Alireza Mashaghi

Affiliations

Medical Systems Biophysics and Bioengineering, Leiden Academic Centre for Drug Research, Faculty of Science, Leiden University, Leiden, The Netherlands.
Centre for Interdisciplinary Genome Research, Faculty of Science, Leiden University, Leiden, The Netherlands.

ORCID: 0000-0002-2157-1211

Publications (43)

Topological dynamics of an intrinsically disordered N-terminal domain of the human androgen receptor.

Protein science : a publication of the Protein Society

Avec: Vahid Sheikhhassani , Barbara Scalvini , Julian Ng , Laurens W H J Heling , Yosri Ayache , Tom M J Evers , Eva Estébanez-Perpiñá , Iain J McEwan , Alireza Mashaghi

Capillary microsampling-based single-cell metabolomics by mass spectrometry and its applications in medicine and drug discovery.

Cancer biomarkers : section A of Disease markers

Avec: Yasmine Abouleila , Ahmed Ali , Keiko Masuda , Alireza Mashaghi , Yoshihiro Shimizu

ProteinCT: An implementation of the protein circuit topology framework.

MethodsX

Avec: Duane Moes , Elnaz Banijamali , Vahid Sheikhhassani , Barbara Scalvini , Jaie Woodard , Alireza Mashaghi

Random forest and live single-cell metabolomics reveal metabolic profiles of human macrophages upon polarization.

Biotechnology and bioengineering

Avec: Huaqi Tang , Ahmed Ali , Eman Abdelazem , Tom H M Ottenhoff , Ron M A Heeren , Alireza Mashaghi

Generalized Circuit Topology of Folded Linear Chains.

iScience

Avec: Anatoly Golovnev , Alireza Mashaghi

Mapping a single-molecule folding process onto a topological space.

Physical chemistry chemical physics : PCCP

Avec: Maziar Heidari , Vahid Satarifard , Alireza Mashaghi

Bioelectronics of The Cellular Cytoskeleton: Monitoring Cytoskeletal Conductance Variation for Sensing Drug Resistance.

ACS sensors

Avec: Milad Gharooni , Alireza Alikhani , Hassan Moghtaderi , Hamed Abiri , Alireza Mashaghi , Fereshteh Abbasvandi , Mohammad Ali Khayamian , Zohreh Sadat Miripour , Ashkan Zandi , Mohammad Abdolahad

Topological principles of protein folding.

Physical chemistry chemical physics : PCCP

Avec: Barbara Scalvini , Vahid Sheikhhassani , Alireza Mashaghi

Direct observation of Hsp90-induced compaction in a protein chain.

Cell reports

Avec: Alireza Mashaghi , Fatemeh Moayed , Eline J Koers , Yang Zheng , Katharina Till , Günter Kramer , Matthias P Mayer , Sander J Tans

Probing human immune cell mechanics using acoustic force spectroscopy.

STAR protocols

Avec: Tom M J Evers , Mehrad Babaei , Alireza Mashaghi

Nuclear receptor Nur77 regulates immunomechanics of macrophages.

European journal of cell biology

Avec: Sanne C Lith , Tom M J Evers , Beatriz Marton Freire , Claudia M van Tie , Winnie G Vosa , Alireza Mashaghi , Carlie J M de Vries

Correction to: Signaling lipids as diagnostic biomarkers for ocular surface cicatrizing conjunctivitis.

Journal of molecular medicine (Berlin, Germany)

Avec: Antonio Di Zazzo , Wei Yang , Marco Coassin , Alessandra Micera , Marco Antonini , Fabrizio Piccinni , Maria De Piano , Isabelle Kohler , Amy C Harms , Thomas Hankemeier , Stefano Bonini , Alireza Mashaghi

Ebola Hemorrhagic Shock Syndrome-on-a-Chip.

iScience

Avec: Abidemi Junaid , Huaqi Tang , Anne van Reeuwijk , Yasmine Abouleila , Petra Wuelfroth , Vincent van Duinen , Wendy Stam , Anton Jan van Zonneveld , Thomas Hankemeier , Alireza Mashaghi

OptCAM: An ultra-fast all-optical architecture for DNA variant discovery.

Journal of biophotonics

Avec: Ehsan Maleki , Somayyeh Koohi , Zahra Kavehvash , Alireza Mashaghi

Selenium nanoparticles for targeted stroke therapy through modulation of inflammatory and metabolic signaling.

Scientific reports

Avec: Hamed Amani , Rouhollah Habibey , Fereshteh Shokri , Seyed Javad Hajmiresmail , Omid Akhavan , Alireza Mashaghi , Hamidreza Pazoki-Toroudi

A Microfluidics-Based Screening Tool to Assess the Impact of Blood Plasma Factors on Microvascular Integrity.

Advanced biology

Avec: Abidemi Junaid , Vincent van Duinen , Wendy Stam , Sophie Dólleman , Wei Yang , Yolanda de Rijke , Hendrik Endeman , Cees van Kooten , Alireza Mashaghi , Hetty de Boer , Janine van Gils , Thomas Hankemeier , Anton Jan van Zonneveld

Aggregation and structural phase transitions of semiflexible polymer bundles: A braided circuit topology approach.

iScience

Avec: Jonas Berx , Alireza Mashaghi

A tile model of circuit topology for self-entangled biopolymers.

Scientific reports

Avec: Erica Flapan , Alireza Mashaghi , Helen Wong

Ebola virus-like particles reprogram cellular metabolism.

Journal of molecular medicine (Berlin, Germany)

Avec: Huaqi Tang , Yasmine Abouleila , Anno Saris , Yoshihiro Shimizu , Tom H M Ottenhoff , Alireza Mashaghi

Lassa hemorrhagic shock syndrome-on-a-chip.

Biotechnology and bioengineering

Avec: Huaqi Tang , Yasmine Abouleila , Alireza Mashaghi

Deciphering Metabolic Heterogeneity by Single-Cell Analysis.

Analytical chemistry

Avec: Tom M J Evers , Mazène Hochane , Sander J Tans , Ron M A Heeren , Stefan Semrau , Peter Nemes , Alireza Mashaghi

Development of poly (mannitol sebacate)/poly (lactic acid) nanofibrous scaffolds with potential applications in tissue engineering.

Materials science & engineering. C, Materials for biological applications

Avec: Mahya Rahmani , Mohammad-Mehdi Khani , Shahram Rabbani , Alireza Mashaghi , Farsad Noorizadeh , Reza Faridi-Majidi , Hossein Ghanbari

Circuit Topology Analysis of Polymer Folding Reactions.

ACS central science

Avec: Maziar Heidari , Helmut Schiessel , Alireza Mashaghi

Disease evolution in reaction networks: Implications for a diagnostic problem.

PLoS computational biology

Avec: Abolfazl Ramezanpour , Alireza Mashaghi

Circuit topology predicts pathogenicity of missense mutations.

Proteins

Avec: Jaie Woodard , Sumaiya Iqbal , Alireza Mashaghi

Histone lysine demethylase inhibition reprograms prostate cancer metabolism and mechanics.

Molecular metabolism

Avec: Ugo Chianese , Chiara Papulino , Eugenia Passaro , Tom Mj Evers , Mehrad Babaei , Antonella Toraldo , Tommaso De Marchi , Emma Niméus , Vincenzo Carafa , Maria Maddalena Nicoletti , Nunzio Del Gaudio , Nunzia Iaccarino , Antonio Randazzo , Dante Rotili , Antonello Mai , Salvatore Cappabianca , Alireza Mashaghi , Fortunato Ciardiello , Lucia Altucci , Rosaria Benedetti

Circuit Topology Approach for the Comparative Analysis of Intrinsically Disordered Proteins.

Journal of chemical information and modeling

Avec: Barbara Scalvini , Vahid Sheikhhassani , Nadine van de Brug , Laurens W H J Heling , Jeremy D Schmit , Alireza Mashaghi

Biochemical reaction network topology defines dose-dependent Drug-Drug interactions.

Computers in biology and medicine

Avec: Mehrad Babaei , Tom M J Evers , Fereshteh Shokri , Lucia Altucci , Elizabeth C M de Lange , Alireza Mashaghi

Decoding chirality in circuit topology of a self entangled chain through braiding.

Soft matter

Avec: Jonas Berx , Alireza Mashaghi

Metabolic response of blood vessels to TNFα.

eLife

Avec: Abidemi Junaid , Johannes Schoeman , Wei Yang , Wendy Stam , Alireza Mashaghi , Anton Jan van Zonneveld , Thomas Hankemeier

Human Organs-on-Chips for Virology.

Trends in microbiology

Avec: Huaqi Tang , Yasmine Abouleila , Longlong Si , Ana Maria Ortega-Prieto , Christine L Mummery , Donald E Ingber , Alireza Mashaghi

Signaling lipids as diagnostic biomarkers for ocular surface cicatrizing conjunctivitis.

Journal of molecular medicine (Berlin, Germany)

Avec: Antonio Di Zazzo , Wei Yang , Marco Coassin , Alessandra Micera , Marco Antonini , Fabrizio Piccinni , Maria De Piano , Isabelle Kohler , Amy C Harms , Thomas Hankemeier , Stefano Boinini , Alireza Mashaghi

Dry Eye Disease: Emerging Approaches to Disease Analysis and Therapy.

Journal of clinical medicine

Avec: Mostafa Heidari , Farsad Noorizadeh , Kevin Wu , Takenori Inomata , Alireza Mashaghi

Elasticity of connected semiflexible quadrilaterals.

Soft matter

Avec: Mohammadhosein Razbin , Alireza Mashaghi

Statistical Physics for Medical Diagnostics: Learning, Inference, and Optimization Algorithms.

Diagnostics (Basel, Switzerland)

Avec: Abolfazl Ramezanpour , Andrew L Beam , Jonathan H Chen , Alireza Mashaghi

Reciprocal regulation of cellular mechanics and metabolism.

Nature metabolism

Avec: Tom M J Evers , Liam J Holt , Simon Alberti , Alireza Mashaghi

Organoids and organ chips in ophthalmology.

The ocular surface

Avec: Navid Manafi , Fereshteh Shokri , Kevin Achberger , Masatoshi Hirayama , Melika Haji Mohammadi , Farsad Noorizadeh , Jiaxu Hong , Stefan Liebau , Takashi Tsuji , Peter M J Quinn , Alireza Mashaghi

Variable Responses to Corneal Grafts: Insights from Immunology and Systems Biology.

Journal of clinical medicine

Avec: Antonio Di Zazzo , Sang-Mok Lee , Jaemyoung Sung , Matteo Niutta , Marco Coassin , Alireza Mashaghi , Takenori Inomata

Single-cell analysis reveals chemokine-mediated differential regulation of monocyte mechanics.

iScience

Avec: Tom M J Evers , Vahid Sheikhhassani , Mariëlle C Haks , Cornelis Storm , Tom H M Ottenhoff , Alireza Mashaghi

Circuit topology analysis of cellular genome reveals signature motifs, conformational heterogeneity, and scaling.

iScience

Avec: Barbara Scalvini , Helmut Schiessel , Anatoly Golovnev , Alireza Mashaghi

Single cell force spectroscopy of erythrocytes at physiological and febrile temperatures reveals mechano-modulatory effects of atorvastatin.

Soft matter

Avec: Vahid Sheikhhassani , Tom M J Evers , Sanjeevani Lamba , Fereshteh Shokri , Alireza Mashaghi

Cytosolic Interactome Protects Against Protein Unfolding in a Single Molecule Experiment.

Advanced biology

Avec: Barbara Scalvini , Laurens W H J Heling , Vahid Sheikhhassani , Vanda Sunderlikova , Sander J Tans , Alireza Mashaghi

Circuit Topology Analysis of Single-Cell HiC Data.

Methods in molecular biology (Clifton, N.J.)

Avec: Barbara Scalvini , Alireza Mashaghi

Réseau de co-auteurs

Tom M J Evers 8 collaborations

Vahid Sheikhhassani 7 collaborations

Barbara Scalvini 7 collaborations

Yasmine Abouleila 5 collaborations

Huaqi Tang 5 collaborations

Thomas Hankemeier 5 collaborations

Wei Yang 4 collaborations

Fereshteh Shokri 4 collaborations

Laurens W H J Heling 3 collaborations

Tom H M Ottenhoff 3 collaborations

Sander J Tans 3 collaborations

Mehrad Babaei 3 collaborations

Antonio Di Zazzo 3 collaborations

Marco Coassin 3 collaborations

Abidemi Junaid 3 collaborations

Wendy Stam 3 collaborations

Anton Jan van Zonneveld 3 collaborations

Farsad Noorizadeh 3 collaborations

Ahmed Ali 2 collaborations

Yoshihiro Shimizu 2 collaborations

Jaie Woodard 2 collaborations

Ron M A Heeren 2 collaborations

Anatoly Golovnev 2 collaborations

Maziar Heidari 2 collaborations

Alessandra Micera 2 collaborations

Marco Antonini 2 collaborations

Fabrizio Piccinni 2 collaborations

Maria De Piano 2 collaborations

Isabelle Kohler 2 collaborations

Amy C Harms 2 collaborations

Vincent van Duinen 2 collaborations

Jonas Berx 2 collaborations

Helmut Schiessel 2 collaborations

Abolfazl Ramezanpour 2 collaborations

Lucia Altucci 2 collaborations

Takenori Inomata 2 collaborations

Julian Ng 1 collaboration

Yosri Ayache 1 collaboration

Eva Estébanez-Perpiñá 1 collaboration

Iain J McEwan 1 collaboration

Keiko Masuda 1 collaboration

Duane Moes 1 collaboration

Elnaz Banijamali 1 collaboration

Eman Abdelazem 1 collaboration

Vahid Satarifard 1 collaboration

Milad Gharooni 1 collaboration

Alireza Alikhani 1 collaboration

Hassan Moghtaderi 1 collaboration

Hamed Abiri 1 collaboration

Fereshteh Abbasvandi 1 collaboration

Mohammad Ali Khayamian 1 collaboration

Zohreh Sadat Miripour 1 collaboration

Ashkan Zandi 1 collaboration

Mohammad Abdolahad 1 collaboration

Fatemeh Moayed 1 collaboration

Eline J Koers 1 collaboration

Yang Zheng 1 collaboration

Katharina Till 1 collaboration

Günter Kramer 1 collaboration

Matthias P Mayer 1 collaboration

Sanne C Lith 1 collaboration

Beatriz Marton Freire 1 collaboration

Claudia M van Tie 1 collaboration

Winnie G Vosa 1 collaboration

Carlie J M de Vries 1 collaboration

Stefano Bonini 1 collaboration

Anne van Reeuwijk 1 collaboration

Petra Wuelfroth 1 collaboration

Ehsan Maleki 1 collaboration

Somayyeh Koohi 1 collaboration

Zahra Kavehvash 1 collaboration

Hamed Amani 1 collaboration

Rouhollah Habibey 1 collaboration

Seyed Javad Hajmiresmail 1 collaboration

Omid Akhavan 1 collaboration

Hamidreza Pazoki-Toroudi 1 collaboration

Sophie Dólleman 1 collaboration

Yolanda de Rijke 1 collaboration

Hendrik Endeman 1 collaboration

Cees van Kooten 1 collaboration

Hetty de Boer 1 collaboration

Janine van Gils 1 collaboration

Erica Flapan 1 collaboration

Helen Wong 1 collaboration

Anno Saris 1 collaboration

Mazène Hochane 1 collaboration

Stefan Semrau 1 collaboration

Peter Nemes 1 collaboration

Mahya Rahmani 1 collaboration

Mohammad-Mehdi Khani 1 collaboration

Shahram Rabbani 1 collaboration

Reza Faridi-Majidi 1 collaboration

Hossein Ghanbari 1 collaboration

Sumaiya Iqbal 1 collaboration

Ugo Chianese 1 collaboration

Chiara Papulino 1 collaboration

Eugenia Passaro 1 collaboration

Tom Mj Evers 1 collaboration

Antonella Toraldo 1 collaboration

Tommaso De Marchi 1 collaboration

Emma Niméus 1 collaboration

Vincenzo Carafa 1 collaboration

Maria Maddalena Nicoletti 1 collaboration

Nunzio Del Gaudio 1 collaboration

Nunzia Iaccarino 1 collaboration

Antonio Randazzo 1 collaboration

Dante Rotili 1 collaboration

Antonello Mai 1 collaboration

Salvatore Cappabianca 1 collaboration

Fortunato Ciardiello 1 collaboration

Rosaria Benedetti 1 collaboration

Nadine van de Brug 1 collaboration

Jeremy D Schmit 1 collaboration

Elizabeth C M de Lange 1 collaboration

Johannes Schoeman 1 collaboration

Longlong Si 1 collaboration

Ana Maria Ortega-Prieto 1 collaboration

Christine L Mummery 1 collaboration

Donald E Ingber 1 collaboration

Stefano Boinini 1 collaboration

Mostafa Heidari 1 collaboration

Kevin Wu 1 collaboration

Mohammadhosein Razbin 1 collaboration

Andrew L Beam 1 collaboration

Jonathan H Chen 1 collaboration

Liam J Holt 1 collaboration

Simon Alberti 1 collaboration

Navid Manafi 1 collaboration

Kevin Achberger 1 collaboration

Masatoshi Hirayama 1 collaboration

Melika Haji Mohammadi 1 collaboration

Jiaxu Hong 1 collaboration

Stefan Liebau 1 collaboration

Takashi Tsuji 1 collaboration

Peter M J Quinn 1 collaboration

Sang-Mok Lee 1 collaboration

Jaemyoung Sung 1 collaboration

Matteo Niutta 1 collaboration

Mariëlle C Haks 1 collaboration

Cornelis Storm 1 collaboration

Sanjeevani Lamba 1 collaboration

Vanda Sunderlikova 1 collaboration