Št. zadetkov: 13
Magistrsko delo
Oznake:
transcription start site;polymerase;bioinformatics;transformer;computer science;master's thesis;
Transcription start site (TSS) prediction is a classification problem at the intersection of machine learning and laboratory gene expression measurement methods. The site is significant as it represents the location where the first nucleotide is transcribed by RNA polymerase and can help characteriz ...
Leto:
2023
Vir:
Fakulteta za računalništvo in informatiko (UL FRI)
Magistrsko delo
Oznake:
bioinformatics;convolutional neural network;DNA;DNABERT;gene expression;machine learning;sequence motifs;mRNA;predictive models;regulatory mechanisms;tissue-specific gene expression;tissue-specificity;computer science;master's thesis;
Predicting tissue-specific gene expression is a crucial task in understanding the complex regulatory mechanisms governing gene expression. In this research, we employed three distinct models, two convolutional neural networks (CNNs) and DNABERT, to explore predictive models for tissue-specific gene ...
Leto:
2023
Vir:
Fakulteta za računalništvo in informatiko (UL FRI)
Kratki znanstveni prispevek
Oznake:
napovedovanje izrazanja genov;bioinformatika;globoko ucenje;regulatorna genomika;gene expression prediction;bioinformatics;deep learning;regulatory genomics;
Advanced machine learning (ML) algorithms produce highly accurate models of gene expression, uncovering novel regulatory features in nucleotide sequences involving multiple cis-regulatory regions across whole genes and structural properties. These broaden our understanding of gene regulation and poi ...
Leto:
2022
Vir:
Nacionalni inštitut za biologijo (NIB)
Izvirni znanstveni članek
Oznake:
bioinformatika;okoljska mikrobiologija;mikrobna ekologija;onesnaženje s plastiko;
Biodegradation is a plausible route toward sustainable management of the millions of tons of plastic waste that have accumulated in terrestrial and marine environments. However, the global diversity of plastic-degrading enzymes remains poorly understood. Taking advantage of global environmental DNA ...
Leto:
2021
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;
Leto:
2024
Vir:
Nacionalni inštitut za biologijo (NIB)
Pregledni znanstveni članek
Oznake:
lignocelulozna hidroliza;kvasovke;podatkovno rudarjenje;bioinformatika;
The use of renewable plant biomass, lignocellulose, to produce biofuels and biochemicals using microbial cell factories plays a fundamental role in the future bioeconomy. The development of cell factories capable of efficiently fermenting complex biomass streams will improve the cost-effectiveness o ...
Leto:
2022
Vir:
Nacionalni inštitut za biologijo (NIB)
Izvirni znanstveni članek
Oznake:
bioinformatika;optimalna temperatura rasti;termostabilnost proteinov;globoko ucenje;bioinformatics;deep neural networks;enzyme catalytic temperatures;optimal growth temperatures;protein thermostability;transfer learning;
Temperature is a fundamental environmental factor that shapes the evolution of organisms. Learning thermal determinants of protein sequences in evolution thus has profound significance for basic biology, drug discovery, and protein engineering. Here, we use a data set of over 3 million BRENDA enzyme ...
Leto:
2022
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)
Izvirni znanstveni članek
Oznake:
molekularna biologija;biotehnologija;bioinformatika;globoko učenje;izražanje genov;sintetična biologija;obilje beljakovin;aminokislinsko zaporedje;evolucijska selekcija;molecular biology;biotechnology;bioinformatics;deep learning;gene expression;synthetic biology;protein abundance;amino acid sequence;evolutionary selection;transformer model;MGEM (Mutation guided by an embedded manifold);
Understanding what drives protein abundance is essential to biology, medicine, and biotechnology. Driven by evolutionary selection, an amino acid sequence is tailored to meet the required abundance of a proteome, underscoring the intricate relationship between sequence and functional demand. Yet, th ...
Leto:
2025
Vir:
Nacionalni inštitut za biologijo (NIB)
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)