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List of works by Markus Ringnér

A comprehensive map coupling histone modifications with gene regulation in adult dopaminergic and serotonergic neurons.

scientific article published on 26 March 2018

A molecular taxonomy for urothelial carcinoma.

scientific article published on 2 May 2012

A strategy for identifying putative causes of gene expression variation in human cancers

article

ACID: a database for microarray clone information

scientific article published on 12 February 2004

An integrated genomics analysis of epigenetic subtypes in human breast tumors links DNA methylation patterns to chromatin states in normal mammary cells.

scientific article published on 29 February 2016

An integrative genomics screen uncovers ncRNA T-UCR functions in neuroblastoma tumours.

scientific article published on 12 April 2010

Analyzing array data using supervised methods.

scientific article

Analyzing tumor gene expression profiles.

scientific article

Author Correction: A comprehensive map coupling histone modifications with gene regulation in adult dopaminergic and serotonergic neurons

scientific article published in Nature Communications

Author Correction: Landscape of somatic mutations in 560 breast cancer whole-genome sequences

scientific article published on 01 February 2019

Author Correction: Mutational and putative neoantigen load predict clinical benefit of adoptive T cell therapy in melanoma

scientific article published on 01 April 2020

Breast cancer genome and transcriptome integration implicates specific mutational signatures with immune cell infiltration

scientific article published on 26 September 2016

CD44 isoforms are heterogeneously expressed in breast cancer and correlate with tumor subtypes and cancer stem cell markers

scientific article

Characterisation of amplification patterns and target genes at chromosome 11q13 in CCND1-amplified sporadic and familial breast tumours.

scientific article published on 16 October 2011

Consensus of gene expression phenotypes and prognostic risk predictors in primary lung adenocarcinoma

scientific article published on 16 July 2016

DNA methylation analyses of urothelial carcinoma reveal distinct epigenetic subtypes and an association between gene copy number and methylation status

scientific article

DNA methylation and histone modifications regulate SOX11 expression in lymphoid and solid cancer cells.

scientific article

DNA methylation subgroups in melanoma are associated with proliferative and immunological processes

scientific article published on 6 November 2015

Detection and identification of protein isoforms using cluster analysis of MALDI-MS mass spectra

scientific article published in April 2006

Distinct genomic profiles in hereditary breast tumors identified by array-based comparative genomic hybridization

scientific article published on September 2005

Endothelial induced EMT in breast epithelial cells with stem cell properties

scientific article

Environmentally induced DNA methylation is inherited across generations in an aquatic keystone species

scientific article published on 25 April 2022

Estrogen receptor status in breast cancer is associated with remarkably distinct gene expression patterns

scientific article

Expression profiling to predict outcome in breast cancer: the influence of sample selection

scientific article

Folding free energies of 5'-UTRs impact post-transcriptional regulation on a genomic scale in yeast

scientific article

GOBO: gene expression-based outcome for breast cancer online

scientific article

Gastrointestinal stromal tumors with KIT mutations exhibit a remarkably homogeneous gene expression profile

scientific article published in December 2001

Gene expression profile in multiple sclerosis patients and healthy controls: identifying pathways relevant to disease

scientific article published on 08 July 2003

Gene expression profiles in a panel of childhood leukemia cell lines mirror critical features of the disease.

scientific article published in July 2003

Gene expression profiling demonstrates that TGF-beta1 signals exclusively through receptor complexes involving Alk5 and identifies targets of TGF-beta signaling

scientific article

Gene expression profiling-based identification of molecular subtypes in stage IV melanomas with different clinical outcome

scientific article published on 11 May 2010

Genome methylation patterns in male breast cancer - Identification of an epitype with hypermethylation of polycomb target genes

scientific article published on 8 May 2015

Genome-Wide DNA Methylation Analysis in Melanoma Reveals the Importance of CpG Methylation in MITF Regulation

scientific article

Genome-wide DNA methylation analysis of lung carcinoma reveals one neuroendocrine and four adenocarcinoma epitypes associated with patient outcome

scientific article published on 2 October 2014

Genome-wide transcription factor binding site/promoter databases for the analysis of gene sets and co-occurrence of transcription factor binding motifs

scientific article

Genomic and transcriptional alterations in lung adenocarcinoma in relation to smoking history

scientific article published on 18 July 2014

Genomic profiling of malignant melanoma using tiling-resolution arrayCGH.

scientific article published on 29 January 2007

Genomic subtypes of breast cancer identified by array-comparative genomic hybridization display distinct molecular and clinical characteristics

scientific article

Global H3K27 trimethylation and EZH2 abundance in breast tumor subtypes

scientific article

High Myc pathway activity and low stage of neuronal differentiation associate with poor outcome in neuroblastoma

scholarly article

High expression of ZNF703 independent of amplification indicates worse prognosis in patients with luminal B breast cancer

scientific article published on 22 May 2013

High-resolution genomic and expression analyses of copy number alterations in HER2-amplified breast cancer

scientific article

High-resolution genomic profiles of breast cancer cell lines assessed by tiling BAC array comparative genomic hybridization

scientific article

High-resolution genomic profiling of male breast cancer reveals differences hidden behind the similarities with female breast cancer

scientific article

Identification of subtypes in human epidermal growth factor receptor 2--positive breast cancer reveals a gene signature prognostic of outcome

scientific article

Impact of DNA amplification on gene expression patterns in breast cancer

article

Integrative epigenomic analysis of differential DNA methylation in urothelial carcinoma.

scientific article

Landscape of somatic allelic imbalances and copy number alterations in HER2-amplified breast cancer

scientific article published on 14 December 2011

Landscape of somatic mutations in 560 breast cancer whole-genome sequences

scientific article

Making breast cancer molecular subtypes robust?

scientific article published on 4 December 2014

Matching protein structures with fuzzy alignments.

scientific article

MicroRNA-200c-141 and ∆Np63 are required for breast epithelial differentiation and branching morphogenesis

scientific article published on 9 May 2015

Microarray expression profiling in melanoma reveals a BRAF mutation signature.

scientific article published on May 2004

Microarray-based cancer diagnosis with artificial neural networks.

scientific article

Molecular classification of familial non-BRCA1/BRCA2 breast cancer

scholarly article

Molecular profiling reveals low- and high-grade forms of primary melanoma

scientific article

Molecular stratification of metastatic melanoma using gene expression profiling: Prediction of survival outcome and benefit from molecular targeted therapy.

scientific article published in May 2015

Molecular subtypes of breast cancer are associated with characteristic DNA methylation patterns

scientific article

Monitoring of technical variation in quantitative high-throughput datasets

scientific article published on 23 September 2013

Multiple metastases from cutaneous malignant melanoma patients may display heterogeneous genomic and epigenomic patterns

Multiple metastases from cutaneous malignant melanoma patients may display heterogeneous genomic and epigenomic patterns.

scientific article published in October 2010

Mutational and putative neoantigen load predict clinical benefit of adoptive T cell therapy in melanoma

scientific article published on 23 November 2017

Nonfamilial breast cancer subtypes

scientific article published on January 2013

Normalization of Illumina Infinium whole-genome SNP data improves copy number estimates and allelic intensity ratios

scientific article

Normalization of array-CGH data: influence of copy number imbalances

scientific article

Osteopontin is a downstream effector of the PI3-kinase pathway in melanomas that is inversely correlated with functional PTEN.

scientific article published on 29 March 2006

Partially methylated domains are hypervariable in breast cancer and fuel widespread CpG island hypermethylation

article

Poor prognosis in carcinoma is associated with a gene expression signature of aberrant PTEN tumor suppressor pathway activity.

scholarly article

Predicting continuous values of prognostic markers in breast cancer from microarray gene expression profiles.

scientific article published on February 2004

Prediction of stage, grade, and survival in bladder cancer using genome-wide expression data: a validation study

scientific article

Primary melanoma tumors from CDKN2A mutation carriers do not belong to a distinct molecular subclass

scientific article published on 7 July 2014

Prognostic and Chemotherapy Predictive Value of Gene-Expression Phenotypes in Primary Lung Adenocarcinoma

scientific article published on 11 August 2015

Revealing signaling pathway deregulation by using gene expression signatures and regulatory motif analysis.

scientific article published in January 2007

Spatially and functionally distinct subclasses of breast cancer-associated fibroblasts revealed by single cell RNA sequencing

scientific article published in Nature Communications

The CD44+/CD24- phenotype is enriched in basal-like breast tumors

scientific article published on 17 June 2008

The gene expression landscape of breast cancer is shaped by tumor protein p53 status and epithelial-mesenchymal transition

scientific article published on 27 July 2012

The gene expression response of breast cancer to growth regulators: patterns and correlation with tumor expression profiles

scientific article

The landscape of candidate driver genes differs between male and female breast cancer

scientific article

The retinoblastoma gene undergoes rearrangements in BRCA1-deficient basal-like breast cancer

scientific article published on 15 June 2012

Tiling array-CGH for the assessment of genomic similarities among synchronous unilateral and bilateral invasive breast cancer tumor pairs

scientific article

What is principal component analysis?

scientific article published in March 2008

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