"False"
Skip to content
printicon
Main menu hidden.

Research news

En flock elefanter som går över ett grönskande fält.
One single rule helps explain life on Earth

The discovery will help to understand why species are spread the way they are across the planet.

Sköterska sitter bredvid en säng där en äldre kvinna ligger
Doctors struggle with empathy in a high-pressure work environment

Empathy in healthcare is important, but sometimes challenging to put into practice.

Umeå Plant Science Centre, växtforskning Jian-Feng Mao
Long non-coding RNAs, called lncRNAs, are transcribed from DNA as other RNAs but they do not carry instructions for proteins. Instead, they help controlling genes, guide plant development and are involved in plant responses to stress like drought or heat. Identifying these lncRNAs has been difficult because their genetic sequences vary a lot between different plant species. The team around Jian-Feng Mao tackled the problem using machine learning, a type of artificial intelligence that is trained on large amounts of data to find patterns. They analysed over 1,600 different features of lncRNAs and identified just three key features that could effectively distinguish lncRNAs from RNAs containing the code for a protein. Identification of sequence patterns using mathematical parameters What makes PlantLncBoost particularly innovative is its use of mathematical parameters to capture intrinsic sequence properties beyond traditional biological features. The research team used so called Fourier transformation-based approaches. That allowed them to detect patterns in the RNA sequences that are consistent across diverse plant species despite of the high variability in the genetic sequences. “Through systematic evaluation of multiple machine learning algorithms and rigorous parameter optimization, we have developed a tool that achieves both high accuracy and strong generalization capabilities,” explains Jian-Feng Mao, Associate professor at Umeå University who established his lab at the Umeå Plant Science Centre in 2023. To make sure their new tool worked, the team tested PlantLncBoost on datasets from 20 different plant species. It correctly identified lncRNAs with over 96% accuracy, significantly outperforming existing tools. The tool even recognised nearly all 358 long lncRNAs that had been experimentally validated before, including those from twelve species that were not included in the training set used to develop the tool. New possibilities to analyse long non-coding RNAs across species “Developing PlantLncBoost was an exciting opportunity to apply machine learning to solve a complex biological problem,” says first author Xue-Chan Tian, who completed this work as part of her PhD thesis at Beijing Forestry University. “My doctoral programme focused on combining advanced computational methods with plant genomics to extract meaningful biological insights from complex sequence data.” The project brought together experts in genomics, bioinformatics and computer science from around the world, including researchers from Sweden, China and Brazil. The tool is now freely available to the scientific community and has been integrated in a larger analysis workflow that was developed earlier by Jian-Feng Mao’s group. It allows not only to identify but also to characterise lncRNAs in plants. By implementing PlantLncBoost in this workflow, researchers can now identify long non-coding RNAs from different plant species much more accurate, making it easier to compare and analyse them.

Better identification of plant-specific long non-coding RNAs allows comparisons across species.

Wolf
Large Carnivores and People: Finding Balance in a Changing Landscape

Renewed challenges for rural communities who must navigate the realities of coexistence with these predators.

Changchun Chen vid mikroskop
Prestigious award to Umeå molecular biologist

The Royal Swedish Academy of Sciences awards the Florman Prize to Changchun Chen.

Björn Schröder
Fernström's prize to Schröder

Eric K Fernström Prize for Young promising researchers is awarded to Associate Professor Björn Schröder

Recent feature articles

Kylie Owen står i mörkblå vinterjacka och ljusblå mössa och ler mot kameran. I bakgrunden syns en spegelblank sjö, snö och ett berg.
Collaborating across borders to make polar science matter

From the Umeå University campus, Kylie Owen coordinates European polar research.

Händer som skriver på ett papper vid sin dator
The writing that gets done together

WAG, the library's writing group for researchers, is an opportunity for planning, reflection and writing.

En kvinna som står i en lagerlokal med många hyllor.
Research in sustainability put to use at global company

Helena landed a job right after her PhD – now she’s driving sustainability efforts in the industry.

Mats G LarsonProfessor vid Institutionen för matematik och matematisk statistik
Mathematics that can change the world

Mats G Larson’s research is shaping the future of cars, cities and robots through models and simulations.

Porträtt på Auvikki de Boon, Forskare vid Statsvetenskapliga institutionen, Umeå universitet.
A day at work - EU research-project CoCo

We give you an insight in what goes on at the department of Political Science

A covered book
The importance of libraries

Artist Shubigi Rao emphasises the importance of libraries in many of her works.