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List of works by Fredrik Pontén

A Web-based Tool forin SilicoBiomarker Discovery Based on Tissue-specific Protein Profiles in Normal and Cancer Tissues

scientific article published on 03 October 2007

A cis-acting regulatory mutation causes premature hair graying and susceptibility to melanoma in the horse

scientific article

A deep proteome and transcriptome abundance atlas of 29 healthy human tissues

scientific article published on 18 February 2019

A deep proteome and transcriptome abundance atlas of 29 healthy human tissues

A fluid cover medium provides superior morphology and preserves RNA integrity in tissue sections for laser microdissection and pressure catapulting

scientific article published in January 2004

A genecentric Human Protein Atlas for expression profiles based on antibodies

scientific article published on October 2008

A genome-wide transcriptomic analysis of protein-coding genes in human blood cells

scientific article published on 01 December 2019

A global view of protein expression in human cells, tissues, and organs

scientific article

A high-throughput strategy for protein profiling in cell microarrays using automated image analysis

scientific article published on June 2007

A human protein atlas for normal and cancer tissues based on antibody proteomics

scientific article

A pathology atlas of the human cancer transcriptome

scientific article

A prognosis based classification of undifferentiated uterine sarcomas: identification of mitotic index, hormone receptors and YWHAE-FAM22 translocation status as predictors of survival

scientific article published on 27 August 2014

A specific antibody to detect transcription factor T-Pit: a reliable marker of corticotroph cell differentiation and a tool to improve the classification of pituitary neuroendocrine tumours.

scientific article

A stromal cell population in the large intestine identified by tissue factor expression that is lost during colorectal cancer progression

scientific article published on 22 September 2016

A study of embryonic stem cell-related proteins in human astrocytomas: identification of Nanog as a predictor of survival

scientific article published on 16 September 2013

A subcellular map of the human proteome

scientific article

A systematic analysis of commonly used antibodies in cancer diagnostics

scientific article published on 5 November 2013

A systematic search strategy identifies cubilin as independent prognostic marker for renal cell carcinoma

scientific article

A texture based pattern recognition approach to distinguish melanoma from non-melanoma cells in histopathological tissue microarray sections

scientific article

A tool to facilitate clinical biomarker studies--a tissue dictionary based on the Human Protein Atlas

scientific article

ANLN is a prognostic biomarker independent of Ki-67 and essential for cell cycle progression in primary breast cancer

scientific article

Aberrantly activated claudin 6 and 18.2 as potential therapy targets in non-small-cell lung cancer

article published in 2014

Affibody-beta-galactosidase immunoconjugates produced as soluble fusion proteins in the Escherichia coli cytosol

scientific article published in October 2003

Affinity Proteomics Exploration of Melanoma Identifies Proteins in Serum with Associations to T-Stage and Recurrence

scientific article

Affinity proteomics for systematic protein profiling of chromosome 21 gene products in human tissues

scientific article

Affinity proteomics within rare diseases: a BIO-NMD study for blood biomarkers of muscular dystrophies

scientific article

An atlas of the protein-coding genes in the human, pig, and mouse brain

scientific article published on 01 March 2020

Analysis of Body-wide Unfractionated Tissue Data to Identify a Core Human Endothelial Transcriptome

scientific article

Analysis of candidate genes for lineage-specific expression changes in humans and primates

scientific article

Analysis of protein expression in cell microarrays: a tool for antibody-based proteomics.

scientific article published on 06 September 2006

Analysis of the Human Prostate-Specific Proteome Defined by Transcriptomics and Antibody-Based Profiling Identifies TMEM79 and ACOXL as Two Putative, Diagnostic Markers in Prostate Cancer

scientific article published on 3 August 2015

Analysis of the human tissue-specific expression by genome-wide integration of transcriptomics and antibody-based proteomics

scientific article published on 05 December 2013

Antibodies Biotinylated Using a Synthetic Z-domain from Protein A Provide Stringent In Situ Protein Detection ⬇️

scientific article published on August 6, 2013

Antibodies for profiling the human proteome-The Human Protein Atlas as a resource for cancer research

scientific article published on July 2012

Antibody performance in western blot applications is context-dependent

scientific article published on 29 January 2014

Antibody validation of immunohistochemistry for biomarker discovery: recommendations of a consortium of academic and pharmaceutical based histopathology researchers

scientific article published on 11 February 2014

Antibody-based protein profiling of the human chromosome 21

scientific article

Antibody-based proteomics for discovery and exploration of proteins expressed in pancreatic islets.

scientific article

Antibody-based proteomics for human tissue profiling

scientific article

Antibody-based proteomics: fast-tracking molecular diagnostics in oncology.

scientific article

Approaching clinical proteomics: current state and future fields of application in cellular proteomics

scientific article published on October 2009

Approaching clinical proteomics: current state and future fields of application in fluid proteomics

scientific article

Automated Analysis of Human Protein Atlas Immunofluorescence Images

scientific article published on January 2009

BCL2L1 has a functional role in colorectal cancer and its protein expression is associated with chromosome 20q gain

scientific article published on 18 October 2011

Binding sites for metabolic disease related transcription factors inferred at base pair resolution by chromatin immunoprecipitation and genomic microarrays

scientific article

Biobanking of fresh frozen tissue: RNA is stable in nonfixed surgical specimens.

scientific article

Biomarker discovery in non-small cell lung cancer: integrating gene expression profiling, meta-analysis, and tissue microarray validation.

scientific article published on 2 October 2012

Breast cancer in young women and prognosis: How important are proliferation markers?

scientific article published on 24 August 2017

CD99 is a novel prognostic stromal marker in non-small cell lung cancer

scientific article

CDK-mediated activation of the SCF(FBXO) (28) ubiquitin ligase promotes MYC-driven transcription and tumourigenesis and predicts poor survival in breast cancer

scientific article published on 14 June 2013

CSE1L, DIDO1 and RBM39 in colorectal adenoma to carcinoma progression.

scientific article published on 19 June 2012

Cell surface proteomics identifies glucose transporter type 1 and prion protein as candidate biomarkers for colorectal adenoma-to-carcinoma progression.

scientific article

Cetuximab sensitivity of head and neck squamous cell carcinoma xenografts is associated with treatment-induced reduction in EGFR, pEGFR, and pSrc

scientific article published on 30 December 2016

Colorectal cancer candidate biomarkers identified by tissue secretome proteome profiling

scientific article published on 10 January 2014

Combined ASRGL1 and p53 immunohistochemistry as an independent predictor of survival in endometrioid endometrial carcinoma

scientific article published on 24 February 2018

Complementing tissue characterization by integrating transcriptome profiling from the Human Protein Atlas and from the FANTOM5 consortium

scientific article

Contribution of antibody-based protein profiling to the human Chromosome-centric Proteome Project (C-HPP).

scientific article published on 31 December 2012

Correlations between RNA and protein expression profiles in 23 human cell lines

scientific article

DLG3/SAP102 protein expression in malformations of cortical development: a study of human epileptic cortex by tissue microarray.

scientific article published on 23 January 2009

Defining the Human Brain Proteome Using Transcriptomics and Antibody-Based Profiling with a Focus on the Cerebral Cortex

scientific article published on 15 June 2015

Defining the human adipose tissue proteome to reveal metabolic alterations in obesity

scientific article published on 25 September 2014

Defining the human gallbladder proteome by transcriptomics and affinity proteomics

scholarly article by Caroline Kampf published in October 2014

Detection of enterovirus in the islet cells of patients with type 1 diabetes: what do we learn from immunohistochemistry?

scientific article published on 19 December 2013

Detection of the human endogenous retrovirus ERV3-encoded Env-protein in human tissues using antibody-based proteomics

scientific article published on 21 November 2013

Diagnostic biomarkers of prostate cancer

scientific article published on November 2010

Effect of herbal melanin on IL-8: a possible role of Toll-like receptor 4 (TLR4)

scientific article published on 02 May 2006

Elevated expression of the C-type lectin CD93 in the glioblastoma vasculature regulates cytoskeletal rearrangements that enhance vessel function and reduce host survival

scientific article published on 11 September 2015

Enhanced epidermal ultraviolet responses in chronically sun-exposed skin are dependent on previous sun exposure

scientific article published in January 2003

Enteroviruses and the pathogenesis of type 1 diabetes revisited: cross-reactivity of enterovirus capsid protein (VP1) antibodies with human mitochondrial proteins

scientific article published in April 2013

Epigenetic activation of a cryptic TBC1D16 transcript enhances melanoma progression by targeting EGFR

scientific article published on June 2015

Estrogen receptor β expression induces changes in the microRNA pool in human colon cancer cells.

scientific article published on 22 February 2013

European H16N3 gull influenza virus attaches to the human respiratory tract and eye.

scientific article

Evaluation of Monospecific Antibodies

Evidence for a morphologically distinct and functionally robust cell type in the proximal tubules of human kidney

scientific article published on 18 October 2013

Expression of human skin-specific genes defined by transcriptomics and antibody-based profiling

scientific article

Expression of the RNA-binding protein RBM3 is associated with a favourable prognosis and cisplatin sensitivity in epithelial ovarian cancer

scientific article

Extension of diffuse low-grade gliomas beyond radiological borders as shown by the coregistration of histopathological and magnetic resonance imaging data.

scientific article

Extensive expression of craniofacial related homeobox genes in canine mammary sarcomas

scientific article

FGF2 as a potential prognostic biomarker for proneural glioma patients

scientific article published on 29 September 2014

Foxf2 Is Required for Brain Pericyte Differentiation and Development and Maintenance of the Blood-Brain Barrier

scientific article published on 25 June 2015

Foxf2 in intestinal fibroblasts reduces numbers of Lgr5(+) stem cells and adenoma formation by inhibiting Wnt signaling

scientific article published on 31 January 2013

From gene expression analysis to tissue microarrays: a rational approach to identify therapeutic and diagnostic targets in lymphoid malignancies

scientific article published on 08 March 2006

GABA-A channel subunit expression in human glioma correlates with tumor histology and clinical outcome

scientific article

GAD1 is a biomarker for benign and malignant prostatic tissue

scientific article published on 22 November 2010

GPR44 is a pancreatic protein restricted to the human beta cell

scientific article published on 14 October 2015

Garbage in, garbage out: a critical evaluation of strategies used for validation of immunohistochemical biomarkers

scientific article

Gene-specific correlation of RNA and protein levels in human cells and tissues

scientific article published on 20 October 2016

Generation of monospecific antibodies based on affinity capture of polyclonal antibodies

scientific article published on 12 October 2011

Genetic mosaicism in basal cell carcinoma

scientific article published in August 2005

Genetic tumor archeology: microdissection and genetic heterogeneity in squamous and basal cell carcinoma

scientific article

Glioma-derived macrophage migration inhibitory factor (MIF) promotes mast cell recruitment in a STAT5-dependent manner

scientific article

Glioma-derived plasminogen activator inhibitor-1 (PAI-1) regulates the recruitment of LRP1 positive mast cells

scientific article

HMG-CoA reductase expression in breast cancer is associated with a less aggressive phenotype and influenced by anthropometric factors

scientific article published in September 2008

Heart research advances using database search engines, Human Protein Atlas and the Sydney Heart Bank

scientific article

Herbal melanin activates TLR4/NF-kappaB signaling pathway

scientific article

High BRAF Mutation Frequency and Marked Survival Differences in Subgroups According to KRAS/BRAF Mutation Status and Tumor Tissue Availability in a Prospective Population-Based Metastatic Colorectal Cancer Cohort

scientific article published on 29 June 2015

High RBM3 expression is associated with an improved survival and oxaliplatin response in patients with metastatic colorectal cancer.

scientific article published on 11 August 2017

High nuclear RBM3 expression is associated with an improved prognosis in colorectal cancer

scientific article published on December 2011

Human cytomegalovirus tegument protein pp65 is detected in all intra- and extra-axial brain tumours independent of the tumour type or grade

scientific article

Human tumors instigate granulin-expressing hematopoietic cells that promote malignancy by activating stromal fibroblasts in mice

scientific article

Immunohistochemical detection of tyrosine phosphatase SHP-1 predicts outcome after radical prostatectomy for localized prostate cancer

scientific article published on May 2010

Immunohistochemistry for transcription factor T-Pit as a tool in diagnostics of corticotroph pituitary tumours

scientific article published on 01 August 2018

Improving the diagnosis and management of neuroendocrine tumors: utilizing new advances in biomarker and molecular imaging science

scientific article published on 28 June 2013

In situ Protein Detection for Companion Diagnostics

scientific article published on 31 October 2013

In situ identification of genes regulated specifically in fibroblasts of human basal cell carcinoma

scientific article published in February 2007

In situ protein detection with enhanced specificity using DNA-conjugated antibodies and proximity ligation

scientific article

Inconsistent results in the analysis of ALK rearrangements in non-small cell lung cancer

scientific article

Intercalated discs: multiple proteins perform multiple functions in non-failing and failing human hearts.

scientific article published on 22 January 2009

International network of cancer genome projects

scientific article

Investigation of molecular alterations of AKT-3 in triple-negative breast cancer

scientific article

Large-scale protein profiling in human cell lines using antibody-based proteomics

scientific article published on 22 July 2011

Laser-assisted cell microdissection using the PALM system

scientific article published in January 2005

Lipogenic signalling modulates prostate cancer cell adhesion and migration via modification of Rho GTPases

scientific article published on 05 March 2020

Long-term outcome in young women with breast cancer: a population-based study

scientific article published on 13 September 2016

Loss of ASRGL1 expression is an independent biomarker for disease-specific survival in endometrioid endometrial carcinoma.

scientific article published on 7 April 2015

Low RBM3 protein expression correlates with tumour progression and poor prognosis in malignant melanoma: an analysis of 215 cases from the Malmö Diet and Cancer Study

scientific article

Majority of differentially expressed genes are down-regulated during malignant transformation in a four-stage model

scientific article published on 8 April 2013

Mast Cell Infiltration in Human Brain Metastases Modulates the Microenvironment and Contributes to the Metastatic Potential

scientific article published on 2 June 2017

Mining the human tissue proteome for protein citrullination

scientific article published on 2 April 2018

Molecular characterization of a large unselected cohort of metastatic colorectal cancers in relation to primary tumor location, rare metastatic sites and prognosis

scientific article published on 10 January 2020

Molecular profiling using tissue microarrays as a tool to identify predictive biomarkers in laryngeal cancer treated with radiotherapy

scientific article published on 01 January 2010

Molecular- and organelle-based predictive paradigm underlying recovery by left ventricular assist device support

scientific article published on March 2014

Mutation spectra of epidermal p53 clones adjacent to basal cell carcinoma and squamous cell carcinoma

scientific article

Novel Multiomics Profiling of Human Carotid Atherosclerotic Plaques and Plasma Reveals Biliverdin Reductase B as a Marker of Intraplaque Hemorrhage

Novel pancreatic beta cell-specific proteins: antibody-based proteomics for identification of new biomarker candidates

scientific article

Novel signatures of cancer-associated fibroblasts.

scientific article published on 12 February 2013

Nuclear expression of the RNA-binding protein RBM3 is associated with an improved clinical outcome in breast cancer

scientific article

Oncogene-Induced Senescence in Pituitary Adenomas--an Immunohistochemical Study

scientific article published in March 2016

PROX1 is a novel pathway-specific prognostic biomarker for high-grade astrocytomas; results from independent glioblastoma cohorts stratified by age and IDH mutation status

scientific article published on 10 September 2016

PTPN6 expression is epigenetically regulated and influences survival and response to chemotherapy in high-grade gliomas

scientific article published on 9 February 2014

Peroxiredoxin-1 protects estrogen receptor α from oxidative stress-induced suppression and is a protein biomarker of favorable prognosis in breast cancer

scientific article

Pleiotrophin promotes vascular abnormalization in gliomas and correlates with poor survival in patients with astrocytomas

scientific article published on 8 December 2015

Production of Tissue Microarrays, Immunohistochemistry Staining and Digitalization Within the Human Protein Atlas ⬇️

scientific article published on May 31, 2012

Profiling cancer testis antigens in non-small-cell lung cancer

scientific article published on 07 July 2016

Profiling of atherosclerotic lesions by gene and tissue microarrays reveals PCSK6 as a novel protease in unstable carotid atherosclerosis

scientific article published in August 2013

Progesterone receptor negativity is an independent risk factor for relapse in patients with early stage endometrioid endometrial adenocarcinoma.

scientific article published on 15 June 2013

Prognostic impact of COX-2 in non-small cell lung cancer: a comprehensive compartment-specific evaluation of tumor and stromal cell expression

scientific article published on 31 October 2014

Prognostic impact of tumour-specific HMG-CoA reductase expression in primary breast cancer

scientific article published on 22 September 2008

Prognostic significance of stromal platelet-derived growth factor beta-receptor expression in human breast cancer

scientific article published on 04 June 2009

Proximity Ligation Assay as a Tool for Antibody Validation in Human Tissues

scientific article published on 30 June 2020

Pulmonary autoimmunity as a feature of autoimmune polyendocrine syndrome type 1 and identification of KCNRG as a bronchial autoantigen

scientific article

Quantification and discovery of sequence determinants of protein per mRNA amount in 29 human tissues

Quantification and discovery of sequence determinants of protein-per-mRNA amount in 29 human tissues

scientific article published on 18 February 2019

RBM3-regulated genes promote DNA integrity and affect clinical outcome in epithelial ovarian cancer

scientific article

Recommendations from the 2008 International Summit on Proteomics Data Release and Sharing Policy: the Amsterdam principles

scientific article (publication date: July 2009)

SATB2 in Combination With Cytokeratin 20 Identifies Over 95% of all Colorectal Carcinomas

article

SATB2 is expressed in Merkel cell carcinoma

scientific article published on 4 June 2016

SOX10 expression in superficial spreading and nodular malignant melanomas

scientific article published on December 2010

Scalable in situ hybridization on tissue arrays for validation of novel cancer and tissue-specific biomarkers

scientific article

Selective expression of Syntaxin-7 protein in benign melanocytes and malignant melanoma

scientific article

Serglycin as a potential biomarker for glioma: association of serglycin expression, extent of mast cell recruitment and glioblastoma progression

scientific article

Serological and immunohistochemical analysis of S100 and new derivatives as markers for prognosis in patients with malignant melanoma

scientific article published on 01 December 2008

Serotonin, ATRX, and DAXX Expression in Pituitary Adenomas: Markers in the Differential Diagnosis of Neuroendocrine Tumors of the Sellar Region.

scientific article published on 17 July 2017

Sharper diagnostic tool the future promise of laser-assisted microdissection

scientific article

Similar UV responses are seen in a skin organ culture as in human skin in vivo

scientific article published in August 2002

Single cell gene mutation analysis using laser-assisted microdissection of tissue sections.

scientific article

Sox10 has a broad expression pattern in gliomas and enhances platelet-derived growth factor-B--induced gliomagenesis.

scientific article

Subtyping of gliomas of various WHO grades by the application of immunohistochemistry.

scientific article

Sun-Induced Nonsynonymous p53 Mutations Are Extensively Accumulated and Tolerated in Normal Appearing Human Skin ⬇️

scientific article published on October 14, 2010

Systematic antibody generation and validation via tissue microarray technology leading to identification of a novel protein prognostic panel in breast cancer

scientific article

TPX2 and AURKA promote 20q amplicon-driven colorectal adenoma to carcinoma progression.

scientific article published on 29 December 2011

The Human Adrenal Gland Proteome Defined by Transcriptomics and Antibody-Based Profiling

scientific article published on 30 November 2016

The Human Endometrium-Specific Proteome Defined by Transcriptomics and Antibody-Based Profiling

scientific article published on 21 October 2015

The RBCC gene RFP2 (Leu5) encodes a novel transmembrane E3 ubiquitin ligase involved in ERAD

scientific article

The Role of SATB2 as a Diagnostic Marker for Tumors of Colorectal Origin

The Urinary Bladder Transcriptome and Proteome Defined by Transcriptomics and Antibody-Based Profiling

scientific article published on 22 December 2015

The correlation between cellular size and protein expression levels--normalization for global protein profiling

scientific article

The human cardiac and skeletal muscle proteomes defined by transcriptomics and antibody-based profiling

scientific article published on 25 June 2015

The human gastrointestinal tract-specific transcriptome and proteome as defined by RNA sequencing and antibody-based profiling

scientific article published on May 2014

The human liver-specific proteome defined by transcriptomics and antibody-based profiling

scientific article

The human pancreas proteome defined by transcriptomics and antibody-based profiling

scientific article

The human secretome

scientific article published on 26 November 2019

The impact of tissue fixatives on morphology and antibody-based protein profiling in tissues and cells.

scientific article

The interactome of LIM domain proteins: the contributions of LIM domain proteins to heart failure and heart development

scientific article published on 04 January 2012

The kidney transcriptome and proteome defined by transcriptomics and antibody-based profiling

scientific article

The lung-specific proteome defined by integration of transcriptomics and antibody-based profiling.

scientific article

The mutagenic effect of ultraviolet-A1 on human skin demonstrated by sequencing the p53 gene in single keratinocytes.

scientific article

The presence of tumor associated macrophages in tumor stroma as a prognostic marker for breast cancer patients

scientific article

The prognostic relevance of tumour-infiltrating plasma cells and immunoglobulin kappa C indicates an important role of the humoral immune response in non-small cell lung cancer

scientific article

The prognostic significance of tryptophanyl-tRNA synthetase in colorectal cancer

scientific article published on November 2009

The protein expression of TRP-1 and galectin-1 in cutaneous malignant melanomas.

scientific article published in November 2008

The protein phosphatase 2A regulatory subunit PR70 is a gonosomal melanoma tumor suppressor gene.

scientific article

The role of p53 codon 72 and human papilloma virus status of cutaneous squamous cell carcinoma in the Swedish population

scientific article

Tissue microarray profiling in human heart failure

scientific article published in July 2016

Topoisomerase I amplification in melanoma is associated with more advanced tumours and poor prognosis.

scientific article

Toward a confocal subcellular atlas of the human proteome

scientific article

Toward next generation plasma profiling via heat-induced epitope retrieval and array-based assays

scientific article

Towards a human proteome atlas: High-throughput generation of mono-specific antibodies for tissue profiling

scholarly article by Peter Nilsson published in October 2005

Transcriptional profiling of human glioblastoma vessels indicates a key role of VEGF-A and TGFβ2 in vascular abnormalization.

scientific article

Transcriptional profiling of melanocytes from patients with vitiligo vulgaris

scientific article

Transcriptomics resources of human tissues and organs

scientific article

Tumor vessel up-regulation of INSR revealed by single-cell expression analysis of the tyrosine kinome and phosphatome in human cancers.

scientific article

Tumor-specific HMG-CoA reductase expression in primary premenopausal breast cancer predicts response to tamoxifen ⬇️

scientific article

Tumoral ANXA1 Is a Predictive Marker for Sunitinib Treatment of Renal Cancer Patients

scientific article published on 23 October 2017

Tumoral cubilin is a predictive marker for treatment of renal cancer patients with sunitinib and sorafenib

scientific article

Tumour-specific HMG-CoAR is an independent predictor of recurrence free survival in epithelial ovarian cancer

scientific article

U-CAN: a prospective longitudinal collection of biomaterials and clinical information from adult cancer patients in Sweden

scientific article published on 20 June 2017

Vandetanib combined with a p38 MAPK inhibitor synergistically reduces glioblastoma cell survival ⬇️

scientific article published on June 20, 2013

Visualization and analysis of gene expression in tissue sections by spatial transcriptomics

scientific article

WNT5A-mediated β-catenin-independent signalling is a novel regulator of cancer cell metabolism

scientific article

ZBED6, a novel transcription factor derived from a domesticated DNA transposon regulates IGF2 expression and muscle growth

scientific article

Zinc-based fixative improves preservation of genomic DNA and proteins in histoprocessing of human tissues

scientific article

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