Recent publications

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 Download full text (pdf) of Purification of DNA oligonucleotides to improve hybridization chain reaction performance

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.

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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

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 Download full text (pdf) of Dynamin inhibitors impair platelet-derived growth factor beta-receptor dimerization and signaling

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

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.

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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.

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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

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

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 Download full text (pdf) of Insufficient antibody validation challenges oestrogen receptor beta research

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, 2017.

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

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.

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 Download full text (pdf) of Detecting individual extracellular vesicles using a multicolor in situ proximity ligation assay with flow cytometric readout

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!

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

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 Download full text (pdf) of The protein kinase LKB1 negatively regulates bone morphogenetic protein receptor signaling

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

Closing in on life - proximity dependent methods for life sciences

Koos, Björn; Söderberg, Ola

Part of OncoTarget, p. 17867-17868, 2015.

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, p. 12317:1-10, 2015.

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

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

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

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

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 Download full text (pdf) of Functional loss of IκBε leads to NF-κB deregulation in aggressive chronic lymphocytic leukemia

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

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

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, 2014.

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

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, p. e103651-, 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.

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, p. e62871-, 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

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

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

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

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

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 (Print), p. 1474-1484, 2012.

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

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

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

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

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, p. e23188-, 2011.

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

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

In situ proximity ligation assay for microscopy and flow cytometry

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

Part of Current Protocols in Cytometry, p. Unit 9.36-, 2011.

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

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

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