Jessica Nordlund

This paper identifies an IFN-α signature in B cells of Sjögren's disease patients, revealing metabolic reprogramming and refining molecular classification.

upSPLAT reduces library preparation costs by 10-fold through early barcoding and single-stranded ligation, enabling cost-effective, high-plex sequencing across diverse DNA inputs.

The paper compares variant calling performance between Illumina NovaSeq X Plus and Element AVITI sequencing platforms using whole genome sequencing of human tumor cell lines, finding comparable results with minor differences in specific genomic contexts.

This study compares two WGA kits for single-cell genome analysis, finding that PTA/ResolveDNA outperforms MDA/REPLI-g in quality metrics and CNV detection.

This study applies conformal prediction to reduce false negative rates in leukemia subtype classification using RNA-seq data.

This study evaluates the HIVE scRNA-seq method for processing equine BAL cells, finding it identifies major cell types but underrepresents T cells and overrepresents macrophages, with potential for improvement.

The paper presents a comprehensive multi-omics dataset of healthy individuals, revealing sex and age influences and providing reference ranges for omics features.

This study uses spatial proteomics to analyze changes in leukemia cell surface proteins after fludarabine treatment, identifying proteins and interactions that may contribute to chemotherapy resistance.

The paper compares three scRNA-seq methods for ex vivo drug screening in ALL cells, finding consistent transcriptional responses to fludarabine despite method-specific differences.

This paper introduces Quartet DNA reference materials to comprehensively evaluate germline variant calling accuracy across the genome, including difficult regions and batch effects.

The paper describes EATRIS activities for quality assessment in multi-omics data generation and integration, aiming to support translational medicine through a Multi-Omics Toolbox.

The paper uses scRNA-seq to analyze immune cell populations in equine BAL fluid from horses with asthma and healthy controls, identifying FKBP5 as upregulated in asthma cases.

This study uses long-read sequencing to analyze the genomic architecture of single human cells, revealing high-resolution genetic variation and structural variants.

scSPLAT improves single-cell WGBS library preparation by increasing scalability and read alignment rates compared to existing methods.

The paper presents whole-genome and whole-exome sequencing datasets from a multi-center, cross-platform study to benchmark NGS technologies and bioinformatics pipelines in cancer genomics.

The paper establishes reference samples with high-coverage whole-genome sequencing to create truth sets for somatic mutation and germline variant detection using NGS technologies.

This study evaluates reproducibility and accuracy of cancer mutation detection using whole-genome and whole-exome sequencing across multiple sequencing centers and bioinformatics pipelines.

The paper evaluates epigenetic methods using reference materials, finding high concordance between assays and differences in performance across platforms.

This study uses linked-read whole genome sequencing to detect and phase structural aberrations in pediatric ALL with higher resolution than traditional methods.

The paper performs de novo assembly of two Swedish genomes, identifies novel sequences absent from GRCh38, and shows improved variant calling with these sequences.

The paper assesses WGBS data quality on HiSeq X, HiSeq 2500, and NovaSeq systems, finding improved quality after software upgrades.