List of works - Johan Staaf

A combined gene expression tool for parallel histological prediction and gene fusion detection in non-small cell lung cancer

article

A gene expression-based single sample predictor of lung adenocarcinoma molecular subtype and prognosis

scientific article published on 03 August 2020

ACID: a database for microarray clone information

scientific article published on 12 February 2004

Amplification and overexpression of the ABCC3 (MRP3) gene in primary breast cancer ⬇️

scientific article published on May 14, 2012

An Open-Source, Automated Tumor-Infiltrating Lymphocyte Algorithm for Prognosis in Triple-Negative Breast Cancer

scientific article published in 2021

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

Analysis of human papillomaviruses and human polyomaviruses in lung cancer from Swedish never-smokers

scientific article published on 28 August 2019

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

scientific article published on 01 February 2019

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

scientific article published on 26 September 2016

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

Comprehensive analysis of RNA binding motif protein 3 (RBM3) in non-small cell lung cancer

scientific article published on 03 June 2020

Comprehensive molecular comparison of BRCA1 hypermethylated and BRCA1 mutated triple negative breast cancers

scientific article published on 27 July 2020

Cross comparison and prognostic assessment of breast cancer multigene signatures in a large population-based contemporary clinical series

scientific article published on 21 August 2019

DNA methylation of LRRC3B: a biomarker for survival of early-stage non-small cell lung cancer patients

journal article published in 2018

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

scientific article published on September 2005

Four evolutionary trajectories underlie genetic intratumoral variation in childhood cancer

scientific article published on 04 June 2018

GOBO: gene expression-based outcome for breast cancer online

scientific article

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

scientific article

Heterogeneous genetic profiles in soft tissue myoepitheliomas

scientific article published on 04 July 2008

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

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

scientific article

Methylation Patterns and Chromatin Accessibility in Neuroendocrine Lung Cancer

scientific article published on 22 July 2020

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

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

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

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

article

Pre-operative plasma cell-free circulating tumor DNA and serum protein tumor markers as predictors of lung adenocarcinoma recurrence

scientific article published on 24 June 2019

Prediction of Lymph Node Metastasis in Breast Cancer by Gene Expression and Clinicopathological Models: Development and Validation within a Population-Based Cohort

scientific article published on 24 July 2019

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

scientific article published on 7 July 2014

Proteogenomics of non-small cell lung cancer reveals molecular subtypes associated with specific therapeutic targets and immune evasion mechanisms

scientific article published on 22 November 2021

Recurrent gross mutations of the PTEN tumor suppressor gene in breast cancers with deficient DSB repair.

scientific article

Relation between smoking history and gene expression profiles in lung adenocarcinomas ⬇️

scientific article published on June 7, 2012

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

scientific article published on 15 June 2012

Two genetic pathways, t(1;10) and amplification of 3p11-12, in myxoinflammatory fibroblastic sarcoma, haemosiderotic fibrolipomatous tumour, and morphologically similar lesions.

scientific article

Whole-genome sequencing of triple-negative breast cancers in a population-based clinical study

scientific article published on 30 September 2019

List of works by Johan Staaf

A combined gene expression tool for parallel histological prediction and gene fusion detection in non-small cell lung cancer

A gene expression-based single sample predictor of lung adenocarcinoma molecular subtype and prognosis

ACID: a database for microarray clone information

Amplification and overexpression of the ABCC3 (MRP3) gene in primary breast cancer ⬇️

An Open-Source, Automated Tumor-Infiltrating Lymphocyte Algorithm for Prognosis in Triple-Negative Breast Cancer

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

Analysis of human papillomaviruses and human polyomaviruses in lung cancer from Swedish never-smokers

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

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

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

Comprehensive analysis of RNA binding motif protein 3 (RBM3) in non-small cell lung cancer

Comprehensive molecular comparison of BRCA1 hypermethylated and BRCA1 mutated triple negative breast cancers

Cross comparison and prognostic assessment of breast cancer multigene signatures in a large population-based contemporary clinical series

DNA methylation of LRRC3B: a biomarker for survival of early-stage non-small cell lung cancer patients

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

Four evolutionary trajectories underlie genetic intratumoral variation in childhood cancer

GOBO: gene expression-based outcome for breast cancer online

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

Heterogeneous genetic profiles in soft tissue myoepitheliomas

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

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

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

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

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

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

Methylation Patterns and Chromatin Accessibility in Neuroendocrine Lung Cancer

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

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

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

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.

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

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

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

Pre-operative plasma cell-free circulating tumor DNA and serum protein tumor markers as predictors of lung adenocarcinoma recurrence

Prediction of Lymph Node Metastasis in Breast Cancer by Gene Expression and Clinicopathological Models: Development and Validation within a Population-Based Cohort

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

Proteogenomics of non-small cell lung cancer reveals molecular subtypes associated with specific therapeutic targets and immune evasion mechanisms

Recurrent gross mutations of the PTEN tumor suppressor gene in breast cancers with deficient DSB repair.

Relation between smoking history and gene expression profiles in lung adenocarcinomas ⬇️

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

Two genetic pathways, t(1;10) and amplification of 3p11-12, in myxoinflammatory fibroblastic sarcoma, haemosiderotic fibrolipomatous tumour, and morphologically similar lesions.

Whole-genome sequencing of triple-negative breast cancers in a population-based clinical study