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Št. zadetkov: 9
Integration of gene expression data with causal networks
Mihael Rajh, Tomaž Curk, Carissa Bleker
Magistrsko delo
Oznake: bioinformatics;casual reasoning;gene expression;computer science;master's thesis;
With the increased availability of large gene expression datasets comes an increased need for informed methods of data analysis. One class of recent methods involves the use of causal biological networks, which depict causal relationships between molecular events inside the cell. These networks offe ...
Leto: 2023 Vir: Fakulteta za računalništvo in informatiko (UL FRI)
Predstavitev programskih orodij Python in R
Maja Zagorščak, Carissa Bleker, Jan Zrimec, Marko Petek, Anže Županič
Video in druga učna gradiva
Oznake: podatki;ravnanje s podatki;ravnanje z raziskovalnimi podatki;raziskovalni podatki;odprta znanost;programska orodja;Python;R;
Leto: 2024 Vir: Nacionalni inštitut za biologijo (NIB)
Evidence-based unification of potato gene models with the UniTato collaborative genome browser
Maja Zagorščak, Jan Zrimec, Carissa Bleker, Nadja Francesca Nolte, Mojca Juteršek, Živa Ramšak, Kristina Gruden, Marko Petek
Izvirni znanstveni članek
Oznake: bioinformatska analiza;anotacije genskih modelov;pregledovalnik genoma krompirja;model krompirjevega genoma;bioinformatics analysis;plant genome annotation;gene model annotations;Phureja group;GFF files;poTato genome model;UniTato;
Potato (Solanum tuberosum) is the most popular tuber crop and a model organism. A variety of gene models for potato exist, and despite frequent updates, they are not unified. This hinders the comparison of gene models across versions, limits the ability to reuse experimental data without significant ...
Leto: 2024 Vir: Nacionalni inštitut za biologijo (NIB)
Orodja za delo z delotoki
Marko Vidak, Bojan Kverh, Polonca Ferk, Branimir Leskošek, Maja Zagorščak, Nadja Francesca Nolte, Carissa Bleker, Marko Petek, Anže Županič
Druge monografije in druga zaključena dela
Oznake: odprti podatki;odprta znanost;delo z delotoki;projekt Spoznaj;okolje Galaxy;raziskovalni podatki;uporabljanje podatkov;
Orodja za delo z delotoki
Leto: 2024 Vir: Repozitorij Univerze v Ljubljani (RUL)
Stress knowledge map
Carissa Bleker, Živa Ramšak, Andras Bittner, Vid Podpečan, Maja Zagorščak, Bernhard Wurzinger, Špela Baebler, Marko Petek, Maja Križnik, Anže Županič, Kristina Gruden
Izvirni znanstveni članek
Oznake: SKM;graf znanja;mreža znanja;vstopna točka;digitalni dvojček rastline;odzivi rastlin na stres;signalizacija rastlin;sistemska biologija;Stress knowledge map;knowledge graph;knowledge network;entry point;plant digital twin;plant stress responses;plant signaling;systems biology;
Stress Knowledge Map (SKM; https://skm.nib.si) is a publicly available resource containing two complementary knowledge graphs that describe the current knowledge of biochemical, signaling, and regulatory molecular interactions in plants: a highly curated model of plant stress signaling (PSS; 543 rea ...
Leto: 2024 Vir: Nacionalni inštitut za biologijo (NIB)
Ca2+-dependent H2O2 response in roots and leaves of barley - a transcriptomic investigation
Sabarna Bhattacharyya, Carissa Bleker, Bastian Meier, Maya Giridhar, Elena Ulland Rodriguez, Adrian Maximilian Braun, Edgar Peiter, Ute C. Vothknecht, Fatima Chigri
Izvirni znanstveni članek
Oznake: signaliziranje kalcija;redoks signalizacija;odziv rastlin na stres;rastlinska signalizacija;ROS;stress;RNA-Seq;Ca2+ signaling;crosstalk;Hordeum vulgare;
Background Ca2+ and H2O2 are second messengers that regulate a wide range of cellular events in response to different environmental and developmental cues. In plants, stress-induced H2O2 has been shown to initiate characteristic Ca2+ signatures; however, a clear picture of the molecular connection b ...
Leto: 2025 Vir: Nacionalni inštitut za biologijo (NIB)
Report: Workshop on connecting Knowledge Graphs with BioChatter
Cyril Pommier, Sebastian Beier, Pedro M. Barros, Johann Confais, Nicolas Francillonne, Hugo Rodrigues, Hiromi Kajiya-Kanegae, Ryokei Tanaka, Bruno Costa, Carissa Bleker
Druge monografije in druga zaključena dela
Oznake: grafi znanja;umetna inteligenca;znanost o rastlinah;knowledge graphs;artificial intelligence;plant science;
Leto: 2025 Vir: Nacionalni inštitut za biologijo (NIB)
ELIXIR plant sciences community roadmap 2024-2029
Sebastian Beier, Kristina Gruden, Cyril Pommier, Stéphanie Sidibe-Bocs, Sarah Dyer, Pedro M. Barros, Keywan Hassani-Pak, Bruno Contreras-Moreira, Carissa Bleker
Strokovni članek
Oznake: sistemska biologija;genotipizacija;rastlina;system biology;genotyping;plant;
The ELIXIR Plant Sciences Community is an interdisciplinary group of researchers with diverse backgrounds from computer science to different fields of plant biology. We answer the needs of both bioinformaticians and plant biologists. The Community objective is to develop services supporting the inte ...
Leto: 2025 Vir: Nacionalni inštitut za biologijo (NIB)
Integration of multi-omics data and deep phenotyping provides insights into responses to single and combined abiotic stress in potato
Maja Zagorščak, Lamis Abdelhakim, Natalia Yaneth Rodriguez-Granados, Carissa Bleker, Andrej Blejec, Jan Zrimec, Špela Baebler, Anže Županič, Maruša Pompe Novak, Kristina Gruden
Izvirni znanstveni članek
Oznake: potato;Solanum tuberosum;abiotic stress responses;heat;drought;waterlogging;multi-omics;integrative omics;adaptomics;panomics;
Potato (Solanum tuberosum) is highly water and space efficient but susceptible to abiotic stresses such as heat, drought, and flooding, which are severely exacerbated by climate change. Our understanding of crop acclimation to abiotic stress, however, remains limited. Here, we present a comprehensiv ...
Leto: 2025 Vir: Nacionalni inštitut za biologijo (NIB)
Št. zadetkov: 9
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