{"id":30,"date":"2016-04-05T22:13:00","date_gmt":"2016-04-05T22:13:00","guid":{"rendered":"http:\/\/projects.nib.si\/sysreg\/?page_id=30"},"modified":"2026-03-26T17:22:41","modified_gmt":"2026-03-26T16:22:41","slug":"results","status":"publish","type":"page","link":"https:\/\/projects.nib.si\/sysreg\/results\/","title":{"rendered":"Results and publications"},"content":{"rendered":"

Preprints:<\/strong><\/em><\/span><\/p>\n

\n

Potato yield can be predicted by using drone-captured and environmental measurements early in the growing season<\/strong>
\nVi\u017eintin, Angelika ;\u00a0<\/a>Zagor\u0161\u010dak, Maja ;\u00a0<\/a>Turk, Eva ;\u00a0<\/a>Kri\u017enik, Maja ;\u00a0<\/a>Petek, Marko ;\u00a0<\/a>Stare, Katja ;\u00a0<\/a>Zrimec, Jan ;\u00a0<\/a>Gruden, Kristina<\/a>
\nTip dela: 1.25 drugi sestavni deli
\nLeto: 2026
\nVir: bioRxiv [Elektronski vir] : \u01c2the \u01c2preprint server for biology. – ISSN 2692-8205. – Str. 1-49
\nCOBISS.si-ID\u00a0272513795<\/a><\/p>\n

<\/div>\n<\/div>\n

Publications:<\/strong><\/em><\/span><\/p>\n

\n
\n
\n
Evaluating plant growth\u2013defense trade-offs by modelingthe interaction between primary and secondary metabolism<\/strong><\/div>\n
Zrimec, Jan ;\u00a0<\/a>Correo, Sandra ;\u00a0Zagor\u0161\u010dak, Maja ;\u00a0<\/a>Petek, Marko ;\u00a0<\/a>Bleker, Carissa ;\u00a0<\/a>Stare, Katja ;\u00a0<\/a>Schuy, Christian ; Sonnewald, Sophia ;\u00a0Gruden, Kristina ;\u00a0<\/a>Nikoloski, Zoran<\/div>\n
Type of work: 1.01 original scientific article<\/div>\n
Year: 2025<\/div>\n
Source: Proceedings of the National Academy of Sciences of the United States of America [Elektronski vir]. – ISSN 1091-6490. – \u01c2Vol. \u01c2122, \u01c2no. \u01c232, [article no.] e2502160122, str. 1-11<\/div>\n
COBISS.si-ID\u00a0246042883<\/a><\/p>\n<\/div>\n<\/div>\n<\/div>\n<\/div>\n
\n
\n

Integration of multi-omics data and deep phenotyping provides insights into responses to single and combined abiotic stress in potato<\/strong>
\nZagor\u0161\u010dak Maja ; <\/a>Abdelhakim, Lamis ; Rodriguez-Granados, Natalia Yaneth ;\u00a0Bleker, Carissa ;\u00a0<\/a>Blejec, Andrej ;\u00a0<\/a>Zrimec, Jan ;\u00a0<\/a>Baebler, \u0160pela ;\u00a0<\/a>\u017dupani\u010d, An\u017ee ;\u00a0<\/a>Pompe Novak, Maru\u0161a ;\u00a0<\/a>Gruden, Kristina<\/a>
\nType of work: 1.01 original scientific article
\nYear: 2025
\nSource: Plant physiology. – ISSN 1532-2548. – \u01c2Vol. \u01c2197, \u01c2iss. \u01c24, [article no.] kiaf126, str. 1-42
\nCOBISS.si-ID\u00a0231332611<\/a><\/p>\n<\/div>\n<\/div>\n

\n
Evidence-based unification of potato gene models with the UniTato collaborative genome browser<\/strong><\/div>\n
Zagor\u0161\u010dak, Maja ;\u00a0<\/a>Zrimec, Jan ;\u00a0<\/a>Bleker, Carissa ;\u00a0<\/a>Nolte, Nadja Franziska ;\u00a0<\/a>Juter\u0161ek, Mojca ;\u00a0<\/a>Ram\u0161ak, \u017diva ;\u00a0<\/a>Gruden, Kristina ;\u00a0<\/a>Petek, Marko<\/a><\/div>\n
Type of work: 1.01 original scientific article<\/div>\n
Year: 2024<\/div>\n
Source: Frontiers in plant science [Elektronski vir]. – ISSN 1664-462X. – \u01c2Vol. \u01c215, \u01c2[art. no.] \u01c21352253, str. 1-10<\/div>\n
COBISS.si-ID\u00a0198532867<\/a><\/div>\n

 <\/p>\n<\/div>\n

\n
A mini-TGA protein modulates gene expression through heterogeneous association with transcription factors<\/strong><\/div>\n
Toma\u017e, \u0160pela ;\u00a0<\/a>Petek, Marko ;\u00a0<\/a>Lukan, Tja\u0161a ;\u00a0<\/a>Poga\u010dar, Karmen ;\u00a0<\/a>Stare, Katja ;\u00a0<\/a>Teixeira Prates, Erica ; Jacobson, Daniel A. ;\u00a0Zrimec, Jan ;\u00a0<\/a>Bajc, Gregor ;\u00a0<\/a>Butala, Matej ;\u00a0<\/a>Pompe Novak, Maru\u0161a ;\u00a0<\/a>Taler-Ver\u010di\u010d, Ajda ;\u00a0<\/a>Usenik, Aleksandra ;\u00a0<\/a>Turk, Du\u0161an ;\u00a0<\/a>Coll Rius, Anna ;\u00a0<\/a>Gruden, Kristina<\/a><\/div>\n
Type of work: 1.01 original scientific article<\/div>\n
Year: 2022<\/div>\n
Source: Plant physiology. – ISSN 0032-0889. – \u01c2Vol. \u01c2191, \u01c2iss. \u01c23, str. 1934\u20131952<\/div>\n
COBISS.si-ID\u00a0135092739<\/a><\/div>\n

 <\/p>\n<\/div>\n

Controlling gene expression with deep generative design of regulatory DNA<\/strong><\/div>\n
\n
\n
\n
Zrimec, Jan ;<\/a>\u00a0Fu, Xiaozhi ; Sheikh Muhammad, Azam ; Skrekas, Christos ; Jauniskis, Vykintas ; Speicher, Nora K. ; B\u00f6rlin, Christoph S. ; Verendel, Vilhelm ; Chehreghani, Morteza Haghir ; Dubhashi, Devdatt P. ; Siewers, Verena ; Fitz, Florian David ; Nielsen, Jens ; Zelezniak, Aleksej<\/div>\n
Type of work: 1.01 original scientific article<\/div>\n
Year: 2022<\/div>\n
Source: Nature communications [Elektronski vir]. – ISSN 2041-1723. – Vol. 13, str. 1-17<\/div>\n
COBISS.SI-ID\u00a0120155139<\/a><\/div>\n


\nToward learning the principles of plant gene regulation<\/strong>
\nZrimec, Jan ;<\/a>\u00a0Zelezniak, Aleksej ;\u00a0Gruden, Kristina<\/a>
\nType of work: 1.03 short scientific article
\nYear: 2022
\nSource: Trends in Plant Science. – ISSN 1360-1385. – Vol. 27, iss. 12, str. 1206-1208
\nCOBISS.SI-ID 123482371<\/a><\/p>\n<\/div>\n<\/div>\n<\/div>\n

\n
Learning deep representations of enzyme thermal adaptation<\/strong><\/div>\n<\/div>\n
\n
Li, Gang ; Buric, Filip ;\u00a0Zrimec, Jan ;<\/a>\u00a0Viknander, Sandra ; Nielsen, Jens ; Zelezniak, Aleksej ; Engqvist, Martin K. M.<\/div>\n
Type of work: 1.01 original scientific article<\/div>\n
Year: 2022<\/div>\n
Source: Protein science [Elektronski vir]. – ISSN 1469-896X. – Vol. 31, iss. 12, 1-14 str.<\/div>\n
COBISS.SI-ID\u00a0130304771<\/a><\/div>\n<\/div>\n


\nConference presentations:<\/span><\/strong><\/em><\/p>\n

\n
Decoding potato responses to climate stress through integrative omics<\/strong> [Elektronski vir]<\/div>\n
Godec, Tim ;\u00a0<\/a>Petek, Marko ;\u00a0<\/a>Bleker, Carissa ;\u00a0<\/a>Kri\u017enik, Maja ;\u00a0<\/a>Zagor\u0161\u010dak, Maja ;\u00a0<\/a>Zrimec, Jan ;\u00a0<\/a>Panzarova, Klara ; Abdelhakim, Lamis ;\u00a0\u017dupani\u010d, An\u017ee ;\u00a0<\/a>Gruden, Kristina<\/a><\/div>\n
Tip dela: 1.12 objavljeni povzetek znanstvenega prispevka na konferenci<\/div>\n
Leto: 2025<\/div>\n
Vir: SolanaceaeRubiaceae conference 2025 [Elektronski vir] : abstract book – Str. 88<\/div>\n
COBISS.si-ID\u00a0253981955<\/a><\/div>\n

 <\/p>\n<\/div>\n

\n
Modelling yield of diverse potato varieties from multi-season field trial data<\/strong> [Elektronski vir]<\/div>\n
Vi\u017eintin, Angelika ;\u00a0<\/a>Turk, Eva ;\u00a0<\/a>Zagor\u0161\u010dak, Maja ;\u00a0<\/a>Ribarits, Alexandra ; Doevendans, Bianca ; Heselmans, Guus ; Imerovski, Ivana ; Bakker, Jeroen ; Lindenbergh, Pieter-Jelte ;\u00a0Zrimec, Jan ;\u00a0<\/a>Gruden, Kristina<\/a><\/div>\n
Tip dela: 1.12 objavljeni povzetek znanstvenega prispevka na konferenci<\/div>\n
Leto: 2025<\/div>\n
\n
Vir: International conference AI for science 2025 [Elektronski vir] : Ljubljana, Slovenia, 22.09.2025-26.09.2025; including DS-2025, the SMASHing conference (4 tracks) and 4 additional tracks – Str. 52-53<\/div>\n
COBISS.si-ID\u00a0257610755<\/a><\/div>\n

 <\/p>\n<\/div>\n<\/div>\n

\n
Priming deep neural networks with knowledge graphs improves the explainability of condition-specific gene sets in Arabidopsis [Elektronski vir]<\/strong><\/div>\n
Kert, Ale\u0161 ;\u00a0Modic, Vid ;\u00a0<\/a>Curk, Toma\u017e ;\u00a0<\/a>Bleker, Carissa ;\u00a0<\/a>Zrimec, Jan<\/a><\/div>\n
Tip dela: 1.12 objavljeni povzetek znanstvenega prispevka na konferenci<\/div>\n
Leto: 2025<\/div>\n
Vir: International conference AI for science 2025 [Elektronski vir] : Ljubljana, Slovenia, 22.09.2025-26.09.2025; including DS-2025, the SMASHing conference (4 tracks) and 4 additional tracks – Str. 42<\/div>\n
COBISS.si-ID\u00a0252718339<\/a><\/div>\n

 <\/p>\n<\/div>\n

\n
Modelling potato primary and secondary metabolism captures the principles of plant growth and defence under biotic stress<\/strong> [Elektronski vir]<\/div>\n
Zrimec, Jan ;\u00a0<\/a>Correo, Sandra ;\u00a0Zagor\u0161\u010dak, Maja ;\u00a0<\/a>Bleker, Carissa ;\u00a0<\/a>Petek, Marko ;\u00a0<\/a>Stare, Katja ;\u00a0<\/a>Gruden, Kristina ;\u00a0<\/a>Nikoloski, Zoran<\/div>\n
Tip dela: 1.12 objavljeni povzetek znanstvenega prispevka na konferenci<\/div>\n
Leto: 2024<\/div>\n
Vir: Plant modeling: opportunities and challenges [Elektronski vir] : IJPB Symposium 2024; Versailles, France, 13-15 May 2024; abstract book – Str. [37]<\/div>\n
COBISS.si-ID\u00a0196557315<\/a><\/div>\n

 <\/p>\n<\/div>\n

\n
Modelling potato primary and secondary metabolism captures the principles of plant growth and defence under biotic stress<\/strong> [Elektronski vir]<\/div>\n
Zrimec, Jan ;\u00a0<\/a>Correo, Sandra ;\u00a0Zagor\u0161\u010dak, Maja ;\u00a0<\/a>Bleker, Carissa ;\u00a0<\/a>Petek, Marko ;\u00a0<\/a>Stare, Katja ;\u00a0<\/a>Gruden, Kristina ;\u00a0<\/a>Nikoloski, Zoran<\/div>\n
Tip dela: 1.12 objavljeni povzetek znanstvenega prispevka na konferenci<\/div>\n
Leto: 2024<\/div>\n
Vir: miCROPe, Microbe-assisted crop production 2024 [Elektronski vir] : opportunities, challenges & needs; July, 15 \u2013 18, 2024, Schloss Sch\u00f6nbrunn, Orangerie, Vienna, Austria – Str. 187<\/div>\n
COBISS.si-ID\u00a0226101763<\/a><\/div>\n

 <\/p>\n<\/div>\n

\n
D\u00e9sir\u00e9e in distress – a system biology approach: from statistics to networks<\/strong><\/div>\n
Zagor\u0161\u010dak, Maja ;\u00a0<\/a>Blejec, Andrej ;\u00a0<\/a>Bleker, Carissa ;\u00a0<\/a>Baebler, \u0160pela ;\u00a0<\/a>Zrimec, Jan ;\u00a0<\/a>\u017dupani\u010d, An\u017ee ;\u00a0<\/a>Gruden, Kristina<\/a><\/div>\n
Tip dela: 1.12 objavljeni povzetek znanstvenega prispevka na konferenci<\/div>\n
Leto: 2023<\/div>\n
Vir: 15th Meeting of the Slovenian Biochemical Society with International Participation = 15. sre\u010danje Slovenskega biokemijskega dru\u0161tva z mednarodno udele\u017ebo [Elektronski vir] : book of abstracts; = zbornik povzetkov; Portoro\u017e, 20-23 September 2023; = [20.\u201323. september 2023, Portoro\u017e, Slovenija] – Str. 44<\/div>\n
COBISS.si-ID\u00a0167157763<\/a><\/div>\n

 <\/p>\n<\/div>\n

\n
MultiOmics data analysis, integration, and visualisation: \u01c2a \u01c2case study in potato stress response<\/strong><\/div>\n
Zagor\u0161\u010dak, Maja ;\u00a0<\/a>Blejec, Andrej ;\u00a0<\/a>Baebler, \u0160pela ;\u00a0<\/a>Bleker, Carissa ;\u00a0<\/a>Zrimec, Jan ;\u00a0<\/a>\u017dupani\u010d, An\u017ee ;\u00a0<\/a>Gruden, Kristina<\/a><\/div>\n
Tip dela: 1.12 objavljeni povzetek znanstvenega prispevka na konferenci<\/div>\n
Leto: 2023<\/div>\n
Vir: BIOSTAT 2023 [Elektronski vir] : 26th International scientific symposium on biometrics; book of abstracts, Zadar, 14-17 June 2023 – Str. 23<\/div>\n
COBISS.si-ID\u00a0158803459<\/a><\/div>\n

 <\/p>\n<\/div>\n

\n
Potato vs climate change: integrated multidisciplinary approach to investigate phenotypic and molecular responses to combined stresses<\/strong><\/div>\n
Zagor\u0161\u010dak, Maja ;\u00a0<\/a>Baebler, \u0160pela ;\u00a0<\/a>Blejec, Andrej ;\u00a0<\/a>Bleker, Carissa ;\u00a0<\/a>Kri\u017enik, Maja ;\u00a0<\/a>Petek, Marko ;\u00a0<\/a>Ram\u0161ak, \u017diva ;\u00a0<\/a>Turk, Eva ;\u00a0<\/a>Zrimec, Jan ;\u00a0<\/a>\u017dupani\u010d, An\u017ee ;\u00a0<\/a>Gruden, Kristina<\/a><\/div>\n
Tip dela: 1.12 objavljeni povzetek znanstvenega prispevka na konferenci<\/div>\n
Leto: 2023<\/div>\n
Vir: 18th CFGBC Symposium [Elektronski vir] : book of abstracts; Slovenia, 1st June 2023 – Str. 15-16<\/div>\n
COBISS.si-ID\u00a0158818307<\/a><\/div>\n

 <\/p>\n<\/div>\n

A mult<\/strong>iorgan model of potato primary and secondary metabolism captures the principles of plant growth and defence<\/strong> [Elektronski vir]<\/div>\n
Zrimec, Jan ;<\/a>\u00a0Ram\u0161ak, \u017diva ;<\/a>\u00a0Stare, Katja ;<\/a>\u00a0Gruden, Kristina ;<\/a>\u00a0Nikoloski, Zoran<\/div>\n
Type of work: 1.12 published scientific conference contribution abstract<\/div>\n
Year: 2022<\/div>\n
Source: Solanaceae 2022 [Elektronski vir]. – Str. 176<\/div>\n
COBISS.SI-ID\u00a0130292227<\/a><\/div>\n

 <\/p>\n

Experimental evidence and community-based revision of potato gene models with automated and manual curation<\/strong> [Elektronski vir]<\/div>\n
Zrimec, Jan ;<\/a>\u00a0Zagor\u0161\u010dak, Maja ;<\/a>\u00a0Petek, Marko ;<\/a>\u00a0Ram\u0161ak, \u017diva ;<\/a>\u00a0Gruden, Kristina<\/a><\/div>\n
Type of work: 1.12 published scientific conference contribution abstract<\/div>\n
Year: 2022<\/div>\n
Source: Solanaceae 2022 [Elektronski vir]. – Str. 65<\/div>\n
COBISS.SI-ID\u00a0130285315<\/a><\/div>\n

 <\/p>\n

TGACG-binding (TGA) transcription factors in potato (Solanum tuberosum L.)<\/strong> [Elektronski vir]<\/div>\n
Toma\u017e, \u0160pela ;<\/a>\u00a0Petek, Marko ;<\/a>\u00a0Lukan, Tja\u0161a ;<\/a>\u00a0Poga\u010dar, Karmen ;<\/a>\u00a0Stare, Katja ;<\/a>\u00a0Teixeira Prates, Erica ; Jacobson, Daniel A. ;\u00a0Zrimec, Jan ;<\/a>\u00a0Bajc, Gregor ;<\/a>\u00a0Butala, Matej ;<\/a>\u00a0Pompe Novak, Maru\u0161a ;<\/a>\u00a0Taler-Ver\u010di\u010d, Ajda ;<\/a>\u00a0Usenik, Aleksandra ;<\/a>\u00a0Turk, Du\u0161an ;<\/a>\u00a0Coll Rius, Anna ;<\/a>\u00a0Gruden, Kristina<\/a><\/div>\n
Type of work: 1.12 published scientific conference contribution abstract<\/div>\n
Year: 2022<\/div>\n
Source: Plants in Changing Environment [Elektronski vir] : International Conference of the Slovenian Society of Plant Biology; Biotechnical Faculty, University of Ljubljana, September 15-16, 2022, Ljubljana, Slovenia; [book of abstracts]. – str. 38<\/div>\n
COBISS.SI-ID\u00a0121574915<\/a><\/div>\n

 <\/p>\n

Systems biology for understanding immunity responses in potato<\/strong> [Elektronski vir]<\/div>\n
\n
Gruden, Kristina ;<\/a>\u00a0Bleker, Carissa ;<\/a>\u00a0Ram\u0161ak, \u017diva ;<\/a>\u00a0Zagor\u0161\u010dak, Maja ;<\/a>\u00a0\u017dupani\u010d, An\u017ee<\/a><\/div>\n
Type of work: 1.12 published scientific conference contribution abstract<\/div>\n
Year: 2022<\/div>\n
Source: Models in population dynamics, ecology and evolution. – Str. 88<\/div>\n
COBISS.SI-ID\u00a0116857347<\/a><\/div>\n
<\/div>\n<\/div>\n","protected":false},"excerpt":{"rendered":"

Preprints: Potato yield can be predicted by using drone-captured and environmental measurements early in the growing season Vi\u017eintin, Angelika ;\u00a0Zagor\u0161\u010dak, Maja ;\u00a0Turk, Eva ;\u00a0Kri\u017enik, Maja ;\u00a0Petek, Marko ;\u00a0Stare, Katja ;\u00a0Zrimec, Jan ;\u00a0Gruden, Kristina Tip dela: 1.25 drugi sestavni deli Leto: 2026 Vir: bioRxiv [Elektronski vir] : \u01c2the \u01c2preprint server for biology. – ISSN 2692-8205. – […]<\/p>\n","protected":false},"author":3,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"page-fullwidth.php","meta":{"jetpack_post_was_ever_published":false,"footnotes":""},"class_list":["post-30","page","type-page","status-publish","hentry"],"jetpack_sharing_enabled":true,"jetpack_shortlink":"https:\/\/wp.me\/PaDbb0-u","jetpack-related-posts":[],"_links":{"self":[{"href":"https:\/\/projects.nib.si\/sysreg\/wp-json\/wp\/v2\/pages\/30","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/projects.nib.si\/sysreg\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/projects.nib.si\/sysreg\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/projects.nib.si\/sysreg\/wp-json\/wp\/v2\/users\/3"}],"replies":[{"embeddable":true,"href":"https:\/\/projects.nib.si\/sysreg\/wp-json\/wp\/v2\/comments?post=30"}],"version-history":[{"count":28,"href":"https:\/\/projects.nib.si\/sysreg\/wp-json\/wp\/v2\/pages\/30\/revisions"}],"predecessor-version":[{"id":332,"href":"https:\/\/projects.nib.si\/sysreg\/wp-json\/wp\/v2\/pages\/30\/revisions\/332"}],"wp:attachment":[{"href":"https:\/\/projects.nib.si\/sysreg\/wp-json\/wp\/v2\/media?parent=30"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}