Gangqi Wang, Bram Heijs, Sarantos Kostidis, Ahmed Mahfouz, Rosalie G.J. Rietjens, Roel Bijkerk, Angela Koudijs, Loïs A.K. van der Pluijm, Cathelijne W. van den Berg, More Authors (2022), Analyzing cell-type-specific dynamics of metabolism in kidney repair, In Nature Metabolism.

F. Ferraro, Christina Fevga, Vincenzo Bonifati, Wim Mandemakers, A.M.E.T.A. Mahfouz, M.J.T. Reinders (2022), Correcting Differential Gene Expression Analysis for Cyto—Architectural Alterations in Substantia Nigra of Parkinson’s Disease Patients Reveals Known and Potential Novel Disease—Associated Genes and Pathways, In Cells Volume 11.

Vincent van Unen, Laura F. Ouboter, Na Li, Mette Schreurs, Tamim Abdelaal, Yvonne Kooy-Winkelaar, Guillaume Beyrend, Thomas Höllt, P. W.Jeroen Maljaars, M. Luisa Mearin, Ahmed Mahfouz, Anne M.C. Witte, Cornelis H.M. Clemens, Sunje Abraham, Johanna C. Escher, Boudewijn P.F. Lelieveldt, M. Fernanda Pascutti, Andrea E. van der Meulen – de Jong, Frits Koning (2022), Identification of a Disease-Associated Network of Intestinal Immune Cells in Treatment-Naive Inflammatory Bowel Disease, In Frontiers in Immunology Volume 13.

Tessa Dieckman, Mette Schreurs, Ahmed Mahfouz, Yvonne Kooy-Winkelaar, Andra Neefjes-Borst, Gerd Bouma, Frits Koning (2022), Single-Cell Analysis of Refractory Celiac Disease Demonstrates Inter- and Intra-Patient Aberrant Cell Heterogeneity, In CMGH Volume 14 p.173-192.

Florencia Morgana, Rianne Opstelten, Manon C. Slot, Andrew M. Scott, René A.W. van Lier, Bianca Blom, Ahmed Mahfouz, Derk Amsen (2022), Single-Cell Transcriptomics Reveals Discrete Steps in Regulatory T Cell Development in the Human Thymus, In Journal of immunology (Baltimore, Md. : 1950) Volume 208 p.384-395.

Arno R. Bourgonje, Shixian Hu, Lieke M. Spekhorst, Daria V. Zhernakova, Arnau Vich Vila, Yanni Li, Mohammed Charrout, Ahmed Mahfouz, Marcel J.T. Reinders, More Authors (2022), The Effect of Phenotype and Genotype on the Plasma Proteome in Patients with Inflammatory Bowel Disease, In Journal of Crohn's and Colitis Volume 16 p.414-429.

M.A.M.E. Eltager, T.R.M. Abdelaal, A.M.E.T.A. Mahfouz, M.J.T. Reinders (2022), scMoC: single-cell multi-omics clustering, In Bioinformatics Advances Volume 2 p.1-8.

Anoushka Joglekar, Andreyi Prjibelski, Ahmed Mahfouz, Paul Collier, Susan Lin , Anna Katharina Schlusche, Jordan Marrocco, Stephen R. Williams, Bettina Haase, More Authors (2021), A spatially resolved brain region- and cell type-specific isoform atlas of the postnatal mouse brain, In Nature Communications Volume 12 p.1-16.

Wenbo Yu, Ahmed Mahfouz, Marcel J.T. Reinders (2021), CBA: Cluster-Guided Batch Alignment for Single Cell RNA-seq, In Frontiers in Genetics Volume 12 p.1-12.

Eva M.G. Viho, Jacobus C. Buurstede, Jari B. Berkhout, Ahmed Mahfouz, Onno C. Meijer (2021), Cell type specificity of glucocorticoid signaling in the adult mouse hippocampus, In Journal of Neuroendocrinology Volume 34 (2022).