Ola Söderberg

Precise mapping of single-stranded DNA breaks by sequence-templated erroneous DNA polymerase end-labelling

Wenson, Leonie; Heldin, Johan; Martin, Marcel; Erbilgin, Yuecel et al.

Part of Nature Communications, 2025

• DOI for Precise mapping of single-stranded DNA breaks by sequence-templated erroneous DNA polymerase end-labelling
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Visualizing DNA single- and double-strand breaks in the Flash comet assay by DNA polymerase-assisted end-labelling

Bivehed, Erik; Hellman, Björn; Wenson, Leonie; Stenerlöw, Bo et al.

Part of Nucleic Acids Research, 2024

• DOI for Visualizing DNA single- and double-strand breaks in the Flash comet assay by DNA polymerase-assisted end-labelling
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The method developer's guide to oligonucleotide design

Wenson, Leonie; Leino, Mattias; Jarvius, Malin; Heldin, Johan et al.

Part of Expert Review of Proteomics, p. 65-80, 2024

• DOI for The method developer's guide to oligonucleotide design
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A method for Boolean analysis of protein interactions at a molecular level

Raykova, Doroteya; Kermpatsou, Despoina; Malmqvist, Tony; Harrison, Philip J et al.

Part of Nature Communications, 2022

• DOI for A method for Boolean analysis of protein interactions at a molecular level
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Compaction of rolling circle amplification products increases signal integrity and signal–to–noise ratio

Clausson, Carl-Magnus; Arngården, Linda; Ishaq, Omer; Klaesson, Axel et al.

Part of Scientific Reports, 2015

• DOI for Compaction of rolling circle amplification products increases signal integrity and signal–to–noise ratio

Proximity-dependent initiation of hybridization chain reaction

Koos, Björn; Cane, Gaëlle; Grannas, Karin; Löf, Liza et al.

Part of Nature Communications, 2015

• DOI for Proximity-dependent initiation of hybridization chain reaction
• Download full text (pdf) of Proximity-dependent initiation of hybridization chain reaction

In situ detection of individual mRNA molecules and protein complexes or post-translational modifications using padlock probes combined with the in situ proximity ligation assay

Weibrecht, Irene; Lundin, Elin; Kiflemariam, Sara; Mignardi, Marco et al.

Part of Nature Protocols, p. 355-372, 2013

• DOI for In situ detection of individual mRNA molecules and protein complexes or post-translational modifications using padlock probes combined with the in situ proximity ligation assay

Parallel Visualization of Multiple Protein Complexes in Individual Cells in Tumor Tissue

Leuchowius, Karl-Johan; Clausson, Carl-Magnus; Grannas, Karin; Erbilgin, Yücel et al.

Part of Molecular & Cellular Proteomics, p. 1563-1571, 2013

• DOI for Parallel Visualization of Multiple Protein Complexes in Individual Cells in Tumor Tissue

Increasing the dynamic range of in situ PLA

Clausson, Carl-Magnus; Allalou, Amin; Weibrecht, Irene; Mahmoudi, Salah et al.

Part of Nature Methods, p. 892-893, 2011

• DOI for Increasing the dynamic range of in situ PLA

In situ detection and genotyping of individual mRNA molecules

Larsson, Chatarina; Grundberg, Ida; Söderberg, Ola; Nilsson, Mats

Part of Nature Methods, p. 395-397, 2010

• DOI for In situ detection and genotyping of individual mRNA molecules

In situ detection of phosphorylated platelet-derived growth factor receptor beta using a generalized proximity ligation method

Jarvius, Malin; Paulsson, Janna; Weibrecht, Irene; Leuchowius, Karl-Johan et al.

Part of Molecular & Cellular Proteomics, p. 1500-1509, 2007

• DOI for In situ detection of phosphorylated platelet-derived growth factor receptor beta using a generalized proximity ligation method

Direct observation of individual endogenous protein complexes in situ by proximity ligation

Söderberg, Ola; Gullberg, Mats; Jarvius, Malin; Ridderstråle, Karin et al.

Part of Nature Methods, p. 995-1000, 2006

• DOI for Direct observation of individual endogenous protein complexes in situ by proximity ligation

Precise mapping of single-stranded DNA breaks by sequence-templated erroneous DNA polymerase end-labelling

Wenson, Leonie; Heldin, Johan; Martin, Marcel; Erbilgin, Yuecel et al.

Part of Nature Communications, 2025

• DOI for Precise mapping of single-stranded DNA breaks by sequence-templated erroneous DNA polymerase end-labelling
• Download full text (pdf) of Precise mapping of single-stranded DNA breaks by sequence-templated erroneous DNA polymerase end-labelling

Visualizing DNA single- and double-strand breaks in the Flash comet assay by DNA polymerase-assisted end-labelling

Bivehed, Erik; Hellman, Björn; Wenson, Leonie; Stenerlöw, Bo et al.

Part of Nucleic Acids Research, 2024

• DOI for Visualizing DNA single- and double-strand breaks in the Flash comet assay by DNA polymerase-assisted end-labelling
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Cellular responses to silencing of PDIA3 (protein disulphide-isomerase A3): Effects on proliferation, migration, and genes in control of active vitamin D

Kermpatsou, Despoina; Olsson, Frida; Wåhlén, Erik; Söderberg, Ola et al.

Part of Journal of Steroid Biochemistry and Molecular Biology, 2024

• DOI for Cellular responses to silencing of PDIA3 (protein disulphide-isomerase A3): Effects on proliferation, migration, and genes in control of active vitamin D
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Crosstalk between 1,25(OH)₂-Vitamin D₃ and the growth factors EGF and PDGF-BB: Impact on CYP24A1 expression and cell proliferation

Olsson, Frida; Wåhlén, Erik; Heldin, Johan; Söderberg, Ola et al.

Part of Biochemical and Biophysical Research Communications - BBRC, 2024

• DOI for Crosstalk between 1,25(OH)₂-Vitamin D₃ and the growth factors EGF and PDGF-BB: Impact on CYP24A1 expression and cell proliferation
• Download full text (pdf) of Crosstalk between 1,25(OH)₂-Vitamin D₃ and the growth factors EGF and PDGF-BB: Impact on CYP24A1 expression and cell proliferation

The method developer's guide to oligonucleotide design

Wenson, Leonie; Leino, Mattias; Jarvius, Malin; Heldin, Johan et al.

Part of Expert Review of Proteomics, p. 65-80, 2024

• DOI for The method developer's guide to oligonucleotide design
• Download full text (pdf) of The method developer's guide to oligonucleotide design

Precise mapping of single-stranded DNA breaks by sequence-templated erroneous DNA polymerase end-labelling

Wenson, Leonie; Heldin, Johan; Martin, Marcel; Erbilgin, Yuecel et al.

Part of Nature Communications, 2025

• DOI for Precise mapping of single-stranded DNA breaks by sequence-templated erroneous DNA polymerase end-labelling
• Download full text (pdf) of Precise mapping of single-stranded DNA breaks by sequence-templated erroneous DNA polymerase end-labelling

Visualizing DNA single- and double-strand breaks in the Flash comet assay by DNA polymerase-assisted end-labelling

Bivehed, Erik; Hellman, Björn; Wenson, Leonie; Stenerlöw, Bo et al.

Part of Nucleic Acids Research, 2024

• DOI for Visualizing DNA single- and double-strand breaks in the Flash comet assay by DNA polymerase-assisted end-labelling
• Download full text (pdf) of Visualizing DNA single- and double-strand breaks in the Flash comet assay by DNA polymerase-assisted end-labelling

Cellular responses to silencing of PDIA3 (protein disulphide-isomerase A3): Effects on proliferation, migration, and genes in control of active vitamin D

Kermpatsou, Despoina; Olsson, Frida; Wåhlén, Erik; Söderberg, Ola et al.

Part of Journal of Steroid Biochemistry and Molecular Biology, 2024

• DOI for Cellular responses to silencing of PDIA3 (protein disulphide-isomerase A3): Effects on proliferation, migration, and genes in control of active vitamin D
• Download full text (pdf) of Cellular responses to silencing of PDIA3 (protein disulphide-isomerase A3): Effects on proliferation, migration, and genes in control of active vitamin D

Crosstalk between 1,25(OH)₂-Vitamin D₃ and the growth factors EGF and PDGF-BB: Impact on CYP24A1 expression and cell proliferation

Olsson, Frida; Wåhlén, Erik; Heldin, Johan; Söderberg, Ola et al.

Part of Biochemical and Biophysical Research Communications - BBRC, 2024

• DOI for Crosstalk between 1,25(OH)₂-Vitamin D₃ and the growth factors EGF and PDGF-BB: Impact on CYP24A1 expression and cell proliferation
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PDGF-induced internalisation promotes proteolytic cleavage of PDGFRβ in mesenchymal cells

Rubin Sander, Marie; Tsiatsiou, Agni Karolina; Wang, Kehuan; Papadopoulos, Natalia et al.

Part of Growth Factors, p. 147-160, 2024

• DOI for PDGF-induced internalisation promotes proteolytic cleavage of PDGFRβ in mesenchymal cells
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Large-scale phage-based screening reveals extensive pan-viral mimicry of host short linear motifs

Mihalič, Filip; Simonetti, Leandro; Giudice, Girolamo; Rubin Sander, Marie et al.

Part of Nature Communications, 2023

• DOI for Large-scale phage-based screening reveals extensive pan-viral mimicry of host short linear motifs
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Purification of DNA oligonucleotides to improve hybridization chain reaction performance

Leino, Mattias; Söderberg, Ola

Part of New Biotechnology, p. 33-40, 2023

• DOI for Purification of DNA oligonucleotides to improve hybridization chain reaction performance
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Activated EGFR and PDGFR internalize in separate vesicles and downstream AKT and ERK1/2 signaling are differentially impacted by cholesterol depletion

Wåhlén, Erik; Olsson, Frida; Raykova, Doroteya; Söderberg, Ola et al.

Part of Biochemical and Biophysical Research Communications - BBRC, p. 195-201, 2023

• DOI for Activated EGFR and PDGFR internalize in separate vesicles and downstream AKT and ERK1/2 signaling are differentially impacted by cholesterol depletion
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A method for Boolean analysis of protein interactions at a molecular level

Raykova, Doroteya; Kermpatsou, Despoina; Malmqvist, Tony; Harrison, Philip J et al.

Part of Nature Communications, 2022

• DOI for A method for Boolean analysis of protein interactions at a molecular level
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Differential impact of lipid raft depletion on platelet-derived growth factor (PDGF)-induced ERK1/2 MAP-kinase, SRC and AKT signaling

Wåhlén, Erik; Olsson, Frida; Söderberg, Ola; Lennartsson, Johan et al.

Part of Cellular Signalling, 2022

• DOI for Differential impact of lipid raft depletion on platelet-derived growth factor (PDGF)-induced ERK1/2 MAP-kinase, SRC and AKT signaling
• Download full text (pdf) of Differential impact of lipid raft depletion on platelet-derived growth factor (PDGF)-induced ERK1/2 MAP-kinase, SRC and AKT signaling

In Situ Rolling Circle Amplification Förster Resonance Energy Transfer (RCA-FRET) for Washing-Free Real-Time Single-Protein Imaging

Frances-Soriano, Laura; Leino, Mattias; Dos Santos, Marcelina Cardoso; Kovacs, Daniel et al.

Part of Analytical Chemistry, p. 1842-1850, 2021

• DOI for In Situ Rolling Circle Amplification Förster Resonance Energy Transfer (RCA-FRET) for Washing-Free Real-Time Single-Protein Imaging

Flash-comet: Significantly improved speed and sensitivity of the comet assay through the introduction of lithium-based solutions and a more gentle lysis

Bivehed, Erik; Söderberg, Ola; Hellman, Björn

Part of Mutation research. Genetic toxicology and environmental mutagenesis, 2020

• DOI for Flash-comet: Significantly improved speed and sensitivity of the comet assay through the introduction of lithium-based solutions and a more gentle lysis

Optimization of proximity-dependent initiation of hybridization chain reaction for improved performance

Leino, Mattias; Heldin, Johan; Rubin Sander, Marie; Kermpatsou, Despoina et al.

Part of Molecular Systems Design & Engineering, p. 1058-1065, 2019

• DOI for Optimization of proximity-dependent initiation of hybridization chain reaction for improved performance
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In situ quantification of individual mRNA transcripts in melanocytes discloses gene regulation of relevance to speciation

Wu, Chi-Chih; Klaesson, Axel; Buskas, Julia; Ranefall, Petter et al.

Part of Journal of Experimental Biology, 2019

• DOI for In situ quantification of individual mRNA transcripts in melanocytes discloses gene regulation of relevance to speciation

Dynamin inhibitors impair platelet-derived growth factor beta-receptor dimerization and signaling

Heldin, Johan; Rubin Sander, Marie; Leino, Mattias; Thomsson, Sara et al.

Part of Experimental Cell Research, p. 69-79, 2019

• DOI for Dynamin inhibitors impair platelet-derived growth factor beta-receptor dimerization and signaling
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Improved efficiency of in situ protein analysis by proximity ligation using UnFold probes

Klaesson, Axel; Grannas, Karin; Ebai, Tonge; Heldin, Johan et al.

Part of Scientific Reports, 2018

• DOI for Improved efficiency of in situ protein analysis by proximity ligation using UnFold probes
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Insufficient antibody validation challenges oestrogen receptor beta research

Andersson, Sandra; Sundberg, Mårten; Pristovsek, Nusa; Ibrahim, Ahmed et al.

Part of Nature Communications, 2017

• DOI for Insufficient antibody validation challenges oestrogen receptor beta research
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Flow Cytometric Measurement of Blood Cells with BCR-ABL1 Fusion Protein in Chronic Myeloid Leukemia

Löf, Liza; Arngården, Linda; Olsson-Strömberg, Ulla; Siart, Benjamin et al.

Part of Scientific Reports, p. 1-9, 2017

• DOI for Flow Cytometric Measurement of Blood Cells with BCR-ABL1 Fusion Protein in Chronic Myeloid Leukemia
• Download full text (pdf) of Flow Cytometric Measurement of Blood Cells with BCR-ABL1 Fusion Protein in Chronic Myeloid Leukemia

The protein kinase LKB1 negatively regulates bone morphogenetic protein receptor signaling

Raja, Erna; Tzavlaki, Kalliopi; Vuilleumier, Robin; Edlund, Karolina et al.

Part of Oncotarget, p. 1120-1143, 2016

• DOI for The protein kinase LKB1 negatively regulates bone morphogenetic protein receptor signaling
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Detecting individual extracellular vesicles using a multicolor in situ proximity ligation assay with flow cytometric readout

Löf, Liza; Ebai, Tonge; Dubois, Louise; Wik, Lotta et al.

Part of Scientific Reports, 2016

• DOI for Detecting individual extracellular vesicles using a multicolor in situ proximity ligation assay with flow cytometric readout
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Single Chain Antibodies as Tools to Study transforming growth factor--Regulated SMAD Proteins in Proximity Ligation-Based Pharmacological Screens

Blokzijl, Andries; Zieba, Agata; Hust, Michael; Schirrmann, Thomas et al.

Part of Molecular & Cellular Proteomics, p. 1848-1856, 2016

• DOI for Single Chain Antibodies as Tools to Study transforming growth factor--Regulated SMAD Proteins in Proximity Ligation-Based Pharmacological Screens

Clinical Relevance Of Recurrent Allele-Specific Recombination Expressing The Wnt10Bivs1 Allele Variant In Acute Myeloid Leukemia

Beghini, A.; Lazzaroni, F.; Del Giacco, L.; Söderberg, Ola et al.

Part of Haematologica, p. 668-669, 2016

Antagonists of IGF: Vitronectin Interactions Inhibit IGF-I-Induced Breast Cancer Cell Functions

Kashyap, Abhishek S.; Shooter, Gary K.; Shokoohmand, Ali; McGovern, Jacqui et al.

Part of Molecular Cancer Therapeutics, p. 1602-1613, 2016

• DOI for Antagonists of IGF: Vitronectin Interactions Inhibit IGF-I-Induced Breast Cancer Cell Functions

Visualization of Borna Disease Virus Protein Interactions with Host Proteins using in situ Proximity Ligation Assay

Johansson Wensman, Jonas; Leuchowius, Karl-Johan; Yan, Jiting; Berg, Anna-Lena et al.

Part of British journal of virology, p. 11-23, 2016

• DOI for Visualization of Borna Disease Virus Protein Interactions with Host Proteins using in situ Proximity Ligation Assay

Crosstalk between Hippo and TGF beta: Subcellular Localization of YAP/TAZ/Smad Complexes

Grannas, Karin; Arngården, Linda; Lönn, Peter; Mazurkiewicz, Magdalena et al.

Part of Journal of Molecular Biology, p. 3407-3415, 2015

• DOI for Crosstalk between Hippo and TGF beta: Subcellular Localization of YAP/TAZ/Smad Complexes

Compaction of rolling circle amplification products increases signal integrity and signal–to–noise ratio

Clausson, Carl-Magnus; Arngården, Linda; Ishaq, Omer; Klaesson, Axel et al.

Part of Scientific Reports, 2015

• DOI for Compaction of rolling circle amplification products increases signal integrity and signal–to–noise ratio

Closing in on life - proximity dependent methods for life sciences

Koos, Björn; Söderberg, Ola

Part of Oncotarget, p. 17867-17868, 2015

Proximity-dependent initiation of hybridization chain reaction

Koos, Björn; Cane, Gaëlle; Grannas, Karin; Löf, Liza et al.

Part of Nature Communications, 2015

• DOI for Proximity-dependent initiation of hybridization chain reaction
• Download full text (pdf) of Proximity-dependent initiation of hybridization chain reaction

Functional loss of IκBε leads to NF-κB deregulation in aggressive chronic lymphocytic leukemia

Mansouri, Larry; Sutton, Lesley-Ann; Ljungström, Viktor; Bondza, Sina et al.

Part of Journal of Experimental Medicine, p. 833-843, 2015

• DOI for Functional loss of IκBε leads to NF-κB deregulation in aggressive chronic lymphocytic leukemia
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E-cadherin can limit the transforming properties of activating beta-catenin mutations

Huels, David J.; Ridgway, Rachel A.; Radulescu, Sorina; Leushacke, Marc et al.

Part of EMBO Journal, p. 2321-2333, 2015

• DOI for E-cadherin can limit the transforming properties of activating beta-catenin mutations

Detection of glyco-mucin profiles improves specificity of MUC16 and MUC1 biomarkers in ovarian serous tumours

Ricardo, Sara; Marcos-Silva, Lara; Pereira, Daniela; Pinto, Rita et al.

Part of Molecular Oncology, p. 503-512, 2015

• DOI for Detection of glyco-mucin profiles improves specificity of MUC16 and MUC1 biomarkers in ovarian serous tumours

Fine-Tuning of Smad Protein Function by Poly(ADP-Ribose) Polymerases and Poly(ADP-Ribose) Glycohydrolase during Transforming Growth Factor β Signaling

Dahl, Markus; Maturi, Varun; Lönn, Peter; Papoutsoglou, Panagiotis et al.

Part of PLOS ONE, 2014

• DOI for Fine-Tuning of Smad Protein Function by Poly(ADP-Ribose) Polymerases and Poly(ADP-Ribose) Glycohydrolase during Transforming Growth Factor β Signaling
• Download full text (pdf) of Fine-Tuning of Smad Protein Function by Poly(ADP-Ribose) Polymerases and Poly(ADP-Ribose) Glycohydrolase during Transforming Growth Factor β Signaling

Recurrent Mutations within the Nfkbie gene: A Novel Mechanism for NF-kappa B Deregulation in Aggressive Chronic Lymphocytic Leukemia

Mansouri, Larry; Sutton, Lesley-Ann; Ljungström, Viktor; Bondza, Sina et al.

Part of Blood, 2014

In situ detection of individual mRNA molecules and protein complexes or post-translational modifications using padlock probes combined with the in situ proximity ligation assay

Weibrecht, Irene; Lundin, Elin; Kiflemariam, Sara; Mignardi, Marco et al.

Part of Nature Protocols, p. 355-372, 2013

• DOI for In situ detection of individual mRNA molecules and protein complexes or post-translational modifications using padlock probes combined with the in situ proximity ligation assay

Parallel Visualization of Multiple Protein Complexes in Individual Cells in Tumor Tissue

Leuchowius, Karl-Johan; Clausson, Carl-Magnus; Grannas, Karin; Erbilgin, Yücel et al.

Part of Molecular & Cellular Proteomics, p. 1563-1571, 2013

• DOI for Parallel Visualization of Multiple Protein Complexes in Individual Cells in Tumor Tissue

Association of the Protein-Tyrosine Phosphatase DEP-1 with Its Substrate FLT3 Visualized by In Situ Proximity Ligation Assay

Bohmer, Sylvia-Annette; Weibrecht, Irene; Söderberg, Ola; Bohmer, Frank-D.

Part of PLOS ONE, 2013

• DOI for Association of the Protein-Tyrosine Phosphatase DEP-1 with Its Substrate FLT3 Visualized by In Situ Proximity Ligation Assay
• Download full text (pdf) of Association of the Protein-Tyrosine Phosphatase DEP-1 with Its Substrate FLT3 Visualized by In Situ Proximity Ligation Assay

Protein tag-mediated conjugation of oligonucleotides to recombinant affinity binders for proximity ligation

Gu, Gucci Jijuan; Friedman, Mikaela; Jost, Christian; Johnsson, Kai et al.

Part of New Biotechnology, p. 144-152, 2013

• DOI for Protein tag-mediated conjugation of oligonucleotides to recombinant affinity binders for proximity ligation

Specific interactions between Smad proteins and AP-1 components determine TGFβ-induced breast cancer cell invasion

Sundqvist, Anders; Zieba, Agata; Vasilaki, Eleftheria; Herrera Hidalgo, Carmen et al.

Part of Oncogene, p. 3606-3615, 2013

• DOI for Specific interactions between Smad proteins and AP-1 components determine TGFβ-induced breast cancer cell invasion

The importance of E-cadherin binding partners to evaluate the pathogenicity of E-cadherin missense mutations associated to HDGC

Figueiredo, Joana; Söderberg, Ola; Simoes-Correia, Joana; Grannas, Karin et al.

Part of European Journal of Human Genetics, p. 301-309, 2013

• DOI for The importance of E-cadherin binding partners to evaluate the pathogenicity of E-cadherin missense mutations associated to HDGC

P-cadherin functional role is dependent on E-cadherin cellular context: a proof of concept using the breast cancer model

Ribeiro, Ana Sofia; Sousa, Bárbara; Carreto, Laura; Mendes, Nuno et al.

Part of Journal of Pathology, p. 705-718, 2013

• DOI for P-cadherin functional role is dependent on E-cadherin cellular context: a proof of concept using the breast cancer model

Identification of new cancer biomarkers based on aberrant mucin glycoforms by in situ proximity ligation

Pinto, Rita; Carvalho, Ana S.; Conze, Tim; Magalhães, Ana et al.

Part of Journal of Cellular and Molecular Medicine, p. 1474-1484, 2012

• DOI for Identification of new cancer biomarkers based on aberrant mucin glycoforms by in situ proximity ligation

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

Dieterich, Lothar C.; Mellberg, Sofie; Langenkamp, Elise; Zhang, Lei et al.

Part of Journal of Pathology, p. 378-390, 2012

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

Visualising individual sequence-specific protein-DNA interactions in situ

Weibrecht, Irene; Gavrilovic, Milan; Lindbom, Lena; Landegren, Ulf et al.

Part of New Biotechnology, p. 589-598, 2012

• DOI for Visualising individual sequence-specific protein-DNA interactions in situ

Functional Overlap Between Chondroitin and Heparan Sulfate Proteoglycans During VEGF-Induced Sprouting Angiogenesis

Le Jan, Sébastien; Hayashi, Makoto; Kasza, Zsolt; Eriksson, Inger et al.

Part of Arteriosclerosis, Thrombosis and Vascular Biology, p. 1255-1263, 2012

• DOI for Functional Overlap Between Chondroitin and Heparan Sulfate Proteoglycans During VEGF-Induced Sprouting Angiogenesis

Intercellular variation in signaling through the TGF-β pathway and its relation to cell densityand cell cycle phase

Zieba, Agata; Pardali, Katerina; Söderberg, Ola; Lindbom, Lena et al.

Part of Molecular & Cellular Proteomics, 2012

• DOI for Intercellular variation in signaling through the TGF-β pathway and its relation to cell densityand cell cycle phase

Simultaneous visualization of both signaling cascade activity and end-point gene expression in single cells

Weibrecht, Irene; Grundberg, Ida; Nilsson, Mats; Söderberg, Ola

Part of PLOS ONE, 2011

• DOI for Simultaneous visualization of both signaling cascade activity and end-point gene expression in single cells

Automated Classification of Multicolored Rolling Circle Products in Dual-Channel Wide-Field Fluorescence Microscopy

Gavrilovic, Milan; Weibrecht, Irene; Conze, Tim; Söderberg, Ola et al.

Part of Cytometry Part A, p. 518-527, 2011

• DOI for Automated Classification of Multicolored Rolling Circle Products in Dual-Channel Wide-Field Fluorescence Microscopy

Prognostic but not predictive role of platelet-derived growth factor receptors in patients with recurrent glioblastoma

Paulsson, Janna; Lindh, Maja Bradic; Jarvius, Malin; Puputti, Marjut et al.

Part of International Journal of Cancer, p. 1981-1988, 2011

• DOI for Prognostic but not predictive role of platelet-derived growth factor receptors in patients with recurrent glioblastoma

Increasing the dynamic range of in situ PLA

Clausson, Carl-Magnus; Allalou, Amin; Weibrecht, Irene; Mahmoudi, Salah et al.

Part of Nature Methods, p. 892-893, 2011

• DOI for Increasing the dynamic range of in situ PLA

In situ proximity ligation assay for microscopy and flow cytometry

Leuchowius, Karl Johan; Weibrecht, Irene; Söderberg, Ola

Part of Current Protocols in Cytometry, 2011

• DOI for In situ proximity ligation assay for microscopy and flow cytometry

ADP-Ribosylation Factor 6 Mediates E-Cadherin Recovery by Chemical Chaperones

Figueiredo, Joana; Simoes-Correia, Joana; Söderberg, Ola; Suriano, Gianpaolo et al.

Part of PLOS ONE, 2011

• DOI for ADP-Ribosylation Factor 6 Mediates E-Cadherin Recovery by Chemical Chaperones

Western Blotting via Proximity Ligation for High Performance Protein Analysis

Liu, Yanling; Gu, Jijuan; Hagner-McWhirter, Asa; Sathiyanarayanan, Poojahrau et al.

Part of Molecular & Cellular Proteomics, 2011

• DOI for Western Blotting via Proximity Ligation for High Performance Protein Analysis

VEGF receptor 2/-3 heterodimers detected in situ by proximity ligation on angiogenic sprouts

Nilsson, Ingrid; Bahram, Fuad; Li, Xiujuan; Gualandi, Laura et al.

Part of EMBO Journal, p. 1377-1388, 2010

• DOI for VEGF receptor 2/-3 heterodimers detected in situ by proximity ligation on angiogenic sprouts

WRAP53 Is Essential for Cajal Body Formation and for Targeting the Survival of Motor Neuron Complex to Cajal Bodies

Mahmoudi, Salah; Henriksson, Sofia; Weibrecht, Irene; Smith, Stephen et al.

Part of PLoS biology, 2010

• DOI for WRAP53 Is Essential for Cajal Body Formation and for Targeting the Survival of Motor Neuron Complex to Cajal Bodies

High content screening for inhibitors of protein interactions and post-translational modifications in primary cells by proximity ligation

Leuchowius, Karl-Johan; Jarvius, Malin; Wickström, Malin; Rickardson, Linda et al.

Part of Molecular & Cellular Proteomics, p. 178-183, 2010

• DOI for High content screening for inhibitors of protein interactions and post-translational modifications in primary cells by proximity ligation

MUC2 mucin is a major carrier of the cancer-associated sialyl-Tn antigen in intestinal metaplasia and gastric carcinomas

Conze, Tim; Carvalho, Ana Sofia; Landegren, Ulf; Almeida, Raquel et al.

Part of Glycobiology, p. 199-206, 2010

• DOI for MUC2 mucin is a major carrier of the cancer-associated sialyl-Tn antigen in intestinal metaplasia and gastric carcinomas

Single-cell analyses of protein activity by in situ proximity ligation

Söderberg, Ola

Part of Journal of Biotechnology, 2010

• DOI for Single-cell analyses of protein activity by in situ proximity ligation

In situ detection and genotyping of individual mRNA molecules

Larsson, Chatarina; Grundberg, Ida; Söderberg, Ola; Nilsson, Mats

Part of Nature Methods, p. 395-397, 2010

• DOI for In situ detection and genotyping of individual mRNA molecules

Platelet-derived growth factor receptor expression and activation in choroid plexus tumors

Koos, Björn; Paulsson, Janna; Jarvius, Malin; Sanchez, Betzabe Chavez et al.

Part of American Journal of Pathology, p. 1631-1637, 2009

• DOI for Platelet-derived growth factor receptor expression and activation in choroid plexus tumors

A follicular dendritic cell line promotes somatic hypermutations in Ramos cells in vitro

Canedo, P.; Thorsélius, M.; Thunberg, Ulf; Sällström, J. et al.

Part of Scandinavian Journal of Immunology, p. 70-71, 2009

• DOI for A follicular dendritic cell line promotes somatic hypermutations in Ramos cells in vitro

Flow cytometric in situ proximity ligation analyses of protein interactions and post-translational modification of the epidermal growth factor receptor family

Leuchowius, Karl-Johan; Weibrecht, Irene; Landegren, Ulf; Gedda, Lars et al.

Part of Cytometry: Part A, p. 833-839, 2009

• DOI for Flow cytometric in situ proximity ligation analyses of protein interactions and post-translational modification of the epidermal growth factor receptor family

Functional interaction of DYX1C1 with estrogen receptors suggests involvement of hormonal pathways in dyslexia

Massinen, Satu; Tammimies, Kristiina; Tapia-Páez, Isabel; Matsson, Hans et al.

Part of Human Molecular Genetics, p. 2802-2812, 2009

• DOI for Functional interaction of DYX1C1 with estrogen receptors suggests involvement of hormonal pathways in dyslexia

Characterizing proteins and their interactions in cells and tissues using the in situ proximity ligation assay.

Söderberg, Ola; Leuchowius, Karl-Johan; Gullberg, Mats; Jarvius, Malin et al.

Part of Methods, p. 227-32, 2008

• DOI for Characterizing proteins and their interactions in cells and tissues using the in situ proximity ligation assay.

A new perspective: molecular motifs on oxidized LDL, apoptotic cells, and bacteria are targets for chronic lymphocytic leukemia antibodies

Lanemo Myhrinder, Anna; Hellqvist, Eva; Sidorova, Ekaterina; Söderberg, Anita et al.

Part of Blood, p. 3838-3848, 2008

• DOI for A new perspective: molecular motifs on oxidized LDL, apoptotic cells, and bacteria are targets for chronic lymphocytic leukemia antibodies

Novel and highly recurrent chromosomal alterations in Sézary syndrome

Vermeer, Maarten H; van Doorn, Remco; Dijkman, Remco; Mao, Xin et al.

Part of Cancer Research, p. 2689-2698, 2008

• DOI for Novel and highly recurrent chromosomal alterations in Sézary syndrome

Phosphorylation of inositol 1,4,5-trisphosphate receptors by protein kinase B/Akt inhibits Ca2+ release and apoptosis.

Szado, Tania; Vanderheyden, Veerle; Parys, Jan B; De Smedt, Humbert et al.

Part of Proceedings of the National Academy of Sciences of the United States of America, p. 2427-2432, 2008

• DOI for Phosphorylation of inositol 1,4,5-trisphosphate receptors by protein kinase B/Akt inhibits Ca2+ release and apoptosis.

U-2973, a novel B-cell line established from a patient with a mature B-cell leukemia displaying concurrent t(14;18) and MYC translocation to a non-IG gene partner

Boström, Hans; Leuchowius, Karl-Johan; Hallböök, Helene; Nordgren, Ann et al.

Part of European Journal of Haematology, p. 218-225, 2008

• DOI for U-2973, a novel B-cell line established from a patient with a mature B-cell leukemia displaying concurrent t(14;18) and MYC translocation to a non-IG gene partner

Ligation-based molecular tools for lab-on-a-chip devices

Melin, Jonas; Jarvius, Jonas; Larsson, Chatarina; Söderberg, Ola et al.

Part of New Biotechnology, p. 42-8, 2008

• DOI for Ligation-based molecular tools for lab-on-a-chip devices

Establishment of a cell line from a chemotherapy resistant diffuse large B-cell lymphoma

Berglund, Mattias; Thunberg, Ulf; Fridberg, Marie; Wingren, Anette Gjörloff et al.

Part of Leukemia and Lymphoma, p. 1038-1041, 2007

• DOI for Establishment of a cell line from a chemotherapy resistant diffuse large B-cell lymphoma

In situ detection of phosphorylated platelet-derived growth factor receptor beta using a generalized proximity ligation method

Jarvius, Malin; Paulsson, Janna; Weibrecht, Irene; Leuchowius, Karl-Johan et al.

Part of Molecular & Cellular Proteomics, p. 1500-1509, 2007

• DOI for In situ detection of phosphorylated platelet-derived growth factor receptor beta using a generalized proximity ligation method

Protein expression and cellular localization in two prognostic subgroups of diffuse large B-cell lymphoma: higher expression of ZAP70 and PKC-beta II in the non-germinal center group and poor survival in patients deficient in nuclear PTEN

Fridberg, Marie; Servin, Anna; Anagnostaki, Lola; Linderoth, Johan et al.

Part of Leukemia and Lymphoma, p. 2221-2232, 2007

• DOI for Protein expression and cellular localization in two prognostic subgroups of diffuse large B-cell lymphoma: higher expression of ZAP70 and PKC-beta II in the non-germinal center group and poor survival in patients deficient in nuclear PTEN

Direct observation of individual endogenous protein complexes in situ by proximity ligation

Söderberg, Ola; Gullberg, Mats; Jarvius, Malin; Ridderstråle, Karin et al.

Part of Nature Methods, p. 995-1000, 2006

• DOI for Direct observation of individual endogenous protein complexes in situ by proximity ligation

Thermoplastic microfluidic platform for single-molecule detection, cell culture and actuation

Melin, Jonas; Johansson, Henrik; Söderberg, Ola; Nikolajeff, Fredrik et al.

Part of Analytical Chemistry, p. 7122-30, 2005

• DOI for Thermoplastic microfluidic platform for single-molecule detection, cell culture and actuation

c-Myc associates with ribosomal DNA and activates RNA polymerase I transcription.

Arabi, Azadeh; Wu, Siqin; Ridderstråle, Karin; Bierhoff, Holger et al.

Part of Nat Cell Biol, p. 303-10, 2005

Patients with chronic lymphocytic leukemia with mutated VH genes presenting with Binet stage B or C form a subgroup with a poor outcome.

Tobin, Gerard; Thunberg, Ulf; Laurell, Anna; Karlsson, Karin et al.

Part of Haematologica, p. 465-9, 2005

Molecular tools for a molecular medicine: analyzing genes, transcripts and proteins using padlock and proximity probes

Landegren, Ulf; Schallmeiner, Edith; Nilsson, Mats; Fredriksson, Simon et al.

Part of Journal of Molecular Recognition, p. 194-7, 2004

• DOI for Molecular tools for a molecular medicine: analyzing genes, transcripts and proteins using padlock and proximity probes

Subsets with restricted immunoglobulin gene rearrangement features indicate a role for antigen selection in the development of chronic lymphocytic leukemia.

Tobin, Gerard; Thunberg, Ulf; Karlsson, Karin; Murray, Fiona et al.

Part of Blood, p. 2879-85, 2004

Elevated levels of soluble CD44 are associated with advanced disease and in vitro proliferation of neoplastic lymphocytes in B-cell chronic lymphocytic leukemia

Eisterer, Wolfgang; Bechter, Oliver; Söderberg, Ola; Nilsson, Kenneth et al.

Part of Leukemia Res, p. 1043-1051, 2004

Differentiation-associated redox-regulation in human B cell lines from stemcell/pro-B to plasma cell

Nilssson, Joacim; Söderberg, Ola; Nilsson, Kenneth; Rosén, Anders

Part of Immunology Letters, p. 83-89, 2004

Padlock and proximity probes for in situ and array-based analyses: tools for the post genomic era

Landegren, Ulf; Dahl, Fredrik; Nilsson, Mats; Fredriksson, Simon et al.

Part of Comparative and functional genomics, p. 525-30, 2003

• DOI for Padlock and proximity probes for in situ and array-based analyses: tools for the post genomic era

Mutated VH genes and preferential VH3-21 use define new subsets of mantle cell lymphoma.

Walsh, Sarah H; Thorsélius, Mia; Johnson, Anna; Söderberg, Ola et al.

Part of Blood, p. 4047-54, 2003

Chronic lymphocytic leukemias utilizing the VH3-21 gene display highly restricted Vlambda2-14 gene use and homologous CDR3s: implicating recognition of a common antigen epitope.

Tobin, Gerard; Thunberg, Ulf; Johnson, Anna; Eriksson, Inger et al.

Part of Blood, p. 4952-7, 2003

Response to "Do B-cell chronic lymphocytic leukemia patients with Ig VH3-21 genes constitute a new subset of chronic lymphocytic leukemia?": IgV_H3-21 gene usage in chronic lymphocytic leukemia

Tobin, Gerard; Thunberg, Ulf; Johnson, Anna; Söderberg, Ola et al.

Part of Blood, p. 1098-1099, 2002

• DOI for Response to "Do B-cell chronic lymphocytic leukemia patients with Ig VH3-21 genes constitute a new subset of chronic lymphocytic leukemia?": IgV_H3-21 gene usage in chronic lymphocytic leukemia

Polymorphism in the P2X7 receptor gene and survival in chronic lymphocytic leukaemia

Thunberg, Ulf; Tobin, Gerard; Johnson, Anna; Söderberg, Ola et al.

Part of The Lancet, p. 1935-1939, 2002

• DOI for Polymorphism in the P2X7 receptor gene and survival in chronic lymphocytic leukaemia

Somatically mutated Ig V(H)3-21 genes characterize a new subset of chronic lymphocytic leukemia

Tobin, Gerard; Thunberg, Ulf; Johnson, Anna; Thörn, Ingrid et al.

Part of Blood, p. 2262-2264, 2002

Thioredoxin prolongs survival of B-type chronic lymphocytic leukemia cells

Nilsson, J; Söderberg, Ola; Nilsson, Kenneth; Rosén, A

Part of Blood, p. 1420-1426, 2000

Staphylococcus aureus Cowan strain 1 activation of B-chronic lymphocytic leukaemia cells augments the response to CD40 stimulation.

Söderberg, O; Thunberg, U; Weigelt, C; Christiansen, I et al.

Part of Scand J Immunol, p. 363-70, 1999

CD40 ligation inhibits IL-2 and SAC+IL-2 induced proliferation in chronic lymphocytic leukaemia cells.

Söderberg, O; Christiansen, I; Carlsson, M; Nilsson, K

Part of Scand J Immunol, p. 706-14, 1997

The effects on growth and survival of IL-6 can be dissociated in the U-266-1970/U-266-1984 and HL407E/HL407L human multiple myeloma cell lines.

Spets, H; Jernberg-Wiklund, H; Sambade, C; Söderberg, O et al.

Part of Br J Haematol, p. 126-33, 1997

Interleukin-15 + thioredoxin induce DNA synthesis in B-chronic lymphocytic leukemia cells but not in normal B cells.

Söderberg, O; Christiansen, I; Nilsson, G; Carlsson, M et al.

Part of Leukemia, p. 1298-304, 1997

The effects on growth and survival of IL-6 can be dissociated in the U-266-1970/U-266-1984 and HL407E/HL407L human multiple myeloma cell lines.

Spets, H; Jernberg-Wiklund, H; Sambade, C; Soderberg, O et al.

Part of Br J Haematol, p. 126, 1997

The method developer's guide to oligonucleotide design

Wenson, Leonie; Leino, Mattias; Jarvius, Malin; Heldin, Johan et al.

Part of Expert Review of Proteomics, p. 65-80, 2024

• DOI for The method developer's guide to oligonucleotide design
• Download full text (pdf) of The method developer's guide to oligonucleotide design

Detection of Extracellular Vesicles Using Proximity Ligation Assay with Flow Cytometry Readout – ExoPLA: In Print

Löf, Liza; Arngården, Linda; Ebai, Tonge; Landegren, Ulf et al.

Part of Current Protocol in Cytometry, 2017

• DOI for Detection of Extracellular Vesicles Using Proximity Ligation Assay with Flow Cytometry Readout – ExoPLA: In Print

Let There Be Light!

Raykova, Doroteya; Koos, Bjoern; Asplund, Anna; Gelleri, Marton et al.

Part of Proteomes, 2016

• DOI for Let There Be Light!
• Download full text (pdf) of Let There Be Light!

Next-Generation Pathology: Surveillance of Tumor Microecology

Koos, Björn; Kamali-Moghaddam, Masood; David, Leonor; Sobrinho-Simoes, Manuel et al.

Part of Journal of Molecular Biology, p. 2013-2022, 2015

• DOI for Next-Generation Pathology: Surveillance of Tumor Microecology

Methods for analysis of the cancer microenvironment and their potential for disease prediction, monitoring and personalized treatments

Clausson, Carl-Magnus; Grundberg, Ida; Weibrecht, Irene; Nilsson, Mats et al.

Part of The EPMA journal, 2012

• DOI for Methods for analysis of the cancer microenvironment and their potential for disease prediction, monitoring and personalized treatments

Molecular tools for companion diagnostics

Zieba, Agata; Grannas, Karin; Söderberg, Ola; Gullberg, Mats et al.

Part of New Biotechnology, p. 634-640, 2012

• DOI for Molecular tools for companion diagnostics

Proximity ligation assays: a recent addition to the proteomics toolbox

Weibrecht, Irene; Leuchowius, Karl-Johan; Clausson, Carl-Magnus; Conze, Tim et al.

Part of Expert Reviews of Proteomics, p. 401-409, 2010

• DOI for Proximity ligation assays: a recent addition to the proteomics toolbox

Analysis of Genes, Transcripts, and Proteins via DNA Ligation

Conze, Tim; Shetye, Alysha; Tanaka, Yuki; Gu, Jijuan et al.

Part of Annual review of analytical chemistry, p. 215-239, 2009

• DOI for Analysis of Genes, Transcripts, and Proteins via DNA Ligation

Proximity ligation assays for sensitive and specific protein analyses.

Gustafsdottir, Sigrun M; Schallmeiner, Edith; Fredriksson, Simon; Gullberg, Mats et al.

Part of Anal Biochem, p. 2-9, 2005

V(H)3-21 gene usage in chronic lymphocytic leukemia--characterization of a new subgroup with distinct molecular features and poor survival.

Tobin, Gerard; Söderberg, Ola; Thunberg, Ulf; Rosenquist, Richard

Part of Leuk Lymphoma, p. 221-8, 2004

Protein Diagnostics by Proximity Ligation: Combining Multiple Recognition and DNA Amplification for Improved Protein Analyses

Cane, Gaëlle; Leuchowius, Karl-Johan; Söderberg, Ola; Kamali-Moghaddam, Masood et al.

Part of Molecular Diagnostics (Third Edition), p. 219-231, Academia Press, 2017

Analysis of protein interactions in situ by proximity ligation assays

Koos, Björn; Andersson, Linda; Clausson, Carl-Magnus; Grannas, Karin et al.

Part of High-Dimensional Single Cell Analysis, p. 111-26, Springer, 2014

• DOI for Analysis of protein interactions in situ by proximity ligation assays

Protein diagnostics by proximity ligation: Combining multiple recognition and DNA amplification for improved protein analysis

Leuchowius, Karl-Johan; Söderberg, Ola; Kamali-Moghaddam, Masood; Jarvius, Malin et al.

Part of Molecular Diagnostics, p. 299-306, Elsevier/Academic Press, 2010

Proximity ligation: a specific and versatile tool for the proteomic era.

Söderberg, Ola; Leuchowius, Karl-Johan; Kamali-Moghaddam, Masood; Jarvius, Malin et al.

Part of Genet Eng (N Y)., p. 190, Springer, 2007

A Novel Microfluidic Platform Design Combining Actuators, Cell Culturing and Sensitive Fluorescence Detection with Cheap Disposable Microchips

Melin, Jonas; Johansson, H.; Söderberg, Ola; Nikolajeff, Fredrik et al.

Part of Oral at microTAS-2004 conference, Lund, Sweden, 2004

Proximity Depended Initiation of Hybridization Chain Reaction

Koos, Björn; Cane, Gaëlle; Grannas, Karin; Clausson, Carl-Magnus et al.

Compaction of rolling circle amplification products increases signal strength and integrity

Clausson, Carl-Magnus; Söderberg, Ola; Arngården, Linda; Ishaq, Omer et al.

Target Engagement-Mediated Amplification for Monitoring Drug-Target Interactions in Situ

Al-Amin, Rasel A.; Johansson, Lars; Landegren, Nils; Löf, Liza et al.

Purification of detection hairpins improves the performance of proximity-dependent initiation of hybridization chain reaction

Leino, Mattias; Söderberg, Ola

The hunt for cancer biomarkers: Proximity ligation – a new technology for ultra-sensitive protein analysis

Alderborn, Anders; Kamali, Masood; Söderberg, Ola; Schlingemann, Heidi et al.

2006