Publications per year
Publications per year
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2024
Accelerating wheat improvement through trait characterization: advances and perspectives
Roychowdhury, R., Ghatak, A., Kumar, M., Samantara, K., Weckwerth, W. & Chaturvedi, P., Oct 2024, In: Physiologia Plantarum. 176, 5, p. e14544 e14544.Publications: Contribution to journal › Review › Peer Reviewed
Open Access -
A perspective on genetic and polygenic risk scores—advances and limitations and overview of associated tools
Schwarzerova, J., Hurta, M., Barton, V., Lexa, M., Walther, D., Provaznik, V. & Weckwerth, W., 20 May 2024, In: Briefings in bioinformatics. 25, 3, bbae240.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
CAM evolution is associated with gene family expansion in an explosive bromeliad radiation
Groot Crego, C., Hess, J., Yardeni, G., de La Harpe, M., Priemer, C., Beclin, F., Saadain, S., Cauz-Santos, L. A., Temsch, E. M., Weiss-Schneeweiss, H., Barfuss, M. H. J., Till, W., Weckwerth, W., Heyduk, K., Lexer, C., Paun, O. & Leroy, T., 3 Oct 2024, In: The Plant Cell. 36, 10, p. 4109-4131 23 p.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Cell-type proteomic and metabolomic resolution of early and late grain filling stages of wheat endosperm
Zhang, S., Ghatak, A., Mohammad Bazargani, M., Kramml, H., Zang, F., Gao, S., Ramšak, Ž., Gruden, K., Varshney, R. K., Jiang, D., Chaturvedi, P. & Weckwerth, W., Mar 2024, In: Plant Biotechnology Journal. 22, 3, p. 555-571 17 p.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Comparative analysis of geotypic variations in the proteome of Nostoc commune
Routray, D., Ghatak, A., Chaturvedi, P., Petijová, L., Weckwerth, W., Ručová, D., Bačkor, M., Lang, I. & Goga, M., 31 Dec 2024, In: Plant Signaling & Behavior. 19, 1, 1 p., 2370719.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Corrigendum: Sulforaphane diminishes moonlighting of pyruvate kinase M2 and interleukin 1β expression in M1 (LPS) macrophages(Front. Immunol., (2022), 13, (935692), 10.3389/fimmu.2022.935692)
Bahiraii, S., Brenner, M., Yan, F., Weckwerth, W. & Heiss, E. H., 22 Apr 2024, In: Frontiers in Immunology. 15, 1395642.Publications: Contribution to journal › Annotation › Peer Reviewed
Open Access -
Detecting horizontal gene transfer among microbiota: an innovative pipeline for identifying co-shared genes within the mobilome through advanced comparative analysis
Schwarzerova, J., Zeman, M., Babak, V., Jureckova, K., Nykrynova, M., Varga, M., Weckwerth, W., Dolejska, M., Provaznik, V., Rychlik, I. & Cejkova, D., 11 Jan 2024, In: Microbiology Spectrum. 12, 1, 23 p., e0196423.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Elevated PINK1/Parkin-Dependent Mitophagy and Boosted Mitochondrial Function Mediate Protection of HepG2 Cells from Excess Palmitic Acid by Hesperetin
Li, W., Cai, Z., Schindler, F., Afjehi-Sadat, L., Montsch, B., Heffeter, P., Heiss, E. H. & Weckwerth, W., 12 Jun 2024, In: Journal of Agricultural and Food Chemistry. 72, 23, p. 13039-13053 15 p.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Integrated multi-omics analysis reveals drought stress response mechanism in chickpea (Cicer arietinum L.)
Kudapa, H., Ghatak, A., Barmukh, R., Chaturvedi, P., Khan, A., Kale, S., Fragner, L., Chitikineni, A., Weckwerth, W. & Varshney, R. K., Mar 2024, In: Plant Genome. 17, 1, e20337.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Integrating eco-friendly approaches to produce protein extracts and hydrolysates with antioxidant properties from Microchloropsis gaditana
Zwander, S., Chaturvedi, P., Ghatak, A., Weckwerth, W., Marko, D. & Castejon Caballero, N., Jan 2024, In: Algal Research. 77, 12 p., 103368.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Integrative tissue-resolved proteomics and metabolomics analysis of oil palm (Elaeis guineensis Jacq.) fruit provides insights into stilbenoid biosynthesis at the interface of primary and secondary metabolism
Hassan, H., Tahir, N. I., Rozali, N. L., Lau, B. Y. C., Othman, A., Weckwerth, W. & Ramli, U. S., Sept 2024, In: Biocatalysis and Agricultural Biotechnology. 60, 103308.Publications: Contribution to journal › Article › Peer Reviewed
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Low dose ribosomal DNA P-loop mutation affects development and enforces autophagy in Arabidopsis
Shanmugam, T., Chaturvedi, P., Streit, D., Ghatak, A., Bergelt, T., Simm, S., Weckwerth, W. & Schleiff, E., 2024, In: RNA Biology. 21, 1, p. 1-15 15 p.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Machine learning and data-driven inverse modeling of metabolomics unveil key process of active aging
Li, J., Brenner, M., Pierides, I., Wessner, B., Franzke, B., Strasser, E-M., Waldherr, S., Wagner, K-H. & Weckwerth, W., 28 Aug 2024, (bioRxiv : the preprint server for biology).Publications: Working paper › Preprint
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Millets for a sustainable future
Ghatak, A., Pierides, I., Singh, R. K., Srivastava, R. K., Varshney, R. K., Prasad, M., Chaturvedi, P. & Weckwerth, W., 26 Dec 2024, (E-pub ahead of print) In: Journal of Experimental Botany.Publications: Contribution to journal › Article › Peer Reviewed
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Multiomics for Crop Improvement
Chaturvedi, P., Pierides, I., Zhang, S., Schwarzerová, J., Ghatak, A. & Weckwerth, W., 24 Jan 2024, Frontier Technologies for Crop Improvement: Sustainability Sciences in Asia and Africa().. Pandey, M. K., Bentley, A., Desmae, H., Roorkiwal, M. & Varshney, R. K. (eds.). Springer Singapore, p. 107 141 p. ( Sustainability Sciences in Asia and Africa (SAFS) ).Publications: Contribution to book › Chapter › Peer Reviewed
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Natural variation in the chickpea metabolome under drought stress
Chaturvedi, P., Pierides, I., López-Hidalgo, C., Garg, V., Zhang, S., Barmukh, R., Bellaire, A., Li, J., Bachmann, G., Valledor, L., Varshney, R. K., Ghatak, A. & Weckwerth, W., Dec 2024, In: Plant Biotechnology Journal. 22, 12, p. 3278-3294 17 p.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Network structure and fluctuation data improve inference of metabolic interaction strengths with the inverse Jacobian
Li, J., Weckwerth, W. & Waldherr, S., Dec 2024, In: Npj systems biology and applications. 10, 1, 137.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Omics Technologies: A Strategy to Expedite the Geographical Traceability and Authenticity of Palm Oil
Rozali, N. L., Ramli, U. S., Singh, R., Syed Jaafar, S. N., Weckwerth, W., Azizan, K. A. & Othman, A., 18 Nov 2024, In: Food and Bioprocess Technology.Publications: Contribution to journal › Review › Peer Reviewed
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Polygenic Risk Score Simulation: A case study of sudden cardiovascular diseases derived from literature insights.
Schwarzerova, J., Piherova, L., Polakovicova, P., Guziurova, S., Kutilova, E., Adamova, M., Krebsova, A., Provazník, V., Weckwerth, W. & Sitkova, R., 3 Dec 2024, 2024 IEEE International Conference on Bioinformatics and Biomedicine. p. 5081-5088 (IEEE International Conference on Bioinformatics and Biomedicine).Publications: Contribution to book › Contribution to proceedings › Peer Reviewed
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Procyanidin A1 and its digestive products inhibit acrylamide-induced IPEC-J2 cell damage: apoptosis and cell cycle arrest
Yan, F., Quin, S., Wang, C., Weckwerth, W., Lu, Q. & Liu, R., 4 Sept 2024, In: Food Science and Human Wellness.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Stress Knowledge Map: A knowledge graph resource for systems biology analysis of plant stress responses
Bleker, C., Ramšak, Ž., Bittner, A., Podpečan, V., Zagorščak, M., Wurzinger, B., Baebler, Š., Petek, M., Križnik, M., van Dieren, A., Gruber, J., Afjehi-Sadat, L., Weckwerth, W., Županič, A., Teige, M., Vothknecht, U. C. & Gruden, K., 10 Jun 2024, In: Plant Communications. 5, 6, 100920.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Sulforaphane impedes mitochondrial reprogramming and histone acetylation in polarizing M1 (LPS) macrophages
Bahiraii, S., Brenner, M., Weckwerth, W. & Heiss, E. H., Mar 2024, In: Free Radical Biology and Medicine. 213, p. 443-456 14 p.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Targeting PHGDH reverses the immunosuppressive phenotype of tumor-associated macrophages through α-ketoglutarate and mTORC1 signaling
Cai, Z., Li, W., Hager, S., Wilson, J. L., Afjehi-Sadat, L., Heiss, E. H., Weichhart, T., Heffeter, P. & Weckwerth, W., May 2024, In: Cellular and Molecular Immunology. 21, 5, p. 448-465 18 p.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Visualizing Horizontal Gene Transfer Detection in Phylogenetically Divergent Bacteria
Schwarzerova, J., Rajasekaran, L., Jureckova, K., Nejezchlebova, J., Varga, M., Provaznik, V., Weckwerth, W. & Cejkova, D., 28 Aug 2024, Bioinformatics and Biomedical Engineering - 11th International Conference, IWBBIO 2024, Proceedings. Rojas, I., Ortuño, F., Rojas, F., Herrera, L. J. & Valenzuela, O. (eds.). Springer Science and Business Media Deutschland GmbH, p. 267-277 11 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), Vol. 14849 LNBI).Publications: Contribution to book › Contribution to proceedings › Peer Reviewed
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Where to after COVID-19? Systems thinking for a human-centred approach to pandemics
Mormina, M., Müller, B., Caniglia, G., Engebretsen, E., Löffler-Stastka, H., Marcum, J., Mercuri, M., Paul, E., Pfaff, H., Russo, F., Sturmberg, J., Tretter, F. & Weckwerth, W., Dec 2024, In: Humanities and Social Sciences Communications. 11, 1, 733.Publications: Contribution to journal › Annotation › Peer Reviewed
Open Access -
2023
CAM evolution is associated with gene family expansion in an explosive bromeliad radiation
Groot Crego, C., Hess, J., Yardeni, G., de La Harpe, M., Priemer, C., Beclin, F., Saadain, S., Cauz dos Santos, L. A., Temsch, E., Weiss-Schneeweiss, H., Barfuss, M. H. J., Till, W., Weckwerth, W., Heyduk, K., Lexer, C., Paun, O. & Leroy, T., 2023, (E-pub ahead of print) In: bioRxiv : the preprint server for biology.Publications: Contribution to journal › Article
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Candidate pathogenicity factor/effector proteins of 'Candidatus Phytoplasma solani' modulate plant carbohydrate metabolism, accelerate the ascorbate-glutathione cycle, and induce autophagosomes.
Dermastia, M., Tomaž, Š., Strah, R., Lukan, T., Coll, A., Dušak, B., Anžič, B., Čepin, T., Wienkoop, S., Kladnik, A., Zagorščak, M., Riedle-Bauer, M., Schönhuber, C., Weckwerth, W., Gruden, K., Roitsch, T., Pompe Novak, M. & Brader, G., 18 Aug 2023, In: Frontiers in Plant Science. 14, p. 1232367 1232367.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
COVRECON: automated integration of genome- and metabolome-scale network reconstruction and data-driven inverse modeling of metabolic interaction networks
Li, J., Waldherr, S. & Weckwerth, W., 4 Jul 2023, In: Bioinformatics. 39, 7, btad397.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Deciphering the biological processes in root hairs required for N-self-fertilizing cereals
Pree, S., Malekian, B., Sandén, H., Nicolaisen, M., Weckwerth, W., Vestergard, M. & Retzer, K., 21 Dec 2023, In: Frontiers in Plant Physiology. 1Publications: Contribution to journal › Review › Peer Reviewed
Open Access -
Editorial: Sorghum and pearl millet as climate resilient crops for food and nutrition security, volume II
Chaturvedi, P., Govindaraj, M., Sehgal, D. & Weckwerth, W., 8 Mar 2023, In: Frontiers in Plant Science. 14, 1170103.Publications: Contribution to journal › Editorial › Peer Reviewed
Open Access -
Ferroptosis is the key cellular process mediating Bisphenol A responses in Chlamydomonas and a promising target for enhancing microalgae-based bioremediation
Carbó, M., Chaturvedi, P., Álvarez, A., Pineda-Cevallos, D., Ghatak, A., González, P. R., Cañal, M. J., Weckwerth, W. & Valledor, L., 15 Apr 2023, In: Journal of Hazardous Materials. 448, 130997.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Fourier transform infrared (FTIR) spectroscopy approach combined with discriminant analysis and prediction model for crude palm oil authentication of different geographical and temporal origins
Rozali, N. L., Azizan, K. A., Singh, R., Syed Jaafar, S. N., Othman, A., Weckwerth, W. & Ramli, U. S., Apr 2023, In: Food Control. 146, 109509.Publications: Contribution to journal › Article › Peer Reviewed
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Heat-induced proteomic changes in anthers of contrasting rice genotypes under variable stress regimes
Kumar, R., Ghatak, A., Goyal, I., Sarkar, N. K., Weckwerth, W., Grover, A. & Chaturvedi, P., 13 Jan 2023, In: Frontiers in Plant Science. 13, 1083971.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Insights in Metabolomics: 2021
Weckwerth, W., Oct 2023, In: Frontiers in Molecular Biosciences.Publications: Contribution to journal › Editorial › Peer Reviewed
Open Access -
Isomer analysis by mass spectrometry in clinical science
Furuhashi, T. & Weckwerth, W., Feb 2023, In: TrAC - Trends in Analytical Chemistry. 159, 116907.Publications: Contribution to journal › Review › Peer Reviewed
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Leaf metabolic traits reveal hidden dimensions of plant form and function
Walker, T. W. N., Schrodt, F., Allard, P. M., Defossez, E., Jassey, V. E. J., Schuman, M. C., Alexander, J. M., Baines, O., Baldy, V., Bardgett, R. D., Capdevila, P., Coley, P. D., van Dam, N. M., David, B., Descombes, P., Endara, M. J., Fernandez, C., Forrister, D., Gargallo-Garriga, A., Glauser, G., & 11 others, 2023, In: Science Advances. 9, 35, eadi4029.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Metabolic support by macrophages sustains colonic epithelial homeostasis
Fritsch, S. D., Sukhbaatar, N., Gonzales, K., Sahu, A., Tran, L., Vogel, A., Mazic, M., Wilson, J. L., Forisch, S., Mayr, H., Oberle, R., Weiszmann, J., Brenner, M., Vanhoutte, R., Hofmann, M., Pirnes-Karhu, S., Magnes, C., Kühnast, T., Weckwerth, W., Bock, C., & 8 others, 7 Nov 2023, In: Cell Metabolism. 35, 11, p. 1931-1943.e8Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Metabolome plasticity in 241 Arabidopsis thaliana accessions reveals evolutionary cold adaptation processes
Weiszmann, J., Walther, D., Clauw, P., Back, G., Gunis, J., Reichardt, I., Koemeda, S., Jez, J., Nordborg, M., Schwarzerova, J., Pierides, I., Nägele, T. & Weckwerth, W., Oct 2023, In: Plant Physiology. 193, 2, p. 980-1000 21 p.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Norbergenin prevents LPS-induced inflammatory responses in macrophages through inhibiting NFκB, MAPK and STAT3 activation and blocking metabolic reprogramming
Li, W., Cai, Z., Schindler, F., Bahiraii, S., Brenner, M., Heiss, E. H. & Weckwerth, W., 2023, In: Frontiers in Immunology. 14, 1117638.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
PANOMICS at the interface of root-soil microbiome and BNI
Ghatak, A., Chaturvedi, P., Waldherr, S., Subbarao, G. V. & Weckwerth, W., 1 Jan 2023, In: Trends in Plant Science. 28, 1, p. 106-122 17 p.Publications: Contribution to journal › Review › Peer Reviewed
Open Access -
Perspectives of (/memorandum for) systems thinking on COVID-19 pandemic and pathology
Tretter, F., Peters, E. M. J., Sturmberg, J., Bennett, J., Voit, E., Dietrich, J. W., Smith, G., Weckwerth, W., Grossman, Z., Wolkenhauer, O. & Marcum, J. A., Apr 2023, In: Journal of Evaluation in Clinical Practice. 29, 3, p. 415-429 15 p.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Phyllosphere symbiont promotes plant growth through ACC deaminase production
Herpell, J. B., Alickovic, A., Diallo, B., Schindler, F. & Weckwerth, W., 1 Aug 2023, In: ISME Journal. 17, 8, p. 1267-1277 11 p.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Proteomics for abiotic stresses in legumes: present status and future directions
Jan, N., Rather, A. M-U-D., John, R., Chaturvedi, P., Ghatak, A., Weckwerth, W., Zargar, S. M., Mir, R. A., Khan, M. A. & Mir, R. R., 2023, In: Critical Reviews in Biotechnology. 43, 2, p. 171-190 20 p.Publications: Contribution to journal › Review › Peer Reviewed
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Quantifying the impact of dynamic plant-environment interactions on metabolic regulation
Kitashova, A., Brodsky, V., Chaturvedi, P., Pierides, I., Ghatak, A., Weckwerth, W. & Nägele, T., Nov 2023, In: Journal of Plant Physiology. 290, 154116.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Recent insights into metabolic and signalling events of directional root growth regulation and its implications for sustainable crop production systems
Retzer, K. & Weckwerth, W., 16 Mar 2023, In: Frontiers in Plant Science. 14, 1154088.Publications: Contribution to journal › Review › Peer Reviewed
Open Access -
Recurrent allopolyploidizations diversify ecophysiological traits in marsh orchids (Dactylorhiza majalis s.l.)
Wolfe, T. M., Balao, F., Trucchi, E., Bachmann, G., Gu, W., Baar, J., Hedrén, M., Weckwerth, W., Leitch, A. R. & Paun, O., Sept 2023, In: Molecular Ecology. 32, 17, p. 4777-4790 14 p.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
Systematic Comparison of Advanced Network Analysis and Visualization of Lipidomics Data
Schwarzerová, J., Olešová, D., Kvasnička, A., Friedecký, D., Varga, M., Provazník, V. & Weckwerth, W., 23 Jun 2023, Bioinformatics and Biomedical Engineering - 10th International Work-Conference, IWBBIO 2023, Proceedings. Rojas, I., Valenzuela, O., Rojas Ruiz, F., Herrera, L. J. & Ortuño, F. (eds.). Springer Science and Business Media Deutschland GmbH, p. 378-389 12 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), Vol. 13919 LNBI).Publications: Contribution to book › Contribution to proceedings › Peer Reviewed
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Utilizing Genetic Programming to Enhance Polygenic Risk Score Calculation
Hurta, M., Schwarzerová, J., Nägele, T., Weckwerth, W., Provaznik, V. & Sekanina, L., 2023, 2023 IEEE International Conference on Bioinformatics and Biomedicine (BIBM). IEEE, p. 3782-3787 6 p. (IEEE International Conference on Bioinformatics and Biomedicine).Publications: Contribution to book › Contribution to proceedings › Peer Reviewed
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2022
(±)-Catechin—A Mass-Spectrometry-Based Exploration Coordination Complex Formation with FeII and FeIII
Kubicova, L., Bachmann, G., Weckwerth, W. & Chobot, V., 11 Mar 2022, In: Cells. 11, 6, 16 p., 958.Publications: Contribution to journal › Article › Peer Reviewed
Open Access -
A Potential Citrate Shunt in Erythrocytes of PKAN Patients Caused by Mutations in Pantothenate Kinase 2
Werning, M., Brenner, M., Dobretzberger, V., Müllner, E., Mlynek, G., Djinovic-Carugo, K., Baron, D. M., Fragner, L., Bischoff, A., Büchner, B., Klopstock, T., Weckwerth, W. & Salzer, U., 18 Feb 2022, In: Biomolecules. 12, 2, 325.Publications: Contribution to journal › Article › Peer Reviewed
Open Access