Amin Allalou

TAF1, associated with intellectual disability in humans, is essential for embryogenesis and regulates neurodevelopmental processes in zebrafish

Gudmundsson, Sanna; Wilbe, Maria; Gorniok, Beata Filipek; Molin, Anna-Maja et al.

Ingår i Scientific Reports, 2019

• DOI för TAF1, associated with intellectual disability in humans, is essential for embryogenesis and regulates neurodevelopmental processes in zebrafish
• Ladda ner fulltext (pdf) av TAF1, associated with intellectual disability in humans, is essential for embryogenesis and regulates neurodevelopmental processes in zebrafish

Passive in-vehicle driver breath alcohol detection using advanced sensor signal acquisition and fusion

Ljungblad, Jonas; Hök, Bertil; Allalou, Amin; Pettersson, Håkan

Ingår i Traffic Injury Prevention, 2017

• DOI för Passive in-vehicle driver breath alcohol detection using advanced sensor signal acquisition and fusion
• Ladda ner fulltext (pdf) av Passive in-vehicle driver breath alcohol detection using advanced sensor signal acquisition and fusion

Decoding gene expression in 2D and 3D

Bombrun, Maxime; Ranefall, Petter; Lindblad, Joakim; Allalou, Amin et al.

Ingår i Image Analysis, s. 257-268, 2017

• DOI för Decoding gene expression in 2D and 3D
• Ladda ner fulltext (pdf) av Decoding gene expression in 2D and 3D

Automated deep-phenotyping of the vertebrate brain

Allalou, Amin; Wu, Yuelong; Ghannad-Rezaie, Mostafa; Eimon, Peter M. et al.

Ingår i eLIFE, 2017

• DOI för Automated deep-phenotyping of the vertebrate brain

High-throughput hyperdimensional vertebrate phenotyping

Pardo-Martin, Carlos; Allalou, Amin; Medina, Jaime; Eimon, Peter M. et al.

Ingår i Nature Communications, s. 1467, 2013

• DOI för High-throughput hyperdimensional vertebrate phenotyping

Fully automated cellular-resolution vertebrate screening platform with parallel animal processing

Chang, Tsung-Yao; Pardo-Martin, Carlos; Allalou, Amin; Wählby, Carolina et al.

Ingår i Lab on a Chip, s. 711-716, 2012

• DOI för Fully automated cellular-resolution vertebrate screening platform with parallel animal processing

Methods for 2D and 3D Quantitative Microscopy of Biological Samples

Allalou, Amin

2011

• Ladda ner fulltext (pdf) av Methods for 2D and 3D Quantitative Microscopy of Biological Samples

High-throughput cellular-resolution in vivo vertebrate screening

Pardo-Martin, Carlos; Chang, Tsung-Yao; Allalou, Amin; Wählby, Carolina et al.

Ingår i Proc. 15th International Conference on Miniaturized Systems for Chemistry and Life Sciences, 2011

Increasing the dynamic range of in situ PLA

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

Ingår i Nature Methods, s. 892-893, 2011

• DOI för Increasing the dynamic range of in situ PLA

Signal Detection in 3D by Stable Wave Signal Verification

Allalou, Amin; Wählby, Carolina

Ingår i Proceedings of SSBA 2009, 2009

BlobFinder, a tool for fluorescence microscopy image cytometry

Allalou, Amin; Wählby, Carolina

Ingår i Computer Methods and Programs in Biomedicine, s. 58-65, 2009

• DOI för BlobFinder, a tool for fluorescence microscopy image cytometry
• Ladda ner fulltext (pdf) av BlobFinder, a tool for fluorescence microscopy image cytometry

A detailed analysis of 3D subcellular signal localization

Pinidiyaarachchi, Amalka; Zieba, Agata; Allalou, Amin; Pardali, Katerina et al.

Ingår i Cytometry Part A, s. 319-328, 2009

• DOI för A detailed analysis of 3D subcellular signal localization

Image Based Measurements of Single Cell mtDNA Mutation Load

Allalou, Amin; van de Rijke, Frans M.; Jahangir Tafrechi, Roos; Raap, Anton K. et al.

Ingår i Image Analysis, Proceedings, s. 631-640, 2007

• DOI för Image Based Measurements of Single Cell mtDNA Mutation Load

Image based measurements of single cell mtDNA mutation load MTD 2007

Allalou, Amin; van de Rijke, Frans; Jahangir Tafrechi, Roos; Raap, Anton et al.

Ingår i Medicinteknikdagarna 2007, 2007

Segmentation of Cytoplasms of Cultured Cells

Allalou, Amin; Wählby, Carolina; van de Rijke, Frans; Jahangir Tafrechi, Roos et al.

Ingår i In Proceedings SSBA 2007, Symposium on image analysis, Linköping, 2007

Genome-wide interaction study with body mass index identifies CYP7A1 and GIPR as genetic modulators of metabolic dysfunction-associated steatotic liver disease

Jamialahmadi, Oveis; Mujica, Endrina; Morris, Lowri; Mancina, Rosellina Margherita et al.

Ingår i Clinical and Molecular Hepatology, s. 1252-1268, 2025

• DOI för Genome-wide interaction study with body mass index identifies CYP7A1 and GIPR as genetic modulators of metabolic dysfunction-associated steatotic liver disease
• Ladda ner fulltext (pdf) av Genome-wide interaction study with body mass index identifies CYP7A1 and GIPR as genetic modulators of metabolic dysfunction-associated steatotic liver disease

Pharmacological activation of p53 induces dose-dependent changes in endothelial cell fate during angiogenic sprouting

Al-Radi, Omayma; Ingelshed, Katrine; Eichhorn, Lisa; Josefsson, Heidi et al.

Ingår i Cell Death and Disease, 2025

• DOI för Pharmacological activation of p53 induces dose-dependent changes in endothelial cell fate during angiogenic sprouting
• Ladda ner fulltext (pdf) av Pharmacological activation of p53 induces dose-dependent changes in endothelial cell fate during angiogenic sprouting

Protocol to computationally average confocal images of zebrafish lymphatic vessels to identify phenotypes

Arnold, Hannah; Panara, Virginia; Allalou, Amin; Koltowska, Katarzyna

Ingår i STAR Protocols, 2025

• DOI för Protocol to computationally average confocal images of zebrafish lymphatic vessels to identify phenotypes
• Ladda ner fulltext (pdf) av Protocol to computationally average confocal images of zebrafish lymphatic vessels to identify phenotypes

Functionally characterizing obesity-susceptibility genes using CRISPR/Cas9, in vivo imaging and deep learning.

Mazzaferro, Eugenia; Mujica, Endrina; Zhang, Hanqing; Emmanouilidou, Anastasia et al.

Ingår i Scientific Reports, s. 5408, 2025

• DOI för Functionally characterizing obesity-susceptibility genes using CRISPR/Cas9, in vivo imaging and deep learning.
• Ladda ner fulltext (pdf) av Functionally characterizing obesity-susceptibility genes using CRISPR/Cas9, in vivo imaging and deep learning.

Aurora kinase B is required for growth and expansion of medulloblastoma cells in the tissue context

Gries, Alexandre; Kumar, Karthiga Santhana; Kuttler, Fabien; Özalp, Özgün et al.

Ingår i Neoplasia, 2025

• DOI för Aurora kinase B is required for growth and expansion of medulloblastoma cells in the tissue context
• Ladda ner fulltext (pdf) av Aurora kinase B is required for growth and expansion of medulloblastoma cells in the tissue context

Genome-wide interaction study with body mass index identifies CYP7A1 and GIPR as genetic modulators of metabolic dysfunction-associated steatotic liver disease

Jamialahmadi, Oveis; Mujica, Endrina; Morris, Lowri; Mancina, Rosellina Margherita et al.

Ingår i Clinical and Molecular Hepatology, s. 1252-1268, 2025

• DOI för Genome-wide interaction study with body mass index identifies CYP7A1 and GIPR as genetic modulators of metabolic dysfunction-associated steatotic liver disease
• Ladda ner fulltext (pdf) av Genome-wide interaction study with body mass index identifies CYP7A1 and GIPR as genetic modulators of metabolic dysfunction-associated steatotic liver disease

Pharmacological activation of p53 induces dose-dependent changes in endothelial cell fate during angiogenic sprouting

Al-Radi, Omayma; Ingelshed, Katrine; Eichhorn, Lisa; Josefsson, Heidi et al.

Ingår i Cell Death and Disease, 2025

• DOI för Pharmacological activation of p53 induces dose-dependent changes in endothelial cell fate during angiogenic sprouting
• Ladda ner fulltext (pdf) av Pharmacological activation of p53 induces dose-dependent changes in endothelial cell fate during angiogenic sprouting

Protocol to computationally average confocal images of zebrafish lymphatic vessels to identify phenotypes

Arnold, Hannah; Panara, Virginia; Allalou, Amin; Koltowska, Katarzyna

Ingår i STAR Protocols, 2025

• DOI för Protocol to computationally average confocal images of zebrafish lymphatic vessels to identify phenotypes
• Ladda ner fulltext (pdf) av Protocol to computationally average confocal images of zebrafish lymphatic vessels to identify phenotypes

Functionally characterizing obesity-susceptibility genes using CRISPR/Cas9, in vivo imaging and deep learning.

Mazzaferro, Eugenia; Mujica, Endrina; Zhang, Hanqing; Emmanouilidou, Anastasia et al.

Ingår i Scientific Reports, s. 5408, 2025

• DOI för Functionally characterizing obesity-susceptibility genes using CRISPR/Cas9, in vivo imaging and deep learning.
• Ladda ner fulltext (pdf) av Functionally characterizing obesity-susceptibility genes using CRISPR/Cas9, in vivo imaging and deep learning.

Aurora kinase B is required for growth and expansion of medulloblastoma cells in the tissue context

Gries, Alexandre; Kumar, Karthiga Santhana; Kuttler, Fabien; Özalp, Özgün et al.

Ingår i Neoplasia, 2025

• DOI för Aurora kinase B is required for growth and expansion of medulloblastoma cells in the tissue context
• Ladda ner fulltext (pdf) av Aurora kinase B is required for growth and expansion of medulloblastoma cells in the tissue context

Multiple cis-regulatory elements control prox1a expression in distinct lymphatic vascular beds

Panara, Virginia; Yu, Hujun; Peng, Di; Staxäng, Karin et al.

Ingår i Development, 2024

• DOI för Multiple cis-regulatory elements control prox1a expression in distinct lymphatic vascular beds

mafba and mafbb differentially regulate lymphatic endothelial cell migration in topographically distinct manners

Arnold, Hannah; Panara, Virginia; Hussmann, Melina; Gorniok, Beata Filipek et al.

Ingår i Cell Reports, 2022

• DOI för mafba and mafbb differentially regulate lymphatic endothelial cell migration in topographically distinct manners
• Ladda ner fulltext (pdf) av mafba and mafbb differentially regulate lymphatic endothelial cell migration in topographically distinct manners

Chondroitin/dermatan sulfate glycosyltransferase genes are essential for craniofacial development

Habicher, Judith; Varshney, Gaurav K.; Waldmann, Laura; Snitting, Daniel et al.

Ingår i PLOS Genetics, 2022

• DOI för Chondroitin/dermatan sulfate glycosyltransferase genes are essential for craniofacial development
• Ladda ner fulltext (pdf) av Chondroitin/dermatan sulfate glycosyltransferase genes are essential for craniofacial development

The Role of Gdf5 in the Development of the Zebrafish Fin Endoskeleton

Waldmann, Laura; Leyhr, Jake; Zhang, Hanqing; Allalou, Amin et al.

Ingår i Developmental Dynamics, s. 1535-1549, 2022

• DOI för The Role of Gdf5 in the Development of the Zebrafish Fin Endoskeleton
• Ladda ner fulltext (pdf) av The Role of Gdf5 in the Development of the Zebrafish Fin Endoskeleton

A novel cis-regulatory element drives early expression of Nkx3.2 in the gnathostome primary jaw joint

Leyhr, Jake; Waldmann, Laura; Filipek-Górniok, Beata; Zhang, Hanqing et al.

Ingår i eLIFE, 2022

• DOI för A novel cis-regulatory element drives early expression of Nkx3.2 in the gnathostome primary jaw joint
• Ladda ner fulltext (pdf) av A novel cis-regulatory element drives early expression of Nkx3.2 in the gnathostome primary jaw joint

The broad role of Nkx3.2 in the development of the zebrafish axial skeleton

Waldmann, Laura; Leyhr, Jake; Zhang, Hanqing; Öhman, Caroline et al.

Ingår i PLOS ONE, 2021

• DOI för The broad role of Nkx3.2 in the development of the zebrafish axial skeleton
• Ladda ner fulltext (pdf) av The broad role of Nkx3.2 in the development of the zebrafish axial skeleton

Translating GWAS-identified loci for cardiac rhythm and rate using an in vivo image- and CRISPR/Cas9-based approach

von der Heyde, Benedikt; Emmanouilidou, Anastasia; Mazzaferro, Eugenia; Vicenzi, Silvia et al.

Ingår i Scientific Reports, 2020

• DOI för Translating GWAS-identified loci for cardiac rhythm and rate using an in vivo image- and CRISPR/Cas9-based approach
• Ladda ner fulltext (pdf) av Translating GWAS-identified loci for cardiac rhythm and rate using an in vivo image- and CRISPR/Cas9-based approach

zOPT: an open source optical projection tomography system and methods for rapid 3D zebrafish imaging

Zhang, Hanqing; Waldmann, Laura; Manuel, Remy; Boije, Henrik et al.

Ingår i Biomedical Optics Express, s. 4290-4305, 2020

• DOI för zOPT: an open source optical projection tomography system and methods for rapid 3D zebrafish imaging
• Ladda ner fulltext (pdf) av zOPT: an open source optical projection tomography system and methods for rapid 3D zebrafish imaging

Behavioral Characterization of dmrt3a Mutant Zebrafish Reveals Crucial Aspects of Vertebrate Locomotion through Phenotypes Related to Acceleration

del Pozo, Ana; Manuel, Remy; Iglesias Gonzalez, Ana Belen; Koning, Harmen Kornelis et al.

Ingår i eNeuro, 2020

• DOI för Behavioral Characterization of dmrt3a Mutant Zebrafish Reveals Crucial Aspects of Vertebrate Locomotion through Phenotypes Related to Acceleration
• Ladda ner fulltext (pdf) av Behavioral Characterization of dmrt3a Mutant Zebrafish Reveals Crucial Aspects of Vertebrate Locomotion through Phenotypes Related to Acceleration

TAF1, associated with intellectual disability in humans, is essential for embryogenesis and regulates neurodevelopmental processes in zebrafish

Gudmundsson, Sanna; Wilbe, Maria; Gorniok, Beata Filipek; Molin, Anna-Maja et al.

Ingår i Scientific Reports, 2019

• DOI för TAF1, associated with intellectual disability in humans, is essential for embryogenesis and regulates neurodevelopmental processes in zebrafish
• Ladda ner fulltext (pdf) av TAF1, associated with intellectual disability in humans, is essential for embryogenesis and regulates neurodevelopmental processes in zebrafish

Brain activity patterns in high-throughput electrophysiology screen predict both drug efficacies and side effects.

Eimon, Peter M; Ghannad-Rezaie, Mostafa; De Rienzo, Gianluca; Allalou, Amin et al.

Ingår i Nature Communications, 2018

• DOI för Brain activity patterns in high-throughput electrophysiology screen predict both drug efficacies and side effects.
• Ladda ner fulltext (pdf) av Brain activity patterns in high-throughput electrophysiology screen predict both drug efficacies and side effects.

Passive in-vehicle driver breath alcohol detection using advanced sensor signal acquisition and fusion

Ljungblad, Jonas; Hök, Bertil; Allalou, Amin; Pettersson, Håkan

Ingår i Traffic Injury Prevention, 2017

• DOI för Passive in-vehicle driver breath alcohol detection using advanced sensor signal acquisition and fusion
• Ladda ner fulltext (pdf) av Passive in-vehicle driver breath alcohol detection using advanced sensor signal acquisition and fusion

Automated deep-phenotyping of the vertebrate brain

Allalou, Amin; Wu, Yuelong; Ghannad-Rezaie, Mostafa; Eimon, Peter M. et al.

Ingår i eLIFE, 2017

• DOI för Automated deep-phenotyping of the vertebrate brain

High-throughput hyperdimensional vertebrate phenotyping

Pardo-Martin, Carlos; Allalou, Amin; Medina, Jaime; Eimon, Peter M. et al.

Ingår i Nature Communications, s. 1467, 2013

• DOI för High-throughput hyperdimensional vertebrate phenotyping

Fully automated cellular-resolution vertebrate screening platform with parallel animal processing

Chang, Tsung-Yao; Pardo-Martin, Carlos; Allalou, Amin; Wählby, Carolina et al.

Ingår i Lab on a Chip, s. 711-716, 2012

• DOI för Fully automated cellular-resolution vertebrate screening platform with parallel animal processing

Increasing the dynamic range of in situ PLA

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

Ingår i Nature Methods, s. 892-893, 2011

• DOI för Increasing the dynamic range of in situ PLA

Robust signal detection in 3D fluorescence microscopy

Allalou, Amin; Pinidiyaarachchi, Amalka; Wählby, Carolina

Ingår i Cytometry. Part A, s. 86-96, 2010

• DOI för Robust signal detection in 3D fluorescence microscopy

BlobFinder, a tool for fluorescence microscopy image cytometry

Allalou, Amin; Wählby, Carolina

Ingår i Computer Methods and Programs in Biomedicine, s. 58-65, 2009

• DOI för BlobFinder, a tool for fluorescence microscopy image cytometry
• Ladda ner fulltext (pdf) av BlobFinder, a tool for fluorescence microscopy image cytometry

A detailed analysis of 3D subcellular signal localization

Pinidiyaarachchi, Amalka; Zieba, Agata; Allalou, Amin; Pardali, Katerina et al.

Ingår i Cytometry Part A, s. 319-328, 2009

• DOI för A detailed analysis of 3D subcellular signal localization

Single-cell A3243G mitochondrial DNA mutation load assays for segregation analysis

Jahangir Tafrechi, Roshan S.; van de Rijke, Frans M.; Allalou, Amin; Larsson, Chatarina et al.

Ingår i Journal of Histochemistry and Cytochemistry, s. 1159-1166, 2007

• DOI för Single-cell A3243G mitochondrial DNA mutation load assays for segregation analysis

Methods for 2D and 3D Quantitative Microscopy of Biological Samples

Allalou, Amin

2011

• Ladda ner fulltext (pdf) av Methods for 2D and 3D Quantitative Microscopy of Biological Samples

Decoding gene expression in 2D and 3D

Bombrun, Maxime; Ranefall, Petter; Lindblad, Joakim; Allalou, Amin et al.

Ingår i Image Analysis, s. 257-268, 2017

• DOI för Decoding gene expression in 2D and 3D
• Ladda ner fulltext (pdf) av Decoding gene expression in 2D and 3D

Isotropic 3D imaging of biological specimens at micro and nano scale

Pacureanu, Alexandra; Peyrin, Francoise; Langer, Max; Ishaq, Omer et al.

2012

Making isotropic 3D imaging at microscopic scale accessible to every lab

Pacureanu, Alexandra; Ishaq, Omer; Allalou, Amin; Wählby, Carolina

2012

Cuanto: A Tool for Quantification of Bone Tissue in the Proximityof Implants

Sarve, Hamid; Allalou, Amin; B. Johansson, Carina

Ingår i Proceedings of SSBA 2011, 2011

Approaches for increasing throughput andinformation content of image-based zebrafishscreens

Allalou, Amin; Curic, Vladimir; Pardo-Martin, Carlos; Yanik, Mehmet Fatih et al.

Ingår i Proceeding of SSBA 2011, 2011

High-throughput cellular-resolution in vivo vertebrate screening

Pardo-Martin, Carlos; Chang, Tsung-Yao; Allalou, Amin; Wählby, Carolina et al.

Ingår i Proc. 15th International Conference on Miniaturized Systems for Chemistry and Life Sciences, 2011

Signal Detection in 3D by Stable Wave Signal Verification

Allalou, Amin; Wählby, Carolina

Ingår i Proceedings of SSBA 2009, 2009

Image Based Measurements of Single Cell mtDNA Mutation Load

Allalou, Amin; van de Rijke, Frans M.; Jahangir Tafrechi, Roos; Raap, Anton K. et al.

Ingår i Image Analysis, Proceedings, s. 631-640, 2007

• DOI för Image Based Measurements of Single Cell mtDNA Mutation Load

Image based measurements of single cell mtDNA mutation load MTD 2007

Allalou, Amin; van de Rijke, Frans; Jahangir Tafrechi, Roos; Raap, Anton et al.

Ingår i Medicinteknikdagarna 2007, 2007

Segmentation of Cytoplasms of Cultured Cells

Allalou, Amin; Wählby, Carolina; van de Rijke, Frans; Jahangir Tafrechi, Roos et al.

Ingår i In Proceedings SSBA 2007, Symposium on image analysis, Linköping, 2007

The Broad Role of Nkx3.2 in the Development of the Zebrafish Axial Skeleton

Waldmann, Laura; Leyhr, Jake; Zhang, Hanqing; Öhman, Caroline et al.

• DOI för The Broad Role of Nkx3.2 in the Development of the Zebrafish Axial Skeleton

An evolutionarily conserved cis-regulatory element of nkx3.2 drives jaw joint-specific expression in zebrafish

Waldmann, Laura; Leyhr, Jake; Filipek-Gorniok, Beata; Zhang, Hanqing et al.

Distinct cis-regulatory elements drive prox1a expression in specific lymphatic vascular beds

Panara, Virginia; Yu, Oliver; Peng, Di; Skoczylas, Renae et al.

Kita crispants for systematic image-based genetic screens of complex traits in zebrafish larvae

Mazzaferro, Eugenia; Metzendorf, Christoph; Zhang, Hanqing; Mujica, Endrina et al.

Characterizing obesity-susceptibility genes using CRISPR/Cas9, in vivo imaging and deep learning

Mazzaferro, Eugenia; Mujica, Endrina; Zhang, Hanqing; Emmanouilidou, Anastasia et al.

Characterizing candidate genes in GWAS-identified loci that may uncouple excess adiposity from its comorbidities

Mazzaferro, Eugenia; Zhang, Hanqing; Mujica, Endrina; Azizah, Isyatul et al.