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Visualization and application of amino acid retention coefficients obtained from modeling of peptide retention.
Published in:
Journal of Separation Science, 2018, v. 41, n. 18, p. 3644, doi. 10.1002/jssc.201800488
By:
- Mohammed, Yassene;
- Palmblad, Magnus
Publication type:
Article
Congruence and Complementarity of Differential Mobility Spectrometry and NMR Spectroscopy for Plasma Lipidomics.
Published in:
Membranes, 2022, v. 12, n. 11, p. 1030, doi. 10.3390/metabo12111030
By:
- Ghorasaini, Mohan;
- Tsezou, Konstantina Ismini;
- Verhoeven, Aswin;
- Mohammed, Yassene;
- Vlachoyiannopoulos, Panayiotis;
- Mikros, Emmanuel;
- Giera, Martin
Publication type:
Article
Inhibition of DHCR24 activates LXRα to ameliorate hepatic steatosis and inflammation.
Published in:
EMBO Molecular Medicine, 2023, v. 15, n. 8, p. 1, doi. 10.15252/emmm.202216845
By:
- Zhou, Enchen;
- Ge, Xiaoke;
- Nakashima, Hiroyuki;
- Li, Rumei;
- van der Zande, Hendrik J P;
- Liu, Cong;
- Li, Zhuang;
- Müller, Christoph;
- Bracher, Franz;
- Mohammed, Yassene;
- de Boer, Jan Freark;
- Kuipers, Folkert;
- Guigas, Bruno;
- Glass, Christopher K;
- Rensen, Patrick C N;
- Giera, Martin;
- Wang, Yanan
Publication type:
Article
Multiomics of iPSC‐derived ApoE3‐ and ApoE4 astrocytes and microglia uncovers cell type specific dysregulation of immunometabolism.
Published in:
Alzheimer's & Dementia: The Journal of the Alzheimer's Association, 2023, v. 19, p. 1, doi. 10.1002/alz.080797
By:
- van der Kant, Rik;
- Blomberg, Niek;
- Erlebach, Lena;
- Feringa, Femke M;
- Heijneman, Jorin;
- Koppes, Sascha;
- Kruijff, Iris Daphne;
- McQuade, Amanda;
- Miramontes, Ricardo;
- Olivier‐Jimenez, Damien;
- Robert, Aiko;
- Thompson, Leslie M.;
- Ori, Alessandro;
- Kronenberg‐Versteeg, Deborah;
- Mohammed, Yassene;
- Kampmann, Martin;
- Giera, Martin
Publication type:
Article
Multi‐omic profiling of isogenic ApoE3/3 and ApoE4/4 iPSC‐derived astrocytes uncovers altered lipid metabolism and mitochondrial function of ApoE4 astrocytes.
Published in:
Alzheimer's & Dementia: The Journal of the Alzheimer's Association, 2023, v. 19, p. 1, doi. 10.1002/alz.078264
By:
- Koppes, Sascha;
- Feringa, Femke M;
- Robert, Aiko;
- Kruijff, Iris Daphne;
- Olivier‐Jimenez, Damien;
- Erlebach, Lena;
- Thompson, Leslie M.;
- Kronenberg‐Versteeg, Deborah;
- Ori, Alessandro;
- Mohammed, Yassene;
- Giera, Martin;
- van der Kant, Rik
Publication type:
Article
AD risk variants in APOE differentially affect lipid metabolism in iPSC derived neurons, astrocytes and microglia.
Published in:
Alzheimer's & Dementia: The Journal of the Alzheimer's Association, 2023, v. 19, p. 1, doi. 10.1002/alz.078698
By:
- Feringa, Femke M;
- Elmagd, Amir Abou;
- Kruijff, Iris Daphne;
- Heijneman, Jorin;
- Koppes, Sascha;
- Mohammed, Yassene;
- Giera, Martin;
- van der Kant, Rik
Publication type:
Article
AD risk variants in APOE differentially affect lipid metabolism in iPSC derived neurons, astrocytes and microglia.
Published in:
Alzheimer's & Dementia: The Journal of the Alzheimer's Association, 2023, v. 19, p. 1, doi. 10.1002/alz.078698
By:
- Feringa, Femke M;
- Elmagd, Amir Abou;
- Kruijff, Iris Daphne;
- Heijneman, Jorin;
- Koppes, Sascha;
- Mohammed, Yassene;
- Giera, Martin;
- van der Kant, Rik
Publication type:
Article
Oxonium Ion Guided Analysis of Quantitative Proteomics Data Reveals Site-Specific O -Glycosylation of Anterior Gradient Protein 2 (AGR2).
Published in:
International Journal of Molecular Sciences, 2021, v. 22, n. 10, p. 5369, doi. 10.3390/ijms22105369
By:
- Pirro, Martina;
- Mohammed, Yassene;
- de Ru, Arnoud H.;
- Janssen, George M. C.;
- Tjokrodirijo, Rayman T. N.;
- Madunić, Katarina;
- Wuhrer, Manfred;
- van Veelen, Peter A.;
- Hensbergen, Paul J.;
- Greco, Viviana;
- Wessels, Hans J. C. T.
Publication type:
Article
N-Glycoproteins Have a Major Role in MGL Binding to Colorectal Cancer Cell Lines: Associations with Overall Proteome Diversity.
Published in:
International Journal of Molecular Sciences, 2020, v. 21, n. 15, p. 5522, doi. 10.3390/ijms21155522
By:
- Pirro, Martina;
- Mohammed, Yassene;
- van Vliet, Sandra J.;
- Rombouts, Yoann;
- Sciacca, Agnese;
- de Ru, Arnoud H.;
- Janssen, George M. C.;
- Tjokrodirijo, Rayman T. N.;
- Wuhrer, Manfred;
- van Veelen, Peter A.;
- Hensbergen, Paul J.
Publication type:
Article
Congruence and Complementarity of Differential Mobility Spectrometry and NMR Spectroscopy for Plasma Lipidomics.
Published in:
Metabolites (2218-1989), 2022, v. 12, n. 11, p. 1030, doi. 10.3390/metabo12111030
By:
- Ghorasaini, Mohan;
- Tsezou, Konstantina Ismini;
- Verhoeven, Aswin;
- Mohammed, Yassene;
- Vlachoyiannopoulos, Panayiotis;
- Mikros, Emmanuel;
- Giera, Martin
Publication type:
Article
Mouse Quantitative Proteomics Knowledgebase: reference protein concentration ranges in 20 mouse tissues using 5000 quantitative proteomics assays.
Published in:
Bioinformatics, 2021, v. 37, n. 13, p. 1900, doi. 10.1093/bioinformatics/btab018
By:
- Mohammed, Yassene;
- Bhowmick, Pallab;
- Michaud, Sarah A;
- Sickmann, Albert;
- Borchers, Christoph H
Publication type:
Article
Fatty acid desaturation and lipoxygenase pathways support trained immunity.
Published in:
Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-43315-x
By:
- Ferreira, Anaísa V.;
- Alarcon-Barrera, Juan Carlos;
- Domínguez-Andrés, Jorge;
- Bulut, Özlem;
- Kilic, Gizem;
- Debisarun, Priya A.;
- Röring, Rutger J.;
- Özhan, Hatice N.;
- Terschlüsen, Eva;
- Ziogas, Athanasios;
- Kostidis, Sarantos;
- Mohammed, Yassene;
- Matzaraki, Vasiliki;
- Renieris, George;
- Giamarellos-Bourboulis, Evangelos J.;
- Netea, Mihai G.;
- Giera, Martin
Publication type:
Article
Front Cover: Multiplexed MRM-based assays for the quantitation of proteins in mouse plasma and heart tissue.
Published in:
Proteomics, 2017, v. 17, n. 7, p. n/a, doi. 10.1002/pmic.201770050
By:
- Percy, Andrew J.;
- Michaud, Sarah A.;
- Jardim, Armando;
- Sinclair, Nicholas J.;
- Zhang, Suping;
- Mohammed, Yassene;
- Palmer, Andrea L.;
- Hardie, Darryl B.;
- Yang, Juncong;
- LeBlanc, Andre M.;
- Borchers, Christoph H.
Publication type:
Article
PeptideTracker: A knowledge base for collecting and storing information on protein concentrations in biological tissues.
Published in:
Proteomics, 2017, v. 17, n. 7, p. n/a, doi. 10.1002/pmic.201600210
By:
- Mohammed, Yassene;
- Bhowmick, Pallab;
- Smith, Derek S.;
- Domanski, Dominik;
- Jackson, Angela M.;
- Michaud, Sarah A.;
- Malchow, Sebastian;
- Percy, Andrew J.;
- Chambers, Andrew G.;
- Palmer, Andrea;
- Zhang, Suping;
- Sickmann, Albert;
- Borchers, Christoph H.
Publication type:
Article
Multiplexed MRM-based assays for the quantitation of proteins in mouse plasma and heart tissue.
Published in:
Proteomics, 2017, v. 17, n. 7, p. n/a, doi. 10.1002/pmic.201600097
By:
- Percy, Andrew J.;
- Michaud, Sarah A.;
- Jardim, Armando;
- Sinclair, Nicholas J.;
- Zhang, Suping;
- Mohammed, Yassene;
- Palmer, Andrea L.;
- Hardie, Darryl B.;
- Yang, Juncong;
- LeBlanc, Andre M.;
- Borchers, Christoph H.
Publication type:
Article
Multiplexed panel of precisely quantified salivary proteins for biomarker assessment.
Published in:
Proteomics, 2017, v. 17, n. 6, p. n/a, doi. 10.1002/pmic.201600230
By:
- Percy, Andrew J.;
- Hardie, Darryl B.;
- Jardim, Armando;
- Yang, Juncong;
- Elliott, Monica H.;
- Zhang, Suping;
- Mohammed, Yassene;
- Borchers, Christoph H.
Publication type:
Article
Reinspection of a Clinical Proteomics Tumor Analysis Consortium (CPTAC) Dataset with Cloud Computing Reveals Abundant Post-Translational Modifications and Protein Sequence Variants.
Published in:
Cancers, 2021, v. 13, n. 20, p. 5034, doi. 10.3390/cancers13205034
By:
- Prakash, Amol;
- Taylor, Lorne;
- Varkey, Manu;
- Hoxie, Nate;
- Mohammed, Yassene;
- Goo, Young Ah;
- Peterman, Scott;
- Moghekar, Abhay;
- Yuan, Yuting;
- Glaros, Trevor;
- Steele, Joel R.;
- Faridi, Pouya;
- Parihari, Shashwati;
- Srivastava, Sanjeeva;
- Otto, Joseph J.;
- Nyalwidhe, Julius O.;
- Semmes, O. John;
- Moran, Michael F.;
- Madugundu, Anil;
- Mun, Dong Gi
Publication type:
Article
Scientific workflow optimization for improved peptide and protein identification.
Published in:
BMC Bioinformatics, 2015, v. 16, n. 1, p. 1, doi. 10.1186/s12859-015-0714-x
By:
- Holl, Sonja;
- Mohammed, Yassene;
- Zimmermann, Olav;
- Palmblad, Magnus
Publication type:
Article
A finite element method model to simulate laser interstitial thermo therapy in anatomical inhomogeneous regions.
Published in:
BioMedical Engineering OnLine, 2005, v. 4, p. 2, doi. 10.1186/1475-925X-4-2
By:
- Mohammed, Yassene;
- Verhey, Janko F
Publication type:
Article
Evaluation of Fast and Sensitive Proteome Profiling of FF and FFPE Kidney Patient Tissues.
Published in:
Molecules, 2022, v. 27, n. 3, p. 1137, doi. 10.3390/molecules27031137
By:
- Dapic, Irena;
- Uwugiaren, Naomi;
- Kers, Jesper;
- Mohammed, Yassene;
- Goodlett, David R.;
- Corthals, Garry
Publication type:
Article
Serum N‐Glycome analysis reveals pancreatic cancer disease signatures.
Published in:
Cancer Medicine, 2020, v. 9, n. 22, p. 8519, doi. 10.1002/cam4.3439
By:
- Vreeker, Gerda C. M.;
- Hanna‐Sawires, Randa G.;
- Mohammed, Yassene;
- Bladergroen, Marco R.;
- Nicolardi, Simone;
- Dotz, Viktoria;
- Nouta, Jan;
- Bonsing, Bert A.;
- Mesker, Wilma E.;
- Burgt, Yuri E. M.;
- Wuhrer, Manfred;
- Tollenaar, Rob A. E. M.
Publication type:
Article
Visualizing and comparing results of different peptide identification methods.
Published in:
Briefings in Bioinformatics, 2018, v. 19, n. 2, p. 210, doi. 10.1093/bib/bbw115
By:
- Mohammed, Yassene;
- Palmblad, Magnus
Publication type:
Article
Molecular phenotyping of laboratory mouse strains using 500 multiple reaction monitoring mass spectrometry plasma assays.
Published in:
Communications Biology, 2018, v. 1, n. 1, p. N.PAG, doi. 10.1038/s42003-018-0087-6
By:
- Michaud, Sarah A.;
- Sinclair, Nicholas J.;
- Pětrošová, Helena;
- Palmer, Andrea L.;
- Pistawka, Adam J.;
- Zhang, Suping;
- Hardie, Darryl B.;
- Mohammed, Yassene;
- Eshghi, Azad;
- Richard, Vincent R.;
- Sickmann, Albert;
- Borchers, Christoph H.
Publication type:
Article
MRMAssayDB: an integrated resource for validated targeted proteomics assays.
Published in:
Bioinformatics, 2018, v. 34, n. 20, p. 3566, doi. 10.1093/bioinformatics/bty385
By:
- Bhowmick, Pallab;
- Mohammed, Yassene;
- Borchers, Christoph H
Publication type:
Article
Proteotyping of knockout mouse strains reveals sex- and strain-specific signatures in blood plasma.
Published in:
NPJ Systems Biology & Applications, 2021, v. 7, n. 1, p. 1, doi. 10.1038/s41540-021-00184-8
By:
- Mohammed, Yassene;
- Michaud, Sarah A.;
- Pětrošová, Helena;
- Yang, Juncong;
- Ganguly, Milan;
- Schibli, David;
- Flenniken, Ann M.;
- Nutter, Lauryl M. J.;
- Adissu, Hibret A.;
- Lloyd, K. C. Kent;
- McKerlie, Colin;
- Borchers, Christoph H.
Publication type:
Article
Systematic Optimization of the iMALDI Workflow for the Robust and Straightforward Quantification of Signaling Proteins in Cancer Cells.
Published in:
Proteomics - Clinical Applications, 2020, v. 14, n. 5, p. 1, doi. 10.1002/prca.202000034
By:
- Froehlich, Bjoern C.;
- Popp, Robert;
- Sobsey, Constance A.;
- Ibrahim, Sahar;
- LeBlanc, Andre M.;
- Mohammed, Yassene;
- Aguilar‐Mahecha, Adriana;
- Poetz, Oliver;
- Chen, Michael X.;
- Spatz, Alan;
- Basik, Mark;
- Batist, Gerald;
- Zahedi, René P.;
- Borchers, Christoph H.
Publication type:
Article
Front Cover: Systematic Optimization of the iMALDI Workflow for the Robust and Straightforward Quantification of Signaling Proteins in Cancer Cells.
Published in:
Proteomics - Clinical Applications, 2020, v. 14, n. 5, p. 1, doi. 10.1002/prca.202070051
By:
- Froehlich, Bjoern C.;
- Popp, Robert;
- Sobsey, Constance A.;
- Ibrahim, Sahar;
- LeBlanc, Andre M.;
- Mohammed, Yassene;
- Aguilar‐Mahecha, Adriana;
- Poetz, Oliver;
- Chen, Michael X.;
- Spatz, Alan;
- Basik, Mark;
- Batist, Gerald;
- Zahedi, René P.;
- Borchers, Christoph H.
Publication type:
Article
ExSTA: External Standard Addition Method for Accurate High-Throughput Quantitation in Targeted Proteomics Experiments.
Published in:
Proteomics - Clinical Applications, 2018, v. 12, n. 2, p. 1, doi. 10.1002/prca.201600180
By:
- Mohammed, Yassene;
- Pan, Jingxi;
- Zhang, Suping;
- Han, Jun;
- Borchers, Christoph H.
Publication type:
Article

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