Isoform- and cell-state-specific APOE homeostasis and function

Authors: Karina Lindner, Anne-Claude Gavin

Source: Neural Regeneration Research, Vol 19, Iss 11, Pp 2456-2466 (2024)

Subject Terms: alzheimer’s disease, apolipoprotein e, autophagy, cholesterol, lipid detoxification, lipid transport, lysosomal failure, metabolic impairment, triacylglycerol, Neurology. Diseases of the nervous system, RC346-429

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Relation: http://www.nrronline.org/article.asp?issn=1673-5374;year=2024;volume=19;issue=11;spage=2456;epage=2466;aulast=Lindner; https://doaj.org/toc/1673-5374

Access URL: https://doaj.org/article/a11975e73310483f9e9c304cffa30e05

Differential intracellular management of fatty acids impacts on metabolic stress-stimulated glucose uptake in cardiomyocytes

Authors: Ettore Vanni, Karina Lindner, Anne-Claude Gavin, Christophe Montessuit

Source: Scientific Reports, Vol 13, Iss 1, Pp 1-17 (2023)

Subject Terms: Medicine, Science

File Description: electronic resource

Relation: https://doaj.org/toc/2045-2322

Access URL: https://doaj.org/article/71b0ffbea8f349139aa0b85f727028f7

CLICK-chemoproteomics and molecular dynamics simulation reveals pregnenolone targets and their binding conformations in Th2 cells

Authors: Sougata Roy, Sudeep Roy, Bidesh Mahata, Jhuma Pramanik, Marco L. Hennrich, Anne-Claude Gavin, Sarah A. Teichmann

Source: Frontiers in Immunology, Vol 14 (2023)

Subject Terms: pregnenolone, lymphosteroid, chemoproteomics, TH2, click chemistry, Immunologic diseases. Allergy, RC581-607

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fimmu.2023.1229703/full; https://doaj.org/toc/1664-3224

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In vitro and in cellulo ApoE particle formation, isolation, and characterization

Authors: Karina Lindner, Larissa C. van Ek, Khader Awwad, Franziska Hanke, Alla V. Korepanova, Vladimir Rybin, Katharina Beckenbauer, Anne-Claude Gavin

Source: STAR Protocols, Vol 3, Iss 4, Pp 101894- (2022)

Subject Terms: Cell Biology, Metabolism, Protein Biochemistry, Science (General), Q1-390

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2666166722007742; https://doaj.org/toc/2666-1667

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CLICK-enabled analogues reveal pregnenolone interactomes in cancer and immune cells

Authors: Sougata Roy, James Sipthorp, Bidesh Mahata, Jhuma Pramanik, Marco L. Hennrich, Anne-Claude Gavin, Steven V. Ley, Sarah A. Teichmann

Source: iScience, Vol 24, Iss 5, Pp 102485- (2021)

Subject Terms: Science

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2589004221004533; https://doaj.org/toc/2589-0042

Access URL: https://doaj.org/article/ad58f3e5b40640a693cfc545a2a5e267

Coupling proteomics and metabolomics for the unsupervised identification of protein-metabolite interactions in Chaetomium thermophilum.

Authors: Yuanyue Li, Michael Kuhn, Joanna Zukowska-Kasprzyk, Marco L Hennrich, Panagiotis L Kastritis, Francis J O'Reilly, Prasad Phapale, Martin Beck, Anne-Claude Gavin, Peer Bork

Source: PLoS ONE, Vol 16, Iss 7, p e0254429 (2021)

Subject Terms: Medicine, Science

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Relation: https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0254429&type=printable; https://doaj.org/toc/1932-6203

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Cell metabolism regulates integrin mechanosensing via an SLC3A2-dependent sphingolipid biosynthesis pathway

Authors: Etienne Boulter, Soline Estrach, Floriane S. Tissot, Marco L. Hennrich, Lionel Tosello, Laurence Cailleteau, Laura R. de la Ballina, Sabrina Pisano, Anne-Claude Gavin, Chloé C. Féral

Source: Nature Communications, Vol 9, Iss 1, Pp 1-15 (2018)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/57cabe34ca7f4253b5ef301fc4179fe9

Cell-specific proteome analyses of human bone marrow reveal molecular features of age-dependent functional decline

Authors: Marco L. Hennrich, Natalie Romanov, Patrick Horn, Samira Jaeger, Volker Eckstein, Violetta Steeples, Fei Ye, Ximing Ding, Laura Poisa-Beiro, Mang Ching Lai, Benjamin Lang, Jacqueline Boultwood, Thomas Luft, Judith B. Zaugg, Andrea Pellagatti, Peer Bork, Patrick Aloy, Anne-Claude Gavin, Anthony D. Ho

Source: Nature Communications, Vol 9, Iss 1, Pp 1-18 (2018)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/86524845718d4cb59745f4c377ff0da5

Structural and functional dissection of the DH and PH domains of oncogenic Bcr-Abl tyrosine kinase

Authors: Sina Reckel, Charlotte Gehin, Delphine Tardivon, Sandrine Georgeon, Tim Kükenshöner, Frank Löhr, Akiko Koide, Lena Buchner, Alejandro Panjkovich, Aline Reynaud, Sara Pinho, Barbara Gerig, Dmitri Svergun, Florence Pojer, Peter Güntert, Volker Dötsch, Shohei Koide, Anne-Claude Gavin, Oliver Hantschel

Source: Nature Communications, Vol 8, Iss 1, Pp 1-14 (2017)

Subject Terms: Science

File Description: electronic resource

Relation: https://doaj.org/toc/2041-1723

Access URL: https://doaj.org/article/dc5c32c8cdcb4768b619089187cee0d3

Capturing protein communities by structural proteomics in a thermophilic eukaryote

Authors: Panagiotis L Kastritis, Francis J O'Reilly, Thomas Bock, Yuanyue Li, Matt Z Rogon, Katarzyna Buczak, Natalie Romanov, Matthew J Betts, Khanh Huy Bui, Wim J Hagen, Marco L Hennrich, Marie‐Therese Mackmull, Juri Rappsilber, Robert B Russell, Peer Bork, Martin Beck, Anne‐Claude Gavin

Source: Molecular Systems Biology, Vol 13, Iss 7, Pp 1-14 (2017)

Subject Terms: computational modeling, cryo‐electron microscopy, fatty acid synthase, interaction proteomics, metabolon, Biology (General), QH301-705.5, Medicine (General), R5-920

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Relation: https://doaj.org/toc/1744-4292

Access URL: https://doaj.org/article/15f6ec5f9421498ca23ca26e8be3eb20

Structural insights and activating mutations in diverse pathologies define mechanisms of deregulation for phospholipase C gamma enzymes

Authors: Yang Liu, Tom D. Bunney, Sakshi Khosa, Kévin Macé, Katharina Beckenbauer, Trevor Askwith, Sarah Maslen, Christopher Stubbs, Taiana M. de Oliveira, Kasim Sader, Mark Skehel, Anne-Claude Gavin, Christopher Phillips, Matilda Katan

Source: EBioMedicine, Vol 51, Iss , Pp - (2020)

Subject Terms: Medicine, Medicine (General), R5-920

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S2352396419308229; https://doaj.org/toc/2352-3964

Access URL: https://doaj.org/article/fae72e0deddd4347abbae01996f625e8

Structures of three MORN repeat proteins and a re-evaluation of the proposed lipid-binding properties of MORN repeats.

Authors: Sara Sajko, Irina Grishkovskaya, Julius Kostan, Melissa Graewert, Kim Setiawan, Linda Trübestein, Korbinian Niedermüller, Charlotte Gehin, Antonio Sponga, Martin Puchinger, Anne-Claude Gavin, Thomas A Leonard, Dimitri I Svergun, Terry K Smith, Brooke Morriswood, Kristina Djinovic-Carugo

Source: PLoS ONE, Vol 15, Iss 12, p e0242677 (2020)

Subject Terms: Medicine, Science

File Description: electronic resource

Relation: https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0242677&type=printable; https://doaj.org/toc/1932-6203

Access URL: https://doaj.org/article/38d399357c6c47bd84e2be3a7af77ffa

Lipid Cooperativity as a General Membrane-Recruitment Principle for PH Domains

Authors: Ivana Vonkova, Antoine-Emmanuel Saliba, Samy Deghou, Kanchan Anand, Stefano Ceschia, Tobias Doerks, Augustinus Galih, Karl G. Kugler, Kenji Maeda, Vladimir Rybin, Vera van Noort, Jan Ellenberg, Peer Bork, Anne-Claude Gavin

Source: Cell Reports, Vol 12, Iss 9, Pp 1519-1530 (2015)

Subject Terms: Biology (General), QH301-705.5

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S221112471500844X; https://doaj.org/toc/2211-1247

Access URL: https://doaj.org/article/97ef8f3879ca4f83b893e2538afd84c9

Defining a minimal cell: essentiality of small ORFs and ncRNAs in a genome‐reduced bacterium

Authors: Maria Lluch‐Senar, Javier Delgado, Wei‐Hua Chen, Verónica Lloréns‐Rico, Francis J O'Reilly, Judith AH Wodke, E Besray Unal, Eva Yus, Sira Martínez, Robert J Nichols, Tony Ferrar, Ana Vivancos, Arne Schmeisky, Jörg Stülke, Vera van Noort, Anne‐Claude Gavin, Peer Bork, Luis Serrano

Source: Molecular Systems Biology, Vol 11, Iss 1, Pp 1-7 (2015)

Subject Terms: minimal genome, non‐coding RNAs, small proteins, Biology (General), QH301-705.5, Medicine (General), R5-920

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Relation: https://doaj.org/toc/1744-4292

Access URL: https://doaj.org/article/9799bb6ce59249468240a44d86279119

Systematic identification of proteins that elicit drug side effects

Authors: Michael Kuhn, Mumna Al Banchaabouchi, Monica Campillos, Lars Juhl Jensen, Cornelius Gross, Anne‐Claude Gavin, Peer Bork

Source: Molecular Systems Biology, Vol 9, Iss 1, Pp 1-9 (2013)

Subject Terms: computational biology, drug targets, side effects, Biology (General), QH301-705.5, Medicine (General), R5-920

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Relation: https://doaj.org/toc/1744-4292

Access URL: https://doaj.org/article/d6c2ffd1a87a40f1b2e29e08094192a3

Characterization of drug‐induced transcriptional modules: towards drug repositioning and functional understanding

Authors: Murat Iskar, Georg Zeller, Peter Blattmann, Monica Campillos, Michael Kuhn, Katarzyna H Kaminska, Heiko Runz, Anne‐Claude Gavin, Rainer Pepperkok, Vera van Noort, Peer Bork

Source: Molecular Systems Biology, Vol 9, Iss 1, Pp 1-13 (2013)

Subject Terms: cell line models in drug discovery, drug‐induced transcriptional modules, drug repositioning, gene function prediction, transcriptome conservation across cell types and organisms, Biology (General), QH301-705.5, Medicine (General), R5-920

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Relation: https://doaj.org/toc/1744-4292

Access URL: https://doaj.org/article/9478002f54924c62a01731099796f2c2

Systematic identification of phosphorylation-mediated protein interaction switches.

Authors: Matthew J Betts, Oliver Wichmann, Mathias Utz, Timon Andre, Evangelia Petsalaki, Pablo Minguez, Luca Parca, Frederick P Roth, Anne-Claude Gavin, Peer Bork, Robert B Russell

Source: PLoS Computational Biology, Vol 13, Iss 3, p e1005462 (2017)

Subject Terms: Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://doaj.org/toc/1553-734X; https://doaj.org/toc/1553-7358

Access URL: https://doaj.org/article/b521f5ae76f94fd4b5eb0656925972b3

Deciphering a global network of functionally associated post‐translational modifications

Authors: Pablo Minguez, Luca Parca, Francesca Diella, Daniel R Mende, Runjun Kumar, Manuela Helmer‐Citterich, Anne‐Claude Gavin, Vera van Noort, Peer Bork

Source: Molecular Systems Biology, Vol 8, Iss 1, Pp 1-14 (2012)

Subject Terms: post‐translational modifications, protein regulation, proteomics, PTM code, PTM crosstalk, Biology (General), QH301-705.5, Medicine (General), R5-920

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Relation: https://doaj.org/toc/1744-4292

Access URL: https://doaj.org/article/f6ed9ad756794614ad2f4a25f923a13e

Transcription start site associated RNAs in bacteria

Authors: Eva Yus, Marc Güell, Ana P Vivancos, Wei‐Hua Chen, María Lluch‐Senar, Javier Delgado, Anne‐Claude Gavin, Peer Bork, Luis Serrano

Source: Molecular Systems Biology, Vol 8, Iss 1, Pp 1-7 (2012)

Subject Terms: non‐coding RNAs, small RNAs, transcription, transcriptomics, Biology (General), QH301-705.5, Medicine (General), R5-920

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Relation: https://doaj.org/toc/1744-4292

Access URL: https://doaj.org/article/01456c34013244c589a52787ecd7a6c6

Cross‐talk between phosphorylation and lysine acetylation in a genome‐reduced bacterium

Authors: Vera van Noort, Jan Seebacher, Samuel Bader, Shabaz Mohammed, Ivana Vonkova, Matthew J Betts, Sebastian Kühner, Runjun Kumar, Tobias Maier, Martina O'Flaherty, Vladimir Rybin, Arne Schmeisky, Eva Yus, Jörg Stülke, Luis Serrano, Robert B Russell, Albert JR Heck, Peer Bork, Anne‐Claude Gavin

Source: Molecular Systems Biology, Vol 8, Iss 1, Pp 1-16 (2012)

Subject Terms: kinase, N‐acetyltransferase, network, phosphatase, post‐translational modification, Biology (General), QH301-705.5, Medicine (General), R5-920

File Description: electronic resource

Relation: https://doaj.org/toc/1744-4292

Access URL: https://doaj.org/article/74206d412ce54bdfad652b28ec920ad4