Št. zadetkov: 17
Raziskovalni podatki
Oznake:
biological data analysis;graph theoretical algorithms;thresholding algorithms;gene co-expression;
Assortment of correlation graphs for testing graph thresholding algorithms.
Leto:
2024
Vir:
Nacionalni inštitut za biologijo (NIB)
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)
Magistrsko delo
Oznake:
methods for inference of gene regulatory networks;simulated test networks;transcription factors;target genes;gene expression;
The main goal of our work was to systematically evaluate and compare different methods for gene regulatory network (GRN) inference. GRN inference is a challenging task due to the high dimensionality of gene expression data and the complex regulatory interactions between transcription factors (TFs) a ...
Leto:
2026
Vir:
Fakulteta za elektrotehniko (UL FE)
Magistrsko delo
Oznake:
graph neural networks;link prediction;molecular interaction networks;Arabidopsis thaliana;batch effect correction;variational autoencoder;scArches;explainable artificial intelligence;CKN;
Plant molecular biology leans on curated interaction networks such as the Comprehensive Knowledge Network (CKN) of Arabidopsis thaliana, yet it is rarely tested whether building such a network into a learning system helps at all, and if so, where. This thesis integrates CKN with public expression da ...
Leto:
2026
Vir:
Fakulteta za računalništvo in informatiko (UL FRI)
Programska oprema
Oznake:
feature selection;network analysis;omics;omics data integration;phenotyping;proteomics data analysis;statistical analysis;
Integration of multi-omics data and deep phenotyping provides insights into responses to single and combined abiotic stress in potato
Leto:
2025
Vir:
Nacionalni inštitut za biologijo (NIB)
Video in druga učna gradiva
Oznake:
podatki;ravnanje s podatki;ravnanje z raziskovalnimi podatki;raziskovalni podatki;odprta znanost;programska orodja;Python;R;
Predstavitev programskih orodij Python in R
Leto:
2024
Vir:
Nacionalni inštitut za biologijo (NIB)
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)
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:
Digitalni repozitorij raziskovalnih organizacij Slovenije
Izvirni znanstveni članek
Oznake:
sistemska biologija;metabolno modeliranje;obramba rastlin;sekundarni metabolizem;systems biology;constraint-based metabolic modeling;growth-defence trade-offs;secondary metabolism;
Understanding the molecular mechanisms behind plant response to stress can enhancebreeding strategies and help us design crop varieties with improved stress tolerance,yield, and quality. To investigate resource redistribution from growth- to defense-relatedprocesses in an essential tuber crop, potat ...
Leto:
2025
Vir:
Nacionalni inštitut za biologijo (NIB)
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)