Risultati finali
A report summarizing results from fluorescence-based assays.
Constructs and protocols for priority SLCsSet of expression vectors and protein purification protocols for SLCs on the priority list.
Transcriptome and metabolome for priority SLCsQuantitative differential transcriptome, metabolome data within a cell line that naturally expresses each SLC in the priority list in both basal and stimuli challenged states.
Data Management Plan 2Initial version of DMP after 6 months, an updated version latest mid-term and a final version
Vector generationCollection of lentiviral and Flp-In compatible vectors carrying CRISPR-based Cas9 and sgRNAs targeting all SLCs, together with vectors carrying tagged and untagged cDNAs for >80% of the SLC family
ReSOLUTE knowledgebaseConcept for database of integrated publicly available knowledge and ReSOLUTE web portal.
Data MiningData mining support for priority ranking of SLC family members for target selection in WP4.
Informatic anylysis of metabolomic dataDevelopment and deployment of workflows for QSAR analysis of the ability of particular overexpressed SLCs to take up different substrates, and judicious variation of those substrates.
SLC overexpression in HEK293Collection of >300 HEK293 isogenic cell lines, each overexpressing a SLC gene, quality-controlled and characterized with a multi-parameter approach
DEP implemented (stepwise, up to M60)Subcellular localization of target SLCs
Based on optical imaging experiments with tagged SLCs.
SLC overexpressing cell linesCollection of 600 cell lines each overexpressing a specific SLC in untagged and tagged versions qualitycontrolled and characterized with a multiparameter approach
SLC interactomePhysical measurement (by proteomics) of coexpression/copurification of SLCs with partners.
Signature metabolic profiles using targeted metabolomicsRobust identification and quantification using LCGCMS for some 180 central metabolites
SLC Interactome for priority SLCsCondition dependent protein interaction network data in response to on-target and orthogonal pathway stimuli modulating SLC function.
Profile of plasma metabolite changes for each SLC cell lineUse of methods of Task 2.2 to assess the largest changes between cells lines upregulated/knocked out for particular SLCs
Assays for SLCs based on SSM-electrophysiologyA report summarizing results and protocols obtained with the SURFE2R approach.
Production of validated SLC antibodiesLarge set of validated antibodies targeting SLCs, together with tissue localization data.
Assays for SLCs based on fluorescent sensor proteinsA report summarizing results and protocols on measuring SLC-dependent metabolic states through fluorescent sensor proteins.
Production of antigens and high-affinity bindersAntigens for animal immunization for priority SLCs, together with DARPins or monobodies for priority SLCS and a panel of relevant SLCs.
SLC k.o. cell linesCollection of 600 cell lines each carrying frameshift mutations in one SLC gene qualitycontrolled and characterized with a multiparameter approach
Assays for SLCs based on cell lines that couple growth to SLC functionA report summarizing results and protocols on assay based on genetic engineering of cell lines dependent on specific SLCs for survival.
Assays for SLCs based on mass spectrometry, thermal shift, radiolabelled or fluorescent compoundsA report summarizing results from classical transport assays.
Assays for (electrogenic) transportersA report summarizing results and protocols obtained using fluorescent sensitive dyes and impedance measurements.
Physiological and physical network map for priority SLCsCondition-dependent regulatory models integrating transcriptomics, metabolomics and proteomics data for priority SLCs.
Data Management Plan 3Initial version of DMP after 6 months, an updated version latest mid-term and a final version
Methodology for general detection of plasma metabolites and drug/dietary componentsLC/GC-MS coupled to novel deconvolution routines for determining the approximately 3,000 molecules typically observable in serum
Protein expression screenA family-wide assessment of protein expression yields in recombinant expression systems.
Determination of SLCs using ions as (co-)substratesThe recognition that many substrates are symporters or antiporters means that one can detect this by assessing the movement of co-ions when transport substrates are added to suitable cell lines.
SLC genetic interaction mapProduction of ‘synthetic phenotypes’, based on the principle that knocking out both variants of a transporter with redundant function (e.g. loss of ability to transport X) thereby causes a phenotype from which one can infer function.
SLC k.o. in HEK293Collection of 300 HEK293 isogenic cell lines each carrying frameshift mutations in a SLC gene qualitycontrolled and characterized with a multiparameter approach
Reconstitution of SLCs in proteoliposomes and nanodiscsNanodisc- and liposome-reconstituted SLCs for in vitro assays of successfully purified SLCs of the priority list.
Data Management Plan 1Initial version of DMP after 6 months, an updated version latest mid-term and a final version.
Protein production for the SLCs in the priority listProduction of milligram quantities of highly pure (>90%) and stable protein samples for >30% of the priority SLCs.
Data sharing and approval process, and prototype of interface for data access at public web portal up and running
ReSOLUTE databaseInfrastructure and data warehouse for sharing annotated raw data files and analysis results; prototype ready after first year and annual releases of new versions.
Pubblicazioni
Autori:
Gelová, Zuzana; Ingles-Prieto, Alvaro
Pubblicato in:
2022
Editore:
n/a
DOI:
10.5281/zenodo.7462234
Autori:
Ulrich Goldmann, Gerhard Ecker, Vitaly Sedlyarov, Lia Scarabottolo, Vania Manolova, Claire Colas
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2020
Editore:
Zenodo
DOI:
10.5281/zenodo.5179816
Autori:
Lia Scarabottolo; Juergen Reinhardt; Huub Sijben
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2020
Editore:
Zenodo
DOI:
10.5281/zenodo.5179859
Autori:
Ulrich Goldmann; Vitaly Sedlyarov; Daniela Digles; Barbara Füzi
Pubblicato in:
2018
Editore:
Zenodo
DOI:
10.5281/zenodo.5179834
Autori:
Goldmann, Ulrich; Ecker, Gerhard; Sedlyarov, Vitaly; Scarabottolo, Lia; Manolova, Vania; Colas, Claire
Pubblicato in:
Numero 1, 2019
Editore:
n/a
DOI:
10.5281/zenodo.4309586
Autori:
Gernot Wolf; Klaus Seuwen; Barbara Barbosa; Eirini Christodoulaki; Alvaro Ingles-Prieto; Ulrich Goldmann; Christoph Klimek; Svenja Onstein; Vitaly Sedlyarov; Tabea Wiedmer; Diana Santacruz; Coralie Viollet; Florence Massey; Veeranagouda Yaligara
Pubblicato in:
2021
Editore:
Zenodo
DOI:
10.5281/zenodo.10419148
Autori:
Viollet, Coralie; Santacruz, Diana; Knebel, Dagmar; Rust, Werner; Acker, Susanne; Dick, Alec
Pubblicato in:
2022
Editore:
n/a
DOI:
10.5281/zenodo.7462292
Autori:
David B. Sauer; Huanyu Li; Sagar Raturi; Andreea Scacioc; Tina Bohstedt; Abilasha Balakrishnan
Pubblicato in:
2022
Editore:
n/a
DOI:
10.5281/zenodo.7462714
Autori:
Svenja Onstein; Eva Liñeiro; Christoph Klimek; Barbara Barbosa; Gernot Wolf
Pubblicato in:
2022
Editore:
Zenodo
DOI:
10.5281/zenodo.7457377
Autori:
Ayoubi, Riham; McPherson, Peter S.; Laflamme, Carl
Pubblicato in:
2021
Editore:
Zenodo
DOI:
10.5281/zenodo.4733107
Autori:
Sauer, David B.; Huanyu Li; Raturi, Sagar; Scacioc, Andreea; Bohstedt, Tina; Abilasha Balakrishnan
Pubblicato in:
2022
Editore:
Zenodo
DOI:
10.5281/zenodo.7462743
Autori:
Daniela Digles; Jiani Li; Ulrich Goldmann
Pubblicato in:
2018
Editore:
Zenodo
DOI:
10.5281/zenodo.5179841
Autori:
Alvaro Ingles-Prieto; Felix Kartnig
Pubblicato in:
2022
Editore:
n/a
DOI:
10.5281/zenodo.7457392
Autori:
Eva Liñeiro; Alvaro Ingles-Prieto; Fabian Frommelt; André C. Mueller
Pubblicato in:
2022
Editore:
n/a
DOI:
10.5281/zenodo.7462207
Autori:
Wolf, Gernot; Seuwen, Klaus
Pubblicato in:
2021
Editore:
n/a
DOI:
10.5281/zenodo.5566804
Autori:
Sauer, David B.; Huanyu Li; Raturi, Sagar; Scacioc, Andreea; Bohstedt, Tina; Abilasha Balakrishnan
Pubblicato in:
2022
Editore:
n/a
DOI:
10.5281/zenodo.7462911
Autori:
Pfeifer, Martin; Kohlbrenner, Mariah; Chang, Lena; Lambrigger, Pascal; Ingles-Prieto, Alvaro; Reinhardt, Jürgen
Pubblicato in:
2022
Editore:
n/a
DOI:
10.5281/zenodo.7457345
Autori:
Klimek, Christoph; Onstein, Svenja; Barbosa, Barbara; Ingles-Prieto, Alvaro; Skucha, Anna; Ibig, Yvonne; Seuwen, Klaus; Wolf, Gernot
Pubblicato in:
2022
Editore:
Zenodo
DOI:
10.5281/zenodo.7457220
Autori:
David B. Sauer; Huanyu Li; Sagar Raturi; Andreea Scacioc; Tina Bohstedt; Abilasha Balakrishnan
Pubblicato in:
2022
Editore:
n/a
DOI:
10.5281/zenodo.7462780
Autori:
Alshafie, Walaa; Ayoubi, Riham; McPherson, Peter S.; Laflamme, Carl
Pubblicato in:
2021
Editore:
Zenodo
DOI:
10.5281/zenodo.4733134
Autori:
David B. Sauer; Huanyu Li; Sagar Raturi; Andreea Scacioc; Tina Bohstedt; Abilasha Balakrishnan
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2022
Editore:
n/a
DOI:
10.5281/zenodo.7462876
Autori:
Gernot Wolf; Alvaro Ingles-Prieto; Enrico Girardi; Vitaly Sedlyarov; Svenja Onstein; Christoph Klimek; Barbara Barbosa
Pubblicato in:
2019
Editore:
Zenodo
DOI:
10.5281/zenodo.5179824
Autori:
Philipp Leippe; Lia Scarabottolo
Pubblicato in:
2020
Editore:
Zenodo
DOI:
10.5281/zenodo.5179857
Autori:
Ayoubi, Riham; McPherson, Peter S.; Laflamme, Carl
Pubblicato in:
2021
Editore:
Zenodo
DOI:
10.5281/zenodo.4733132
Autori:
Klimek, Christoph; Onstein, Svenja; Barbosa, Barbara; Wolf, Gernot
Pubblicato in:
2022
Editore:
n/a
DOI:
10.5281/zenodo.7462188
Autori:
Gernot Wolf; Klaus Seuwen; Barbara Barbosa; Eirini Christodoulaki; Alvaro Ingles-Prieto; Ulrich Goldmann; Christoph Klimek; Svenja Onstein; Vitaly Sedlyarov; Tabea Wiedmer; Diana Santacruz; Coralie Viollet
Pubblicato in:
2021
Editore:
Zenodo
DOI:
10.5281/zenodo.10419229
Autori:
Tabea Wiedmer; Abigail Jarret; Sabrina Lindinger
Pubblicato in:
2022
Editore:
n/a
DOI:
10.5281/zenodo.7462174
Autori:
Ayoubi, Riham; McPherson, Peter S.; Laflamme, Carl
Pubblicato in:
2021
Editore:
Zenodo
DOI:
10.5281/zenodo.4733123
Autori:
Svenja Onstein; Christoph Klimek; Barbara Barbosa; Anna Skucha; Gernot Wolf
Pubblicato in:
2022
Editore:
Zenodo
DOI:
10.5281/zenodo.7457297
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Alvaro Ingles-Prieto; Eva Liñeiro; Ariel Bensimon; Fabian Frommelt; André C. Mueller
Pubblicato in:
2022
Editore:
n/a
DOI:
10.5281/zenodo.7457416
Autori:
Eva Liñeiro; André C. Mueller
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2022
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Zenodo
DOI:
10.5281/zenodo.7462271
Autori:
Claire Steppan; Marina Wright Muelas; Douglas Kell; Tabea Wiedmer; Mary Piotrowski
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2019
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Zenodo
DOI:
10.5281/zenodo.5179870
Autori:
David B. Sauer; Huanyu Li; Sagar Raturi; Andreea Scacioc; Tina Bohstedt; Abilasha Balakrishnan
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2022
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Zenodo
DOI:
10.5281/zenodo.7468558
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Ulrich Goldmann; Vitaly Sedlyarov
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2019
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Zenodo
DOI:
10.5281/zenodo.5179880
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Ayoubi, Riham; McPherson, Peter S.; Laflamme, Carl
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2021
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Zenodo
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10.5281/zenodo.4733103
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Ingles-Prieto, Alvaro; Liñeiro, Eva; Frommelt, Fabian
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2022
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Zenodo
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10.5281/zenodo.7457436
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Ulrich Goldmann; Vitaly Sedlyarov
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2019
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Zenodo
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Tabea Wiedmer, Eirini Christodoulaki, Sabrina Lindinger, Iciar Serrano, Christoph Bueschl, Thomas Hannich
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2022
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Zenodo
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Gernot Wolf; Klaus Seuwen; Barbara Barbosa; Eirini Christodoulaki; Alvaro Ingles-Prieto; Ulrich Goldmann; Christoph Klimek; Svenja Onstein; Vitaly Sedlyarov; Tabea Wiedmer; Diana Santacruz; Coralie Viollet; Florence Massey; Veeranagouda Yaligara
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2021
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Zenodo
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10.5281/zenodo.10419196
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Mueller, André C.; Liñeiro, Eva
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Garcia, Julio; Gelova, Zuzana
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Vera Pütter; Yung-Ning Chang
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Christoph Klimek; Svenja Onstein; Barbara Barbosa; Alvaro Ingles-Prieto; Anna Skucha; Gernot Wolf
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2022
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10.5281/zenodo.7457295
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Ayoubi, Riham; McPherson, Peter S.; Laflamme, Carl
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2021
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Zenodo
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10.5281/zenodo.4733121
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Diana Santacruz, Francis O Enane, Katrin Fundel-Clemens, Martin Giner, Gernot Wolf, Svenja Onstein, Christoph Klimek, Zachary Smith, Bhagya Wijayawardena, Coralie Viollet
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SLAS Discovery, 2022, ISSN 2472-5552
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Molecular Informatics, 2024, ISSN 1868-1743
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Wiley - VCH Verlag GmbH & CO. KGaA
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International Journal of Molecular Sciences, 2022, ISSN 1422-0067
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Multidisciplinary Digital Publishing Institute (MDPI)
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Evandro Ferrada, Tabea Wiedmer, Wen-An Wang, Fabian Frommelt, Barbara Steurer, Christoph Klimek, Sabrina Lindinger, Tanja Osthushenrich, Andrea Garofoli, Silvia Brocchetti, Samuel Bradberry, Jiahui Huang, Aidan MacNamara, Lia Scarabottolo, Gerhard F. Ecker, Anders Malarstig, Giulio Superti-Furga
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Academic Press
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10.1016/j.jmb.2023.168383
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Kluwer Academic Publishers
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Raturi S, Li H, Chang YN, Scacioc A, Bohstedt T, Fernandez-Cid A, Evans A, Abrusci P, Balakrishnan A, Pascoa TC, He D, Chi G, Kaur Singh N, Ye M, Li A, Shrestha L, Wang D, Williams EP, Burgess-Brown NA, Dürr KL, Puetter V, Ingles-Prieto A, Sauer DB.
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Journal of Visualized Experiments, 2023, ISSN 1940-087X
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10.3791/65878
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Vojtech Dvorak, Tabea Wiedmer, Alvaro Ingles-Prieto, Patrick Altermatt, Helena Batoulis, Felix Bärenz, Eckhard Bender, Daniela Digles, Franz Dürrenberger, Laura H. Heitman, Adriaan P. IJzerman, Douglas B. Kell, Stefanie Kickinger, Daniel Körzö, Philipp Leippe, Thomas Licher, Vania Manolova, Riccardo Rizzetto, Francesca Sassone, Lia Scarabottolo, Avner Schlessinger, Vanessa Schneider, Hubert J.
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Frontiers Media S.A.
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Vojtech Dvorak & Giulio Superti-Furga
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Informa Healthcare
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Tabea Wiedmer, Alvaro Ingles-Prieto, Ulrich Goldmann, Claire M. Steppan, Giulio Superti-Furga, the RESOLUTE, REsolution consortia
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Claire Colas
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Frontiers in Pharmacology, 2020, ISSN 1663-9812
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Sijben HJ, Dall’ Acqua L, Liu R, Jarret A, Christodoulaki E, Onstein S, Wolf G, Verburgt SJ, Le Dévédec SE, Wiedmer T, Superti-Furga G, IJzerman AP and Heitman LH
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Frontiers in Pharmacology, 2022, ISSN 1663-9812
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Giulio Superti-Furga, Daniel Lackner, Tabea Wiedmer, Alvaro Ingles-Prieto, Barbara Barbosa, Enrico Girardi, Ulrich Goldmann, Bettina Gürtl, Kristaps Klavins, Christoph Klimek, Sabrina Lindinger, Eva Liñeiro-Retes, André C. Müller, Svenja Onstein, Gregor Redinger, Daniela Reil, Vitaly Sedlyarov, Gernot Wolf, Matthew Crawford, Robert Everley, David Hepworth, Shenping Liu, Stephen Noell, Mary Pio
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