@article{UBHD-68647977,
  author={Bouhaddou, Mehdi and Memon, Danish and Meyer, Bjoern and White, Kris M. and Rezelj, Veronica V. and Correa Marrero, Miguel and Polacco, Benjamin J. and Melnyk, James E. and Ulferts, Svenja and Kaake, Robyn M. and Batra, Jyoti and Richards, Alicia L. and Stevenson, Erica and Gordon, David E. and Rojc, Ajda and Obernier, Kirsten and Fabius, Jacqueline M. and Soucheray, Margaret and Miorin, Lisa and Moreno, Elena and Koh, Cassandra and Tran, Quang Dinh and Hardy, Alexandra and Robinot, Rémy and Vallet, Thomas and Nilsson-Payant, Benjamin E. and Hernandez-Armenta, Claudia and Dunham, Alistair and Weigang, Sebastian and Knerr, Julian and Modak, Maya and Quintero, Diego and Zhou, Yuan and Dugourd, Aurélien and Valdeolivas, Alberto and Ott, Melanie and Krogan, Nevan J.},
  title={The global phosphorylation landscape of SARS-CoV-2 infection},
  year={2020},
  pages={42 S.},
  language={eng},
  issn={1097-4172},
  volume={182(2020},
  note={Seitenzahl dem PDF entnommen ; Gesehen am 13.10.2020},
  journal={Cell},
  doi={10.1016/j.cell.2020.06.034},
}
@article{UBHD-68721206,
  author={Cappelletti, Valentina and Hauser, Thomas and Piazza, Ilaria and Pepelnjak, Monika and Malinovska, Liliana and Fuhrer, Tobias and Li, Yaozong and D{\"o}rig, Christian and Boersema, Paul and Gillet, Ludovic and Grossbach, Jan and Dugourd, Aurélien and Sáez Rodríguez, Julio and Beyer, Andreas and Zamboni, Nicola and Caflisch, Amedeo and de Souza, Natalie and Picotti, Paola},
  title={Dynamic 3D proteomes reveal protein functional alterations at high resolution in situ},
  year={2021},
  pages={545-559},
  language={eng},
  issn={1097-4172},
  volume={184},
  number={2},
  note={Das PDF enth{\"a}lt zus{\"a}tzlich einen Anhang von 13 Seiten ; Available online 23 December 2020 ; Gesehen am 08.09.2021},
  journal={Cell},
  doi={10.1016/j.cell.2020.12.021},
}
@article{UBHD-68957274,
  author={Dimitrov, Daniel and T{\"u}rei, Dénes and Garrido-Rodriguez, Martin and Burmedi, Paul L. and Nagai, James S. and Boys, Charlotte and Ramirez Flores, Ricardo O. and Kim, Hyojin and Szalai, Bence and Costa, Ivan G. and Valdeolivas, Alberto and Dugourd, Aurélien and Sáez Rodríguez, Julio},
  title={Comparison of methods and resources for cell-cell communication inference from single-cell RNA-Seq data},
  year={2022},
  pages={1-13},
  language={eng},
  issn={2041-1723},
  volume={13},
  number={Artikel-ID 3224},
  note={Gesehen am 25.08.2022},
  journal={Nature Communications},
  doi={10.1038/s41467-022-30755-0},
  url={https://doi.org/10.1038/s41467-022-30755-0},
  library={UB},
}
@article{UBHD-69260053,
  author={Dimitrov, Daniel and Sch{\"a}fer, Philipp and Farr, Elias and Rodriguez Mier, Pablo and Lobentanzer, Sebastian and Badia-i-Mompel, Pau and Dugourd, Aurélien and Tanevski, Jovan and Ramirez Flores, Ricardo O. and Sáez Rodríguez, Julio},
  title={LIANA+ provides an all-in-one framework for cell-cell communication inference},
  year={2024},
  pages={1613-1622},
  language={eng},
  issn={1476-4679},
  volume={26},
  number={9},
  note={Gesehen am 07.10.2024},
  journal={Nature cell biology},
  doi={10.1038/s41556-024-01469-w},
}
@book{UBHD-68910414,
  author={Dugourd, Aurélien},
  title={Bridging the gap between signalling and metabolism through functional and mechanistic analysis of multi-omic data},
  address={Heidelberg},
  year={2022},
  pages={1 Online-Ressource (77 Seiten)},
  language={eng},
  school={Dissertation,  Ruperto Carola University Heidelberg,  2022},
  doi={10.11588/heidok.00031479},
  keywords={Bioinformatik / Biologie / Cytologie},
  url={https://nbn-resolving.org/urn:nbn:de:bsz:16-heidok-314790},
  library={UB},
}
@book{UBHD-68917822,
  author={Dugourd, Aurélien},
  organization={Universit{\"a}t Heidelberg},
  title={Bridging the gap between signalling and metabolism through functional and mechanistic analysis of multi-omic data},
  address={Heidelberg},
  year={2022},
  pages={77 Bl{\"a}tter},
  language={eng},
  school={Dissertation,  Ruperto Carola University Heidelberg,  2022},
  keywords={Bioinformatik / Biologie / Cytologie},
  library={UB [Signatur: 2022 U 489]},
}
@article{UBHD-68707532,
  author={Dugourd, Aurélien and Gjerga, Enio and Gabor, Attila and Sáez Rodríguez, Julio and Kuppe, Christoph and Sciacovelli, Marco and Emdal, Kristina B. and Vieira, Vitor and Bekker-Jensen, Dorte B. and Kranz, Jennifer and Bindels, Eric M. J. and Costa, Ana S. H. and Sousa, Abel and Beltrao, Pedro and Rocha, Miguel and Olsen, Jesper V. and Frezza, Christian and Kramann, Rafael},
  title={Causal integration of multi-omics data with prior knowledge to generate mechanistic hypotheses},
  year={2021},
  pages={1-17},
  language={eng},
  issn={1744-4292},
  volume={17},
  note={Gesehen am 05.05.2022},
  journal={Molecular systems biology},
  doi={10.15252/msb.20209730},
  url={https://doi.org/10.15252/msb.20209730},
  library={UB},
}
@article{UBHD-69239886,
  author={Erickson, Emily and You, Inchul and Perry, Grace and Dugourd, Aurélien and Donovan, Katherine A. and Crafter, Claire and Johannes, Jeffrey W. and Williamson, Stuart and Moss, Jennifer I. and Ros, Susana and Ziegler, Robert E. and Barry, Simon T. and Fischer, Eric S. and Gray, Nathanael S. and Madsen, Ralitsa R. and Toker, Alex},
  title={Multiomic profiling of breast cancer cells uncovers stress MAPK-associated sensitivity to AKT degradation},
  year={2024},
  pages={?},
  language={eng},
  issn={1937-9145},
  volume={17},
  note={Ver{\"o}ffentlicht: 27. Februar 2024 ; Gesehen am 02.08.2024},
  journal={Science signaling},
  doi={10.1126/scisignal.adf2670},
}
@article{UBHD-69339848,
  author={Farr, Elias and Dimitrov, Daniel and Schmidt, Christina and T{\"u}rei, Dénes and Lobentanzer, Sebastian and Dugourd, Aurélien and Sáez Rodríguez, Julio},
  title={MetalinksDB},
  subtitle={a flexible and contextualizable resource of metabolite-protein interactions},
  year={2024},
  pages={bbae347$p1-12},
  language={eng},
  issn={1477-4054},
  volume={25},
  number={4 vom: Juli},
  note={Ver{\"o}ffentlicht: 22. Juli 2024 ; Gesehen am 28.04.2025},
  journal={Briefings in bioinformatics},
  doi={10.1093/bib/bbae347},
}
@article{UBHD-69240989,
  author={Fuchs, Stijn and Stalmann, Ursula S. A. and Snoeren, Inge A. M. and Bindels, Eric and Schmitz, Stephani and Banjanin, Bella and Hoogenboezem, Remco M. and van Herk, Stanley and Saad, Mohamed and Walter, Wencke and Haferlach, Torsten and Seillier, Lancelot and Sáez Rodríguez, Julio and Dugourd, Aurélien and Lehmann, Kjong-Van and Ben-Neriah, Yinon and Gleitz, Hélène F. E. and Schneider, Rebekka K.},
  title={Collaborative effect of Csnk1a1 haploinsufficiency and mutant p53 in Myc induction can promote leukemic transformation},
  year={2024},
  pages={766-779},
  language={eng},
  issn={2473-9537},
  volume={8},
  number={3},
  note={Gesehen am 06.08.2024},
  journal={Blood advances},
  doi={10.1182/bloodadvances.2022008926},
}
@article{UBHD-69006758,
  author={Gegner, Hagen M. and Naake, Thomas and Dugourd, Aurélien and M{\"u}ller, Torsten and Czernilofsky, Felix and Kliewer, Georg and J{\"a}ger, Evelyn and Helm, Barbara and Kunze-Rohrbach, Nina and Klingm{\"u}ller, Ursula and Hopf, Carsten and M{\"u}ller-Tidow, Carsten and Dietrich, Sascha and Sáez Rodríguez, Julio and Huber, Wolfgang and Hell, R{\"u}diger and Poschet, Gernot and Krijgsveld, Jeroen},
  title={Pre-analytical processing of plasma and serum samples for combined proteome and metabolome analysis},
  year={2022},
  pages={1-13},
  language={eng},
  issn={2296-889X},
  volume={9},
  number={Artikel-ID 961448},
  note={Gesehen am 16.01.2023},
  journal={Frontiers in molecular biosciences},
  doi={10.3389/fmolb.2022.961448},
  url={https://doi.org/10.3389/fmolb.2022.961448},
  library={UB},
}
@article{UBHD-69289211,
  author={Gegner, Hagen M. and Naake, Thomas and Aljakouch, Karim and Dugourd, Aurélien and Kliewer, Georg and M{\"u}ller, Torsten and Schilling, Dustin and Schneider, Marc and Kunze-Rohrbach, Nina and Gr{\"u}newald, Thomas G. P. and Hell, R{\"u}diger and Sáez Rodríguez, Julio and Huber, Wolfgang and Poschet, Gernot and Krijgsveld, Jeroen},
  title={A single-sample workflow for joint metabolomic and proteomic analysis of clinical specimens},
  year={2024},
  pages={1-17},
  language={eng},
  issn={1559-0275},
  volume={21},
  number={Artikel-ID 49},
  note={Gesehen am 10.01.2025},
  journal={Clinical proteomics},
  doi={10.1186/s12014-024-09501-9},
}
@article{UBHD-68697186,
  author={Gjerga, Enio and Trairatphisan, Panuwat and Gabor, Attila and Koch, Hermann and Chevalier, Celine and Ceccarelli, Franceco and Dugourd, Aurélien and Mitsos, Alexander and Sáez Rodríguez, Julio},
  title={Converting networks to predictive logic models from perturbation signalling data with CellNOpt},
  year={2020},
  pages={4523-4524},
  language={eng},
  issn={1367-4811},
  volume={36},
  number={16},
  note={Gesehen am 09.02.2021},
  journal={Bioinformatics},
  doi={10.1093/bioinformatics/btaa561},
}
@article{UBHD-68740248,
  author={Gjerga, Enio and Dugourd, Aurélien and Tobalina, Luis and Sousa, Abel and Sáez Rodríguez, Julio},
  title={PHONEMeS},
  subtitle={efficient modeling of signaling networks derived from large-scale mass spectrometry data},
  year={2021},
  pages={2138-2144},
  language={eng},
  issn={1535-3907},
  volume={20},
  number={4},
  note={Gesehen am 21.05.2021},
  journal={Journal of proteome research},
  doi={10.1021/acs.jproteome.0c00958},
}
@article{UBHD-68665956,
  author={Gleitz, Hélène and Dugourd, Aurélien and Sáez Rodríguez, Julio},
  title={Increased CXCL4 expression in hematopoietic cells links inflammation and progression of bone marrow fibrosis in MPN},
  year={2020},
  pages={2051-2064},
  language={eng},
  issn={1528-0020},
  volume={136},
  number={18},
  note={Gesehen am 26.11.2020},
  journal={Blood},
  doi={10.1182/blood.2019004095},
}
@article{UBHD-68874258,
  author={Lone, Anna Mari and Giansanti, Piero and Jørgensen, Marthe Jøntvedt and Gjerga, Enio and Dugourd, Aurélien and Scholten, Arjen and Sáez Rodríguez, Julio and Heck, Albert J. R. and Taskén, Kjetil},
  title={Systems approach reveals distinct and shared signaling networks of the four PGE2 receptors in T cells},
  year={2021},
  pages={1-19},
  language={eng},
  issn={1937-9145},
  volume={14},
  note={Im Titel ist "2" tiefgestellt ; Gesehen am 04.02.2022},
  journal={Science signaling},
  doi={10.1126/scisignal.abc8579},
}
@article{UBHD-69241241,
  author={Niarakis, Anna and Ostaszewski, Marek and Mazein, Alexander and Kuperstein, Inna and Kutmon, Martina and Gillespie, Marc E. and Funahashi, Akira and Acencio, Marcio Luis and Hemedan, Ahmed and Aichem, Michael and Klein, Karsten and Czauderna, Tobias and Burtscher, Felicia and Yamada, Takahiro G. and Hiki, Yusuke and Hiroi, Noriko F. and Hu, Finterly and Pham, Nhung and Ehrhart, Friederike and Willighagen, Egon L. and Valdeolivas, Alberto and Dugourd, Aurélien and Messina, Francesco and Esteban-Medina, Marina and Peña-Chilet, Maria and Rian, Kinza and Soliman, Sylvain and Aghamiri, Sara Sadat and Puniya, Bhanwar Lal and Naldi, Aurélien and Helikar, Tomáš and Singh, Vidisha and Fernández, Marco Fariñas and Bermudez, Viviam and Tsirvouli, Eirini and Montagud, Arnau and Noël, Vincent and Ponce-de-Leon, Miguel and Maier, Dieter and Bauch, Angela and Gyori, Benjamin M. and Bachman, John A. and Luna, Augustin and Piñero, Janet and Furlong, Laura I. and Balaur, Irina and Rougny, Adrien and Jarosz, Yohan and Overall, Rupert W. and Phair, Robert and Perfetto, Livia and Matthews, Lisa and Rex, Devasahayam Arokia Balaya and Orlic-Milacic, Marija and Gomez, Luis Cristobal Monraz and De Meulder, Bertrand and Ravel, Jean Marie and Jassal, Bijay and Satagopam, Venkata and Wu, Guanming and Golebiewski, Martin and Gawron, Piotr and Calzone, Laurence and Beckmann, Jacques S. and Evelo, Chris T. and D’Eustachio, Peter and Schreiber, Falk and Sáez Rodríguez, Julio and Dopazo, Joaquin and Kuiper, Martin and Valencia, Alfonso and Wolkenhauer, Olaf and Kitano, Hiroaki and Barillot, Emmanuel and Auffray, Charles and Balling, Rudi and Schneider, Reinhard},
  title={Drug-target identification in COVID-19 disease mechanisms using computational systems biology approaches},
  year={2023},
  pages={1-24},
  language={eng},
  issn={1664-3224},
  volume={14},
  number={Artikel-ID 1282859},
  note={Gesehen am 07.08.2024},
  journal={Frontiers in immunology},
  doi={10.3389/fimmu.2023.1282859},
}
@article{UBHD-68878946,
  author={Ostaszewski, Marek and T{\"u}rei, Dénes and Valdeolivas, Alberto and Dugourd, Aurélien and Sáez Rodríguez, Julio and Dopazo, Joaquin and Valencia, Alfonso and Kitano, Hiroaki and Barillot, Emmanuel and Auffray, Charles and Balling, Rudolf and Schneider, Reinhard},
  title={COVID19 Disease Map, a computational knowledge repository of virus-host interaction mechanisms},
  year={2021},
  pages={1-22},
  language={eng},
  issn={1744-4292},
  volume={17},
  note={Gesehen am 16.02.2022},
  journal={Molecular systems biology},
  doi={10.15252/msb.202110387},
}
@article{UBHD-68938739,
  author={Pérez-Martí, Albert and Ramakrishnan, Suresh Krishna and Li, Jiayi and Dugourd, Aurélien and Molenaar, Martijn R and De La Motte, Luigi R and Grand, Kelli and Mansouri, Anis and Parisot, Mélanie and Lienkamp, Soeren S and Sáez Rodríguez, Julio and Simons, Matias},
  title={Reducing lipid bilayer stress by monounsaturated fatty acids protects renal proximal tubules in diabetes},
  year={2022},
  pages={1-31},
  language={eng},
  issn={2050-084X},
  volume={11},
  number={Artikel-ID e74391},
  note={Gesehen am 06.07.2022},
  journal={eLife},
  doi={10.7554/eLife.74391},
}
@article{UBHD-68770209,
  author={Petkevicius, Kasparas and Bidault, Guillaume and Virtue, Sam and Newland, Stephen A. and Dale, Martin and Dugourd, Aurélien and Saez-Rodriguez, Julio and Mallat, Ziad and Vidal-Puig, Antonio},
  title={Macrophage beta2-adrenergic receptor is dispensable for the adipose tissue inflammation and function},
  year={2021},
  pages={1-14},
  language={eng},
  issn={2212-8778},
  volume={48(2021) vom: Juni},
  number={Artikel-ID 101220},
  note={Gesehen am 12.08.2021},
  journal={Molecular metabolism},
  doi={10.1016/j.molmet.2021.101220},
}
@article{UBHD-68754270,
  author={Petkevicius, Kasparas and Bidault, Guillaume and Virtue, Sam and Jenkins, Benjamin and Dierendonck, Xanthe A. M. H. van and Dugourd, Aurélien and Sáez Rodríguez, Julio and Stienstra, Rinke and Koulman, Albert and Vidal-Puig, Antonio},
  title={Norepinephrine promotes triglyceride storage in macrophages via beta2-adrenergic receptor activation},
  year={2021},
  pages={1-18},
  language={eng},
  issn={1530-6860},
  volume={35},
  note={Gesehen am 30.06.2021},
  journal={The FASEB journal},
  doi={10.1096/fj.202001101R},
}
@article{UBHD-69058599,
  author={Salovska, Barbora and Gao, Erli and M{\"u}ller-Dott, Sophia and Li, Wenxue and Cordon, Carlos Chacon and Wang, Shisheng and Dugourd, Aurélien and Rosenberger, George and Sáez Rodríguez, Julio and Liu, Yansheng},
  title={Phosphoproteomic analysis of metformin signaling in colorectal cancer cells elucidates mechanism of action and potential therapeutic opportunities},
  year={2023},
  pages={1-25},
  language={eng},
  issn={2001-1326},
  volume={13},
  note={Gesehen am 31.03.2023},
  journal={Clinical and translational medicine},
  doi={10.1002/ctm2.1179},
}
@article{UBHD-69062819,
  author={Sciacovelli, Marco and Dugourd, Aurélien and Jimenez, Lorea Valcarcel and Yang, Ming and Nikitopoulou, Efterpi and Costa, Ana S. H. and Tronci, Laura and Caraffini, Veronica and Rodrigues, Paulo and Schmidt, Christina and Ryan, Dylan Gerard and Young, Timothy and Zecchini, Vincent R. and Rossi, Sabrina H. and Massie, Charlie and Lohoff, Caroline and Masid, Maria and Hatzimanikatis, Vassily and Kuppe, Christoph and Von Kriegsheim, Alex and Kramann, Rafael and Gnanapragasam, Vincent and Warren, Anne Y. and Stewart, Grant D. and Erez, Ayelet and Vanharanta, Sakari and Sáez Rodríguez, Julio and Frezza, Christian},
  title={Dynamic partitioning of branched-chain amino acids-derived nitrogen supports renal cancer progression},
  year={2022},
  pages={1-20},
  language={eng},
  issn={2041-1723},
  volume={13(2022) vom: Dez.},
  number={Artikel-ID 7830},
  note={Gesehen am 05.04.2023},
  journal={Nature Communications},
  doi={10.1038/s41467-022-35036-4},
}