A. Eklund

发表

The MicroArray Quality Control (MAQC) project shows inter- and intraplatform reproducibility of gene expression measurements.

Hanlee P. Ji, G. M. Fischer, Stephen C. Harris, 2006, Nature biotechnology.

An online survival analysis tool to rapidly assess the effect of 22,277 genes on breast cancer prognosis using microarray data of 1,809 patients

Z. Szallasi, C. Denkert, A. Eklund, 2010, Breast Cancer Research and Treatment.

Redefinition of Affymetrix probe sets by sequence overlap with cDNA microarray probes reduces cross-platform inconsistencies in cancer-associated gene expression measurements

Isaac S. Kohane, Zoltan Szallasi, Aron C. Eklund, 2005, BMC Bioinformatics.

A large-scale analysis of tissue-specific pathology and gene expression of human disease genes and complexes

Francisco S. Roque, Z. Szallasi, S. Brunak, 2008, Proceedings of the National Academy of Sciences.

Reliability and reproducibility issues in DNA microarray measurements.

Z. Szallasi, P. Khatri, S. Drăghici, 2006, Trends in genetics : TIG.

A signature of chromosomal instability inferred from gene expression profiles predicts clinical outcome in multiple human cancers

Z. Szallasi, S. Carter, I. Kohane, 2006, Nature Genetics.

Intratumor heterogeneity and branched evolution revealed by multiregion sequencing.

P. A. Futreal, Z. Szallasi, N. Matthews, 2012, The New England journal of medicine.

Correction of technical bias in clinical microarray data improves concordance with known biological information

Z. Szallasi, A. Eklund, 2008, Genome Biology.

Evaluation of Microarray Preprocessing Algorithms Based on Concordance with RT-PCR in Clinical Samples

Z. Szallasi, A. Eklund, B. Győrffy, 2009, PloS one.

Efficacy of neoadjuvant Cisplatin in triple-negative breast cancer.

Z. Szallasi, E. Winer, A. Eklund, 2010, Journal of clinical oncology : official journal of the American Society of Clinical Oncology.

Molecular markers of early Parkinson's disease based on gene expression in blood

J. Growdon, R. Jensen, A. Eklund, 2007, Proceedings of the National Academy of Sciences.

An Analysis of Natural T Cell Responses to Predicted Tumor Neoepitopes

Z. Szallasi, A. Eklund, V. Jurtz, 2017, Front. Immunol..

Sequenza: allele-specific copy number and mutation profiles from tumor sequencing data

Z. Szallasi, A. Eklund, Qiyuan Li, 2014, Annals of oncology : official journal of the European Society for Medical Oncology.

Large-scale detection of antigen-specific T cells using peptide-MHC-I multimers labeled with DNA barcodes

Z. Szallasi, A. Eklund, N. McGranahan, 2016, Nature Biotechnology.

MuPeXI: prediction of neo-epitopes from tumor sequencing data

Zoltan Szallasi, Sine Reker Hadrup, Z. Szallasi, 2017, Cancer Immunology, Immunotherapy.

[Evaluation of thrombocytosis as predictive factor in colorectal cancer].

Z. Szallasi, A. Eklund, A. Szász, 2013, Magyar sebeszet.

PGC-1α, A Potential Therapeutic Target for Early Intervention in Parkinson’s Disease

Manuel B. Graeber, Howard J. Federoff, Aron C. Eklund, 2010, Science Translational Medicine.

Replacing cRNA targets with cDNA reduces microarray cross-hybridization

Zoltan Szallasi, Z. Szallasi, R. Jensen, 2006, Nature Biotechnology.

Tumor-Infiltrating T Cells From Clear Cell Renal Cell Carcinoma Patients Recognize Neoepitopes Derived From Point and Frameshift Mutations

Z. Szallasi, A. Eklund, M. Donia, 2020, Frontiers in Immunology.

Prediction of drug efficacy for cancer treatment based on comparative analysis of chemosensitivity and gene expression data.

A. Eklund, Qiyuan Li, O. Rigina, 2012, Bioorganic & medicinal chemistry.

TumorTracer: a method to identify the tissue of origin from the somatic mutations of a tumor specimen

Zoltan Szallasi, Francesco Favero, Charles Swanton, 2015, BMC Medical Genomics.

Patterns in the sequence context of protein disulfide bonds

A. Eklund, 2001 .

Relationship of Extreme Chromosomal Instability with Long-term Survival in a Retrospective Analysis of Primary Breast Cancer

Nicolai J. Birkbak, Z. Szallasi, A. Eklund, 2011, Cancer Epidemiology, Biomarkers & Prevention.

The CIN4 Chromosomal Instability qPCR Classifier Defines Tumor Aneuploidy and Stratifies Outcome in Grade 2 Breast Cancer

Z. Szallasi, A. Eklund, Qiyuan Li, 2013, PloS one.

Human endogenous retroviruses form a reservoir of T cell targets in hematological cancers

Z. Szallasi, A. G. Pedersen, A. Eklund, 2020, Nature Communications.

Streptococcus species abundance in the gut is linked to subclinical coronary atherosclerosis in 8,973 participants from the SCAPIS cohort

Holm, A. Eklund, P. Nilsson, 2022, medRxiv.

Biasogram: Visualization of Confounding Technical Bias in Gene Expression Data

Z. Szallasi, A. Eklund, M. Krzystanek, 2013, PloS one.

Microarray profiling is feasible using archived tissue from a Cooperative Group Clinical Trial: Results from a pilot study in CALGB 9342

Z. Szallasi, C. Perou, M. Ellis, 2005 .

Infant Formula With a Specific Blend of Five Human Milk Oligosaccharides Drives the Gut Microbiota Development and Improves Gut Maturation Markers: A Randomized Controlled Trial

A. Eklund, B. Berger, N. Sprenger, 2022, Frontiers in Nutrition.

Host–microbial co-metabolites modulated by human milk oligosaccharides relate to reduced risk of respiratory tract infections

A. Eklund, B. Berger, D. Moine, 2022, Frontiers in Nutrition.

Computational prediction of neoantigens: do we need more data or new approaches?

Z. Szallasi, A. Eklund, 2018, Annals of oncology : official journal of the European Society for Medical Oncology.

Bifidobacterium breve Bif195 Protects Against Small-intestinal Damage Caused by Acetylsalicylic Acid in Healthy Volunteers.

H. Nielsen, A. Eklund, F. Shanahan, 2019, Gastroenterology.

Consistent metagenes from cancer expression profiles yield agent specific predictors of chemotherapy response

Søren Brunak, Benjamin Haibe-Kains, Zoltan Szallasi, 2011, BMC Bioinformatics.

GATA transcription factors directly regulate the Parkinson's disease-linked gene α-synuclein

A. Eklund, B. Mollenhauer, E. Bresnick, 2008, Proceedings of the National Academy of Sciences.

Paradoxical relationship between chromosomal instability and survival outcome in cancer.

Zoltan Szallasi, Charles Swanton, David Endesfelder, 2011, Cancer research.

Migrating the SNP array-based homologous recombination deficiency measures to next generation sequencing data of breast cancer

Nicolai J. Birkbak, Z. Szallasi, I. Csabai, 2018, npj Breast Cancer.

Breast cancer brain metastases show increased levels of genomic aberration-based homologous recombination deficiency scores relative to their corresponding primary tumors

Z. Szallasi, I. Csabai, A. Eklund, 2018, Annals of oncology : official journal of the European Society for Medical Oncology.

Breast cancer brain metastases show increased levels of genomic aberration-based homologous recombination deficiency scores relative to their corresponding primary tumors

Z. Szallasi, I. Csabai, A. Eklund, 2018, bioRxiv.

Pan-cancer analysis of genomic scar signatures associated with homologous recombination deficiency suggests novel indications for existing cancer drugs

Z. Szallasi, A. Eklund, A. Richardson, 2015, Biomarker Research.

Pan-cancer analysis of genomic scar signatures associated with homologous recombination deficiency suggests novel indications for existing cancer drugs

Nicolai J. Birkbak, Z. Szallasi, A. Eklund, 2015, Biomarker Research.

Telomeric allelic imbalance indicates defective DNA repair and sensitivity to DNA-damaging agents.

Z. Szallasi, A. Eklund, Qiyuan Li, 2012, Cancer discovery.

Chromosomal instability determines taxane response

Thomas J. Hardcastle, Z. Szallasi, A. Eklund, 2009, Proceedings of the National Academy of Sciences.

MicroRNA profile analysis of human prostate cancers

A. Eklund, I. Khalil, N. Senzer, 2009, Cancer Gene Therapy.

Polymorphisms in the HLA-linked olfactory receptor genes in the Hutterites.

A. Eklund, C. Ober, C. Ober, 2000, Human immunology.

A robust prognostic gene expression signature for early stage lung adenocarcinoma

Zoltan Szallasi, Marcin Krzystanek, David Szüts, 2016, Biomarker Research.

MECP2 Is a Frequently Amplified Oncogene with a Novel Epigenetic Mechanism That Mimics the Role of Activated RAS in Malignancy.

Nicolai J. Birkbak, Z. Szallasi, M. Vidal, 2015, Cancer discovery.

Tumor Mutation Burden Forecasts Outcome in Ovarian Cancer with BRCA1 or BRCA2 Mutations

Zoltan Szallasi, Yang Li, Aron C. Eklund, 2013, PloS one.

Predictive biomarker discovery through the parallel integration of clinical trial and functional genomics datasets

Z. Szallasi, P. Futreal, A. Eklund, 2010, Genome Medicine.

An online atlas of human plasma metabolite signatures of gut microbiome composition

H. Nielsen, A. Eklund, M. Orho-Melander, 2021, Nature Communications.

Jetset: selecting the optimal microarray probe set to represent a gene

Zoltan Szallasi, Qiyuan Li, Balazs Györffy, 2011, BMC Bioinformatics.

Deconvoluting complex tissues for expression quantitative trait locus-based analyses

Z. Szallasi, A. Eklund, Qiyuan Li, 2013, Philosophical Transactions of the Royal Society B: Biological Sciences.

Minimising Immunohistochemical False Negative ER Classification Using a Complementary 23 Gene Expression Signature of ER Status

Benjamin Haibe-Kains, Zoltan Szallasi, Christopher T. Workman, 2010, PloS one.

Assessment of an RNA interference screen-derived mitotic and ceramide pathway metagene as a predictor of response to neoadjuvant paclitaxel for primary triple-negative breast cancer: a retrospective analysis of five clinical trials.

Benjamin Haibe-Kains, Zoltan Szallasi, Charles Swanton, 2010, The Lancet. Oncology.

Strand Orientation Bias Detector to determine the probability of FFPE sequencing artifacts

Anders Gorm Pedersen, Zoltan Szallasi, István Csabai, 2021, Briefings Bioinform..

Strand Orientation Bias Detector (SOBDetector) to remove FFPE sequencing artifacts

Anders Gorm Pedersen, Zoltan Szallasi, Miklos Diossy, 2018 .

Strand Orientation Bias Detector (SOBDetector) to remove artifacts from sequencing data of formalin fixed samples

Anders Gorm Pedersen, Zoltan Szallasi, Miklos Diossy, 2018 .

Optimization of the BLASTN substitution matrix for prediction of non-specific DNA microarray hybridization

Zoltan Szallasi, Rasmus Wernersson, Aron C. Eklund, 2009, Nucleic acids research.

Spatiotemporal patterns of gene expression during fetal monkey brain development.

R. Roth, R. Jensen, A. Eklund, 2003, Brain research. Developmental brain research.

Glioblastoma adaptation traced through decline of an IDH1 clonal driver and macro-evolution of a double-minute chromosome

Nicolai J. Birkbak, Z. Szallasi, D. Bentley, 2015, Annals of oncology : official journal of the European Society for Medical Oncology.

Title MECP 2 Is a Frequently Amplified Oncogene with a Novel Epigenetic Mechanism that Mimics the Role of Activated RAS in Malignancy Authors / Affiliation

Nicolai J. Birkbak, Z. Szallasi, M. Vidal, 2017 .

Next-generation detection of antigen-responsive T cells using DNA barcode-labeled MHC-I 1 multimers

Z. Szallasi, A. Eklund, C. Swanton, 2016 .

The CIN4 Chromosomal Instability qPCR Classifier Defines Tumor Aneuploidy and Stratifies Outcome in Grade 2 Breast Cancer

Z. Szallasi, A. Eklund, Qiyuan Li, 2013, PloS one.

Relationship of postoperative thrombocytosis and survival of patients with colorectal cancer.

Z. Szallasi, A. Eklund, M. Krzystanek, 2015, International journal of surgery.

The comparison of thrombocytosis and platelet-lymphocyte ratio as potential prognostic markers in colorectal cancer

Z. Szallasi, A. Eklund, M. Krzystanek, 2013, Thrombosis and Haemostasis.

The Influence of FUT2 and FUT3 Polymorphisms and Nasopharyngeal Microbiome on Respiratory Infections in Breastfed Bangladeshi Infants from the Microbiota and Health Study

H. Nielsen, Gregory Lefebvre, A. Eklund, 2021, mSphere.

Neoepitope load, T cell signatures and PD-L2 as combined biomarker strategy for response to checkpoint inhibition immunotherapy

A. Eklund, I. Svane, S. Hadrup, 2023, Frontiers in Genetics.

Integrative Systems Biology Applied to Toxicology

Anne Marie Vinggaard, Karine Audouze, Aron C. Eklund, 2015 .

Polymorphic microsatellite markers within the MHC of Peromyscus polionotus.

A. Eklund, C. Ober, 2004, Hereditas.

Exposure to perfluorononanoic acid combined with a low-dose mixture of 14 human-relevant compounds disturbs energy/lipid homeostasis in rats

A. Eklund, A. Vinggaard, K. Audouze, 2015, Metabolomics.

Sequenza: allele-specific copy number and mutation profiles from tumor sequencing data

Nicolai J. Birkbak, Z. Szallasi, A. Eklund, 2014, Annals of oncology : official journal of the European Society for Medical Oncology.

An Extensively Hydrolyzed Formula Supplemented with Two Human Milk Oligosaccharides Modifies the Fecal Microbiome and Metabolome in Infants with Cow’s Milk Protein Allergy

A. Eklund, B. Berger, Wei Jia, 2023, International journal of molecular sciences.

A Genomic-Profile Derived Summary Measure of Chromosomal Breakpoints Predicts Response to Treatment with the DNA-Damaging Agent Cisplatin.

Z. Szallasi, A. Eklund, Qiyuan Li, 2009 .

Streptococcus Species Abundance in the Gut Is Linked to Subclinical Coronary Atherosclerosis in 8973 Participants From the SCAPIS Cohort

A. Eklund, M. Orho-Melander, T. Fall, 2023, Circulation.

Telomeric allelic imbalance indicates defective DNA repair and sensitivity to DNA-damaging agents.

Z. Szallasi, A. Eklund, N. Tung, 2012, Cancer Discovery.

An Analysis of Natural T Cell Responses to Predicted Tumor Neoepitopes

Z. Szallasi, A. Eklund, V. Jurtz, 2017, Front. Immunol..

MuPeXI: prediction of neo-epitopes from tumor sequencing data

Z. Szallasi, A. Eklund, S. Hadrup, 2017, Cancer Immunology, Immunotherapy.

Relationship of postoperative thrombocytosis and survival of patients with colorectal cancer.

A. Eklund, M. Krzystanek, A. Zaránd, 2015, International journal of surgery.