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M. Alhamdoosh · SciRah

Researcher profile · Semantic Scholar

M. Alhamdoosh

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M. Alhamdoosh — researcher profile on SciRah

h-index: 14
Works: 43
Citations: 1,762

Most-cited papers

RNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeR
C. Law, M. Alhamdoosh, S. Su, Xue-Yi Dong +3 more
2016F1000Research763 citations Open access
Semantic Scholar
Fast decorrelated neural network ensembles with random weights
M. Alhamdoosh, Dian-Hui Wang
2014Information Sciences196 citations
Semantic Scholar
Combining multiple tools outperforms individual methods in gene set enrichment analyses
M. Alhamdoosh, M. Ng, N. Wilson, J. Sheridan +3 more
2015bioRxiv168 citations Open access
Semantic Scholar
Four simple recommendations to encourage best practices in research software
R. Jiménez, Mateusz Kuzak, M. Alhamdoosh, M. Barker +45 more
2017F1000Research103 citations Open access
Semantic Scholar
Evolutionary extreme learning machine ensembles with size control
Dian-Hui Wang, M. Alhamdoosh
2013Neurocomputing97 citations
Semantic Scholar
A guide to creating design matrices for gene expression experiments
C. Law, Kathleen Zeglinski, Xue-Yi Dong, M. Alhamdoosh +2 more
2020F1000Research59 citations Open access
Semantic Scholar
Enhanced pedotransfer functions with support vector machines to predict water retention of calcareous soil
Muhammed Khlosi, M. Alhamdoosh, A. Douaik, D. Gabriëls +1 more
201657 citations
Semantic Scholar
Machine learning applied to whole‐blood RNA‐sequencing data uncovers distinct subsets of patients with systemic lupus erythematosus
William A. Figgett, K. Monaghan, M. Ng, M. Alhamdoosh +5 more
2019bioRxiv53 citations Open access
Semantic Scholar
Easy and efficient ensemble gene set testing with EGSEA
M. Alhamdoosh, C. Law, L. Tian, J. Sheridan +2 more
2017F1000Research52 citations Open access
Semantic Scholar
Improving the prediction of disulfide bonds in Eukaryotes with machine learning methods and protein subcellular localization
Castrense Savojardo, P. Fariselli, M. Alhamdoosh, P. Martelli +2 more
2011Bioinform.39 citations Open access
Semantic Scholar
Cellular Microenvironment Stiffness Regulates Eicosanoid Production and Signaling Pathways.
A. Berhan, T. Harris, J. Jaffar, F. Jativa +9 more
2020American Journal of Respiratory Cell and Molecular Biology28 citations
Semantic Scholar
Matrix metalloproteinase-7 is increased in lung bases but not apices in idiopathic pulmonary fibrosis
J. Jaffar, M. Wong, G. Fishbein, M. Alhamdoosh +7 more
2022ERJ Open Research25 citations Open access
Semantic Scholar
Modeling group heteroscedasticity in single-cell RNA-seq pseudo-bulk data
Yue You, Xue-Yi Dong, Y. K. Wee, M. Maxwell +5 more
2023Genome Biology23 citations Open access
Semantic Scholar
CSL324, a G-CSF receptor antagonist, blocks neutrophil migration markers that are upregulated in hidradenitis suppurativa.
C. Gamell, Aleksandra Bankovacki, Karen Scalzo-Inguanti, B. Sedgmen +16 more
2023British Journal of Dermatology15 citations Open access
Semantic Scholar
Topical application of human-derived Ig isotypes for the control of acute respiratory infection evaluated in a human CD89-expressing mouse model
S. Koernig, I. Campbell, Charley Mackenzie-Kludas, Alexander Schaub +11 more
2019Mucosal Immunology11 citations Open access
Semantic Scholar
Blockade of the G-CSF Receptor Is Protective in a Mouse Model of Renal Ischemia–Reperfusion Injury
J. McRae, I. Vikstrom, A. Bongoni, E. Salvaris +6 more
2018Journal of Immunology11 citations Open access
Semantic Scholar
Four simple recommendations to encourage best practices in research software [version 1; referees: 2 approved]
R. Jiménez, Mateusz Kuzak, M. Alhamdoosh, M. Barker +45 more
20179 citations
Semantic Scholar
Anti‐βc mAb CSL311 inhibits human nasal polyp pathophysiology in a humanized mouse xenograft model
K. Yip, N. Wilson, Harshita Pant, Christopher L. Brown +12 more
2020Allergy. European Journal of Allergy and Clinical Immunology8 citations
Semantic Scholar
Whole blood transcriptomics reveals granulocyte colony‐stimulating factor as a mediator of cardiopulmonary bypass‐induced systemic inflammatory response syndrome
Katherine R. Martin, Cristina Gamell, Tsin-Yee Tai, Roberto Bonelli +5 more
2024Clinical & Translational Immunology7 citations Open access
Semantic Scholar
An optimized protocol for quality control of gene therapy vectors using nanopore direct RNA sequencing
Kathleen Zeglinski, Christian Montellese, M. Ritchie, M. Alhamdoosh +6 more
2024Genome Research7 citations
Semantic Scholar
Four simple recommendations to encourage best practices in research software [version 1; peer review: 3 approved]
R. Jiménez, Mateusz Kuzak, M. Alhamdoosh, M. Barker +45 more
20217 citations
Semantic Scholar
ANFIS-based fuzzy systems for searching dna-protein binding sites
Dian-Hui Wang, M. Alhamdoosh, W. Pedrycz
2016bioRxiv7 citations Open access
Semantic Scholar
Targeting the human βc receptor inhibits contact dermatitis in a transgenic mouse model.
K. Yip, Duncan R. McKenzie, H. Ramshaw, J. Chao +18 more
2021Journal of Investigative Dermatology6 citations Open access
Semantic Scholar
Modelling the transcription factor DNA-binding affinity using genome-wide ChIP-based data
M. Alhamdoosh, Dian-Hui Wang
2016bioRxiv6 citations Open access
Semantic Scholar
An optimised protocol for quality control of gene therapy vectors using Nanopore direct RNA sequencing
Kathleen Zeglinski, Christian Montellese, M. Ritchie, M. Alhamdoosh +6 more
2024bioRxiv4 citations Open access
Semantic Scholar
Building genomic medicine in Saudi Arabia.
Ahmad Alfares, F. Imtiaz, S. Maddirevula, Nabil Moghrabi +11 more
2026Nature Genetics2 citations
Semantic Scholar
Matrix Softness Induces an Afibrogenic Lipofibroblast Phenotype in Fibroblasts from IPF Patients.
A. Berhan, Avanka Gunatilaka, Chiaohwei Lee, Stephanie S. Zhang +15 more
2025American Journal of Respiratory Cell and Molecular Biology2 citations
Semantic Scholar
Abstract 10491: CSL112 Suppresses Inflammation in Human Monocyte-Derived Macrophages
S. Didichenko, J. Adam, A. Navdaev, M. Wong +5 more
2021Circulation2 citations
Semantic Scholar
Peer Review #3 of "The clinical significance of collagen family gene expression in esophageal squamous cell carcinoma (v0.1)"
Jie-Ling Li, Xiao Wang, Kai-Wen Zheng, Ying Liu +422 more
20192 citations Open access
Semantic Scholar
Four simple recommendations to encourage best practices in research software [version 1; referees: awaiting peer review]
Rafael C. Jiménez, Mateusz Kuzak, M. Alhamdoosh, M. Barker +21 more
2 citations
Semantic Scholar
A dataset examining technical factors on fixed white blood cell single-cell RNA-seq
Daniel V. Brown, Agnieszka Swierczak, Yue You, Yupei You +7 more
2024Data in Brief1 citations Open access
Semantic Scholar
Publisher Correction: Modeling group heteroscedasticity in single-cell RNA-seq pseudo-bulk data
Yue You, Xue-Yi Dong, Y. K. Wee, M. Maxwell +5 more
2023Genome Biology1 citations Open access
Semantic Scholar
Topical application of human-derived Ig isotypes for the control of acute respiratory infection evaluated in a human CD89-expressing mouse model
S. Koernig, I. Campbell, Charley Mackenzie-Kludas, Alexander Schaub +11 more
2019Mucosal Immunology1 citations Open access
Semantic Scholar
Disulfide Connectivity Prediction with Extreme Learning Machines
M. Alhamdoosh, Castrense Savojardo, P. Fariselli, R. Casadio
2011Bioinformatics1 citations Open access
Semantic Scholar
Complementary Use of Shotgun Metagenomics and Multiplex PCR for Pathogen Detection on High-Touch Surfaces
Mohamad Taisir Ahmad Ghiba, Areej S. Alsheikh-Hussain, Turki Essa Alzahrani, M. Alhamdoosh +3 more
2026Microorganisms0 citations Open access
Semantic Scholar
A Novel SLC25A4 Variant Causing Mitochondrial Dysfunction, Myopathy and Cardiomyopathy: A Functional and Molecular Characterization
M. Aldosary, Hanan Alqudairy, Nourah Alshalan, Mohammad A. Al-Muhaizea +15 more
2026International Journal of Molecular Sciences0 citations Open access
Semantic Scholar
Novel juxtamembrane FLT3 in-frame insertion in a child with refractory AML: a case report of durable remission following allogeneic HSCT and FLT3 inhibitor therapy
A. Peer-Zada, Mohammed Al-Rimawi, Farah Malaeb, T. Faquih +3 more
2026Frontiers in Oncology0 citations Open access
Semantic Scholar
Transcriptomic Heterogeneity of the Distal Epithelium in IPF Lung: Rethinking the Order of Events
M. Wong, G. Fishbein, R. Pai, M. Ritchie +7 more
2024B30. SCARRED FOR LIFE: TRANSLATIONAL RESEARCH IN INTERSTITIAL ABNORMALITIES AND LUNG FIBROSIS0 citations
Semantic Scholar
Transcriptomic differences in lung apices and bases in idiopathic pulmonary fibrosis (IPF)
M. Wong, C. Gamell, M. Alhamdoosh, L. McMillan +5 more
202212.01 - Idiopathic interstitial pneumonias0 citations
Semantic Scholar
Matrix Metalloproteinases Are Increased in Lung Bases Compared to Apices in Patients with Idiopathic Pulmonary Fibrosis (IPF)
J. Jaffar, L. McMillan, L. Turković, M. Alhamdoosh +8 more
20200 citations
Semantic Scholar
An ensemble approach for gene set testing analysiswith reporting capabilities
M. Alhamdoosh, L. Tian, M. Ng, M. Ritchie
20170 citations Open access
Semantic Scholar
Calling variants from RNA-Seq data identifies significant eQTLs in a small cohort of asthma patients
A. Nath, M. Ng, J. Field, N. Wilson +3 more
20170 citations Open access
Semantic Scholar
IgLibQC: quality control pipeline for the construction of antibody libraries
M. Alhamdoosh, Chao-Guang Chen, M. Ng, G. Sansome +4 more
20160 citations Open access
Semantic Scholar

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