2020

• DOI för Clinicopathological features and prognostic value of SOX11 in childhood acute lymphoblastic leukemia
• Ladda ner fulltext (pdf) av Clinicopathological features and prognostic value of SOX11 in childhood acute lymphoblastic leukemia

Association of aberrant ASNS imprinting with asparaginase sensitivity and chromosomal abnormality in childhood BCP-ALL

Watanabe, A.; Miyake, K.; Nordlund, Jessica; Syvänen, Ann-Christine et al.

Ingår i Blood, s. 2319-2333, 2020

• DOI för Association of aberrant ASNS imprinting with asparaginase sensitivity and chromosomal abnormality in childhood BCP-ALL

Transcriptome and Proteome Profiling of Neural Induced Pluripotent Stem Cells from Individuals with Down Syndrome Disclose Dynamic Dysregulations of Key Pathways and Cellular Functions

Sobol, Maria; Klar, Joakim; Laan, Loora; Shahsavani, Mansoureh et al.

Ingår i Molecular Neurobiology, s. 7113-7127, 2019

• DOI för Transcriptome and Proteome Profiling of Neural Induced Pluripotent Stem Cells from Individuals with Down Syndrome Disclose Dynamic Dysregulations of Key Pathways and Cellular Functions
• Ladda ner fulltext (pdf) av Transcriptome and Proteome Profiling of Neural Induced Pluripotent Stem Cells from Individuals with Down Syndrome Disclose Dynamic Dysregulations of Key Pathways and Cellular Functions

CD99 expression is strongly associated with clinical outcome in children with B-cell precursor acute lymphoblastic leukaemia

Chen, Dongfeng; Camponeschi, Alessandro; Wu, Qingqing; Gerasimcik, Natalija et al.

Ingår i British Journal of Haematology, s. 418-423, 2019

• DOI för CD99 expression is strongly associated with clinical outcome in children with B-cell precursor acute lymphoblastic leukaemia

De Novo Assembly of Two Swedish Genomes Reveals Missing Segments from the Human GRCh38 Reference and Improves Variant Calling of Population-Scale Sequencing Data

Ameur, Adam; Che, Huiwen; Martin, Marcel; Bunikis, Ignas et al.

Ingår i Genes, 2018

• DOI för De Novo Assembly of Two Swedish Genomes Reveals Missing Segments from the Human GRCh38 Reference and Improves Variant Calling of Population-Scale Sequencing Data
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Data quality of whole genome bisulfite sequencing on Illumina platforms

Raine, Amanda; Liljedahl, Ulrika; Nordlund, Jessica

Ingår i PLOS ONE, 2018

• DOI för Data quality of whole genome bisulfite sequencing on Illumina platforms
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DNA methylation holds prognostic information in relapsed precursor B-cell acute lymphoblastic leukemia

Borssen, Magnus; Nordlund, Jessica; Haider, Zahra; Landfors, Mattias et al.

Ingår i Clinical Epigenetics, 2018

• DOI för DNA methylation holds prognostic information in relapsed precursor B-cell acute lymphoblastic leukemia
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DNA methylation profiling of pediatric B-cell lymphoblastic leukemia with KMT2A rearrangement identifies hypomethylation at enhancer sites

Bergmann, Anke K.; Castellano, Giancarlo; Alten, Julia; Ammerpohl, Ole et al.

Ingår i Pediatric Blood & Cancer, 2017

• DOI för DNA methylation profiling of pediatric B-cell lymphoblastic leukemia with KMT2A rearrangement identifies hypomethylation at enhancer sites

CD27 expression and its association with clinical outcome in children and adults with pro-B acute lymphoblastic leukemia

Chen, D.; Gerasimcik, N.; Camponeschi, A.; Tan, Y. et al.

Ingår i Blood Cancer Journal, 2017

• DOI för CD27 expression and its association with clinical outcome in children and adults with pro-B acute lymphoblastic leukemia
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Transcriptome sequencing in pediatric acute lymphoblastic leukemia identifies fusion genes associated with distinct DNA methylation profiles

Marincevic-Zuniga, Yanara; Dahlberg, Johan; Nilsson, Sara; Raine, Amanda et al.

Ingår i Journal of Hematology & Oncology, 2017

• DOI för Transcriptome sequencing in pediatric acute lymphoblastic leukemia identifies fusion genes associated with distinct DNA methylation profiles
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SPlinted Ligation Adapter Tagging (SPLAT), a novel library preparation method for whole genome bisulphite sequencing

Raine, Amanda; Manlig, Erika; Wahlberg, Per; Syvänen, Ann-Christine et al.

Ingår i Nucleic Acids Research, 2017

• DOI för SPlinted Ligation Adapter Tagging (SPLAT), a novel library preparation method for whole genome bisulphite sequencing
• Ladda ner fulltext (pdf) av SPlinted Ligation Adapter Tagging (SPLAT), a novel library preparation method for whole genome bisulphite sequencing

Genome-wide DNA methylation analysis in multiple tissues in primary Sjögren's syndrome reveals regulatory effects at interferon-induced genes

Imgenberg-Kreuz, Juliana; Sandling, Johanna K.; Almlöf, Jonas Carlsson; Nordlund, Jessica et al.

Ingår i Annals of the Rheumatic Diseases, s. 2029-2036, 2016

• DOI för Genome-wide DNA methylation analysis in multiple tissues in primary Sjögren's syndrome reveals regulatory effects at interferon-induced genes
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DNA methylome analysis of acute lymphoblastic leukemia cells reveals stochastic de novo DNA methylation in CpG islands

Wahlberg, Per; Lundmark, Anders; Nordlund, Jessica; Busche, Stephan et al.

Ingår i Epigenomics, s. 1367-1387, 2016

• DOI för DNA methylome analysis of acute lymphoblastic leukemia cells reveals stochastic de novo DNA methylation in CpG islands
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Deep targeted sequencing in pediatric acute lymphoblastic leukemia unveils distinct mutational patterns between genetic subtypes and novel relapse-associated genes

Lindqvist, C. Mårten; Lundmark, Anders; Nordlund, Jessica; Freyhult, Eva et al.

Ingår i Oncotarget, s. 64071-64088, 2016

• DOI för Deep targeted sequencing in pediatric acute lymphoblastic leukemia unveils distinct mutational patterns between genetic subtypes and novel relapse-associated genes

PAX5-ESRRB is a recurrent fusion gene in B-cell precursor pediatric acute lymphoblastic leukemia

Marincevic-Zuniga, Yanara; Zachariadis, Vasilios; Cavelier, Lucia; Castor, Anders et al.

Ingår i Haematologica, 2016

• DOI för PAX5-ESRRB is a recurrent fusion gene in B-cell precursor pediatric acute lymphoblastic leukemia

CopyNumber450kCancer: baseline correction for accurate copy number calling from the 450k methylation array

Marzouka, Nour-al-dain; Nordlund, Jessica; Bäcklin, Christofer L.; Lönnerholm, Gudmar et al.

Ingår i Bioinformatics, s. 1080-1082, 2016

• DOI för CopyNumber450kCancer: baseline correction for accurate copy number calling from the 450k methylation array
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Hypomethylation in Enhancer and Promoter Regions of Interferon Regulated Genes in Multiple Tissues Is Associated with Primary Sjogren's Syndrome

Imgenberg-Kreuz, Juliana; Sandling, Johanna K.; Almlöf, Jonas Carlsson; Nordlund, Jessica et al.

Ingår i Arthritis & Rheumatology, 2015

• DOI för Hypomethylation in Enhancer and Promoter Regions of Interferon Regulated Genes in Multiple Tissues Is Associated with Primary Sjogren's Syndrome

The Mutational Landscape in Pediatric Acute Lymphoblastic Leukemia Deciphered by Whole Genome Sequencing

Lindqvist, C Mårten; Nordlund, Jessica; Ekman, Diana; Johansson, Anna et al.

Ingår i Human Mutation, s. 118-128, 2015

• DOI för The Mutational Landscape in Pediatric Acute Lymphoblastic Leukemia Deciphered by Whole Genome Sequencing

The clinical impact of IKZF1 deletions in paediatric B-cell precursor acute lymphoblastic leukaemia is independent of minimal residual disease stratification in Nordic Society for Paediatric Haematology and Oncology treatment protocols used between 1992 and 2013

Olsson, Linda; Oefverholm, Ingegerd Ivanov; Noren-Nystroem, Ulrika; Zachariadis, Vasilios et al.

Ingår i British Journal of Haematology, s. 847-858, 2015

• DOI för The clinical impact of IKZF1 deletions in paediatric B-cell precursor acute lymphoblastic leukaemia is independent of minimal residual disease stratification in Nordic Society for Paediatric Haematology and Oncology treatment protocols used between 1992 and 2013

DNA methylation-based subtype prediction for pediatric acute lymphoblastic leukemia

Nordlund, Jessica; Bäcklin, Christofer; Zachariadis, Vasilios; Cavelier, Lucia et al.

Ingår i Clinical Epigenetics, 2015

• DOI för DNA methylation-based subtype prediction for pediatric acute lymphoblastic leukemia
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Genome-Wide DNA Methylation Analysis of CD19+B Cells in Primary Sjogren's Syndrome

Nordmark, Gunnel; Imgenberg-Kreuz, Juliana; Almlöf, Jonas Carlsson; Nordlund, Jessica et al.

Ingår i Arthritis & Rheumatology, 2014

Bioinformatic description of immunotherapy targets for pediatric T-cell leukemia and the impact of normal gene sets used for comparison

Orentas, Rimas J; Nordlund, Jessica; He, Jianbin; Sindiri, Sivasish et al.

Ingår i Frontiers in Oncology, 2014

• DOI för Bioinformatic description of immunotherapy targets for pediatric T-cell leukemia and the impact of normal gene sets used for comparison

Prognostic Impact of IKZF1 Deletions in Pediatric B-Cell Precursor Acute Lymphoblastic Leukemia Treated According to Nopho Protocols - the Swedish Experience

Ofverholm, I. Ivanov; Olsson, L.; Noren-Nystrom, U.; Forestier, E. et al.

Ingår i Haematologica, s. 9-9, 2014

Genome-wide signatures of differential DNA methylation in pediatric acute lymphoblastic leukemia

Nordlund, Jessica; Bäcklin, Christofer L; Wahlberg, Per; Busche, Stephan et al.

Ingår i Genome Biology, 2013

• DOI för Genome-wide signatures of differential DNA methylation in pediatric acute lymphoblastic leukemia

Accurate detection of subclonal single nucleotide variants in whole genome amplified and pooled cancer samples using HaloPlex target enrichment

Berglund, Eva C; Lindqvist, Carl Mårten; Hayat, Shahina; Overnäs, Elin et al.

Ingår i BMC Genomics, s. 856, 2013

• DOI för Accurate detection of subclonal single nucleotide variants in whole genome amplified and pooled cancer samples using HaloPlex target enrichment

DNA Methylation Analysis of Bone Marrow Cells at Diagnosis of Acute Lymphoblastic Leukemia and at Remission

Nordlund, Jessica; Milani, Lili; Lundmark, Anders; Lönnerholm, Gudmar et al.

Ingår i PLOS ONE, 2012

• DOI för DNA Methylation Analysis of Bone Marrow Cells at Diagnosis of Acute Lymphoblastic Leukemia and at Remission
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The DNA Methylation Landscape of Paediatric Acute Lymphoblastic Leukemia

Nordlund, Jessica; Backlin, Carin; Wahlberg, Per; Forestier, E. et al.

Ingår i European Journal of Cancer, 2012

• DOI för The DNA Methylation Landscape of Paediatric Acute Lymphoblastic Leukemia

Digital gene expression profiling of primary acute lymphoblastic leukemia cells

Nordlund, Jessica; Kiialainen, Anna; Karlberg, Olof; Berglund, Eva C et al.

Ingår i Leukemia, s. 1218-1227, 2012

• DOI för Digital gene expression profiling of primary acute lymphoblastic leukemia cells

DNA methylation for subtype classification and prediction of treatment outcome in patients with childhood acute lymphoblastic leukemia

Milani, Lili; Lundmark, Anders; Kiialainen, Anna; Nordlund, Jessica et al.

Ingår i Blood, s. 1214-1225, 2010

• DOI för DNA methylation for subtype classification and prediction of treatment outcome in patients with childhood acute lymphoblastic leukemia

Allele-specific gene expression patterns in primary leukemic cells reveal regulation of gene expression by CpG site methylation

Milani, Lili; Lundmark, Anders; Nordlund, Jessica; Kiialainen, Anna et al.

Ingår i Genome Research, s. 1-11, 2009

• DOI för Allele-specific gene expression patterns in primary leukemic cells reveal regulation of gene expression by CpG site methylation

Multi-omics Quality Assessment in Personalized Medicine Through European Infrastructure for Translational Medicine (EATRIS): An Overview

Alonso-Andrés, Patricia; Baldazzi, Davide; Chen, Qiaochu; Conde Moreno, Elisa et al.

Ingår i Phenomics, s. 311-325, 2025

• DOI för Multi-omics Quality Assessment in Personalized Medicine Through European Infrastructure for Translational Medicine (EATRIS): An Overview
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Epigenetics in pediatric acute lymphoblastic leukemia

Nordlund, Jessica; Syvänen, Ann-Christine

Ingår i Seminars in Cancer Biology, s. 129-138, 2018

• DOI för Epigenetics in pediatric acute lymphoblastic leukemia
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Gene Expression and DNA Methylation in Acute Lymphoblastic Leukemia

Nordlund, Jessica

2012

• Ladda ner fulltext (pdf) av Gene Expression and DNA Methylation in Acute Lymphoblastic Leukemia

Chapter Eleven: Advances in whole genome methylomic sequencing

Nordlund, Jessica

Ingår i Epigenetics Methods, s. 213-233, Elsevier, 2020

• DOI för Chapter Eleven: Advances in whole genome methylomic sequencing

Computational and Statistical Analysis of Array-Based DNA Methylation Data

Nordlund, Jessica; Backlin, Carin; Raine, Amanda

Ingår i Cancer Bioinformatics, s. 173-191, Springer, 2019

• DOI för Computational and Statistical Analysis of Array-Based DNA Methylation Data

DNA methylation classification in combination with RNA-sequencing for subtype discovery in pediatric B-cell precursor acute lymphoblastic leukemia

Marincevic-Zuniga, Yanara; Nystedt, Sara; Nilsson, Sara; Almlöf, Jonas Carlsson et al.

Refined detection and phasing of structural aberrations in pediatric acute lymphoblastic leukemia with linked-read whole genome sequencing

Nordlund, Jessica; Marincevic-Zuniga, Yanara; Cavelier, Lucia; Raine, Amanda et al.

Identification of somatic single nucleotide variants inleukemia by targeted sequencing of non-indexed overlapping pools

Lindqvist, Carl Mårten; Dahlberg, Johan; Raine, Amanda; Övernäs, Elin et al.

The circulating blood proteome of childhood acute leukemia

Enblad, Anna Pia; Globisch, Maria A; Gogishvili, Dea; Tuononen, Tiina et al.

Functional Phenotyping Reveals Treatment-Response Heterogeneity Across Molecular Subtypes of Pediatric BCP-ALL

Enblad, Anna Pia; Krali, Olga; Lundmark, Anders; Lysenkova Wiklander, Mariya et al.

PALLAS10k:  a dual-modal framework for acute leukemia machine learning classification using gene expression and DNA methylation data

Lysenkova Wiklander, Mariya; Dizdarevic, Emma; Krali, Olga; Zachariah, Dave et al.