Nordlund J

Family name	Nordlund
Given name	Jessica
Initials	J
ORCID	ORCID 0000-0001-8699-9959
Affiliations	Department of Medical Sciences, Uppsala University, Sweden.

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

Delgado-Vega AM, Cederroth H, Taylan F, ..., Cederroth M, Nordgren A

Nat. Genet. 56 (11) 2287-2294 [2024-11-00; online 2024-10-22]

Bioinformatics Support for Computational Resources [Service] Clinical Genomics Gothenburg [Service] Clinical Genomics Stockholm [Service] Clinical Genomics Uppsala [Collaborative] NGI Long read [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] NGI Uppsala (Uppsala Genome Center) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

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

Lysenkova Wiklander M, Arvidsson G, Bunikis I, ..., Ameur A, Nordlund J

Life Sci. Alliance 7 (8) - [2024-08-00; online 2024-05-22]

Bioinformatics Support for Computational Resources [Service] NGI Long read [Collaborative] NGI Short read [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]

PubMed DOI Crossref

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

Gezelius H, Enblad AP, Lundmark A, ..., Andersson C, Nordlund J

NAR Genom Bioinform 6 (1) lqae001 [2024-03-00; online 2024-01-29]

Bioinformatics Support for Computational Resources [Service] NGI Short read [Technology development] NGI Single cell [Technology development] NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]

PubMed DOI Crossref

Multimodal Single-Cell Sequencing of B Cells in Primary Sjögren's Syndrome.

Arvidsson G, Czarnewski P, Johansson A, ..., Nordmark G, Syvänen A

Arthritis & rheumatology (Hoboken, N.J.) 76 (2) 255-267 [2024-02-00; online 2023-12-18]

Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Short read [Service] NGI Single cell [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Multimodal classification of molecular subtypes in pediatric acute lymphoblastic leukemia.

Krali O, Marincevic-Zuniga Y, Arvidsson G, ..., Syvänen AC, Nordlund J

NPJ Precis Oncol 7 (1) 131 [2023-12-08; online 2023-12-08]

Clinical Genomics Stockholm [Service] NGI SNP genotyping [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Long-read whole-genome analysis of human single cells.

Hård J, Mold JE, Eisfeldt J, ..., Michaëlsson J, Ameur A

Nat Commun 14 (1) 5164 [2023-08-24; online 2023-08-24]

Bioinformatics Support for Computational Resources [Service] NGI Long read [Technology development] NGI Single cell [Technology development] NGI Stockholm (Genomics Applications) [Collaborative] NGI Uppsala (Uppsala Genome Center) [Technology development] National Genomics Infrastructure [Technology development]

PubMed DOI Crossref

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

Álvez MB, Edfors F, von Feilitzen K, ..., Fagerberg L, Uhlén M

Nat Commun 14 (1) 4308 [2023-07-18; online 2023-07-18]

Affinity Proteomics Uppsala [Collaborative] Bioinformatics Support for Computational Resources [Service] NGI Proteomics [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]

PubMed DOI Crossref

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

Butler-Laporte G, Povysil G, Kosmicki JA, ..., Ferreira MAR, Richards JB

PLoS Genet. 18 (11) e1010367 [2022-11-00; online 2022-11-03]

NGI Short read [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]

PubMed DOI Crossref

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

Gyllensten U, Hedlund-Lindberg J, Svensson J, ..., Åberg M, Enroth S

Cancers (Basel) 14 (7) - [2022-03-30; online 2022-03-30]

Affinity Proteomics Uppsala [Collaborative] NGI Proteomics [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]

PubMed DOI Crossref

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

Krali O, Palle J, Bäcklin CL, ..., Zeller B, Nordlund J

Genes 12 (6) 895 [2021-06-10; online 2021-06-10]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]

PubMed DOI Crossref

Immune cells lacking Y chromosome show dysregulation of autosomal gene expression.

Dumanski JP, Halvardson J, Davies H, ..., Ryś J, Forsberg LA

Cell. Mol. Life Sci. 78 (8) 4019-4033 [2021-04-00; online 2021-04-10]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] NGI Uppsala (Uppsala Genome Center) [Collaborative] National Genomics Infrastructure [Collaborative]

PubMed DOI Crossref

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

Watanabe A, Miyake K, Nordlund J, ..., Sugita K, Inukai T

Blood 136 (20) 2319-2333 [2020-11-12; online 2020-06-24]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

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

Almeida P, Proux-Wera E, Churcher A, ..., Berlin S, Mank JE

BMC Biol. 18 (1) 78 [2020-06-30; online 2020-06-30]

Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]

PubMed DOI Crossref

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

Ivanov Öfverholm I, Zachariadis V, Taylan F, ..., Nordlund J, Barbany G

Leuk. Lymphoma 61 (3) 604-613 [2020-03-00; online 2019-10-22]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]

PubMed DOI Crossref

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

Nordlund J, Marincevic-Zuniga Y, Cavelier L, ..., Lönnerholm G, Syvänen AC

Sci Rep 10 (1) 2512 [2020-02-13; online 2020-02-13]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]

PubMed DOI Crossref

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

Grönroos T, Mäkinen A, Laukkanen S, ..., Heinäniemi M, Lohi O

Sci Rep 10 (1) 2043 [2020-02-06; online 2020-02-06]

NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

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 M, Klar J, Laan L, ..., Falk A, Dahl N

Mol Neurobiol 56 (10) 7113-7127 [2019-10-00; online 2019-04-13]

Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]

PubMed DOI Crossref

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

Chen D, Camponeschi A, Wu Q, ..., Fogelstrand L, Mårtensson IL

Br. J. Haematol. 184 (3) 418-423 [2019-02-00; online 2018-11-28]

NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Computational and Statistical Analysis of Array-Based DNA Methylation Data.

Nordlund J, Bäcklin C, Raine A

Methods Mol. Biol. 1878 (-) 173-191 [2018-11-01; online 2018-11-01]

NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]

PubMed DOI Crossref

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 A, Che H, Martin M, ..., Feuk L, Gyllensten U

Genes 9 (10) 486 [2018-10-09; online 2018-10-09]

Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]

PubMed DOI Crossref

Epigenetics in pediatric acute lymphoblastic leukemia.

Nordlund J, Syvänen AC

Semin. Cancer Biol. 51 (-) 129-138 [2018-08-00; online 2017-09-05]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Transcription profiling of peripheral B cells in antibody-positive primary Sjögren's syndrome reveals upregulated expression of CX3CR1 and a type I and type II interferon signature.

Imgenberg-Kreuz J, Sandling JK, Björk A, ..., Syvänen AC, Nordmark G

Scand. J. Immunol. 87 (5) e12662 [2018-05-00; online 2018-04-15]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Data quality of whole genome bisulfite sequencing on Illumina platforms.

Raine A, Liljedahl U, Nordlund J

PLoS ONE 13 (4) e0195972 [2018-04-18; online 2018-04-18]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]

PubMed DOI Crossref

DNA methylation holds prognostic information in relapsed precursor B-cell acute lymphoblastic leukemia.

Borssén M, Nordlund J, Haider Z, ..., Lönnerholm G, Degerman S

Clin Epigenetics 10 (-) 31 [2018-03-05; online 2018-03-05]

NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

Transcriptome sequencing in pediatric acute lymphoblastic leukemia identifies fusion genes associated with distinct DNA methylation profiles.

Marincevic-Zuniga Y, Dahlberg J, Nilsson S, ..., Nordlund J, Syvänen AC

J Hematol Oncol 10 (1) 148 [2017-08-14; online 2017-08-14]

Bioinformatics Support for Computational Resources [Service] Clinical Genomics Uppsala [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Service] National Genomics Infrastructure [Service]

PubMed DOI Crossref

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

Raine A, Manlig E, Wahlberg P, Syvänen AC, Nordlund J

Nucleic Acids Res. 45 (6) e36 [2017-04-07; online 2016-12-03]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]

PubMed DOI Crossref

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

Bergmann AK, Castellano G, Alten J, ..., Schrappe M, Siebert R

Pediatr Blood Cancer 64 (3) - [2017-03-00; online 2016-10-27]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]

PubMed DOI Crossref

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

Imgenberg-Kreuz J, Sandling JK, Almlöf JC, ..., Syvänen AC, Nordmark G

Ann. Rheum. Dis. 75 (11) 2029-2036 [2016-11-00; online 2016-02-08]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]

PubMed DOI Crossref

Genome-wide repression of eRNA and target gene loci by the ETV6-RUNX1 fusion in acute leukemia.

Teppo S, Laukkanen S, Liuksiala T, ..., Heinäniemi M, Lohi O

Genome Res. 26 (11) 1468-1477 [2016-11-00; online 2016-09-12]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]

PubMed DOI Crossref

DNA methylome analysis of acute lymphoblastic leukemia cells reveals stochastic de novo DNA methylation in CpG islands.

Wahlberg P, Lundmark A, Nordlund J, ..., Lönnerholm G, Syvänen AC

Epigenomics 8 (10) 1367-1387 [2016-10-00; online 2016-08-23]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]

PubMed DOI Crossref

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

Lindqvist CM, Lundmark A, Nordlund J, ..., Berglund EC, Syvänen AC

Oncotarget 7 (39) 64071-64088 [2016-09-27; online 2016-09-04]

Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support and Infrastructure [Collaborative] Bioinformatics Support for Computational Resources [Service] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]

PubMed DOI Crossref

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

Marzouka NA, Nordlund J, Bäcklin CL, ..., Syvänen AC, Carlsson Almlöf J

Bioinformatics 32 (7) 1080-1082 [2016-04-01; online 2015-11-09]

Bioinformatics Support for Computational Resources [Service] NGI Uppsala (SNP&SEQ Technology Platform) [Technology development] National Genomics Infrastructure [Technology development]

PubMed DOI Crossref

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

Marincevic-Zuniga Y, Zachariadis V, Cavelier L, ..., Syvänen AC, Nordlund J

Haematologica 101 (1) e20-e23 [2016-01-00; online 2015-10-22]

Bioinformatics Support for Computational Resources [Service] Clinical Genomics Uppsala [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) [Collaborative] National Genomics Infrastructure [Collaborative]

PubMed DOI Crossref

DNA methylation-based subtype prediction for pediatric acute lymphoblastic leukemia.

Nordlund J, Bäcklin CL, Zachariadis V, ..., Forestier E, Syvänen AC

Clin Epigenetics 7 (-) 11 [2015-02-17; online 2015-02-17]

NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure

PubMed DOI Crossref

The mutational landscape in pediatric acute lymphoblastic leukemia deciphered by whole genome sequencing.

Lindqvist CM, Nordlund J, Ekman D, ..., Syvänen AC, Berglund EC

Hum. Mutat. 36 (1) 118-128 [2015-01-00; online 2014-10-31]

Bioinformatics Long-term Support WABI [Collaborative] Bioinformatics Support, Infrastructure and Training [Collaborative] NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure

PubMed DOI Crossref

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

Berglund EC, Lindqvist CM, Hayat S, ..., Lönnerholm G, Syvänen AC

BMC Genomics 14 (-) 856 [2013-12-05; online 2013-12-05]

NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure

PubMed DOI Crossref

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

Nordlund J, Bäcklin CL, Wahlberg P, ..., Lönnerholm G, Syvänen AC

Genome Biol. 14 (9) r105 [2013-09-24; online 2013-09-24]

NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure

PubMed DOI Crossref

Digital gene expression profiling of primary acute lymphoblastic leukemia cells.

Nordlund J, Kiialainen A, Karlberg O, ..., Lönnerholm G, Syvänen AC

Leukemia 26 (6) 1218-1227 [2012-06-00; online 2011-12-16]

Array and Analysis Facility NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure

PubMed DOI Crossref

DNA methylation analysis of bone marrow cells at diagnosis of acute lymphoblastic leukemia and at remission.

Nordlund J, Milani L, Lundmark A, Lönnerholm G, Syvänen AC

PLoS ONE 7 (4) e34513 [2012-04-06; online 2012-04-06]

NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure

PubMed DOI Crossref

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

Milani L, Lundmark A, Kiialainen A, ..., Lönnerholm G, Syvänen AC

Blood 115 (6) 1214-1225 [2010-02-11; online 2009-11-25]

NGI Uppsala (SNP&SEQ Technology Platform) National Genomics Infrastructure

Nordlund J

40 publications