Harm Nijveen
@harmn.bsky.social
Bioinformatics, gene expression, software development, QTL causal gene prioritization. Wageningen University.
Reposted by Harm Nijveen
We (Nordborg & Weigel labs) need input on the next generation of genome browsers & data download modes for the #Arabidopsis #1001GenomesPlus project. We have now a curated collection of over 500 long read genomes.
Please help us by filling out this questionnaire: docs.google.com/forms/d/e/1F...
Please help us by filling out this questionnaire: docs.google.com/forms/d/e/1F...
Next generation of 1001 Genomes Plus browser and data download
Please indicate all features you would like to see in a browser that displays features of completely sequenced Arabidopsis thaliana genomes
docs.google.com
November 24, 2025 at 2:49 PM
We (Nordborg & Weigel labs) need input on the next generation of genome browsers & data download modes for the #Arabidopsis #1001GenomesPlus project. We have now a curated collection of over 500 long read genomes.
Please help us by filling out this questionnaire: docs.google.com/forms/d/e/1F...
Please help us by filling out this questionnaire: docs.google.com/forms/d/e/1F...
Reposted by Harm Nijveen
Rational design of induced regeneration via somatic embryogenesis in the absence of exogenous phytohormones (Jana Wittmer, Menno Pijnenburg, Tristan Wijsman, Sieme Pelzer, et al) doi.org/10.1093/plce... #PlantScience @aspbofficial
Rational design of induced regeneration via somatic embryogenesis in the absence of exogenous phytohormones
Stem cell transcription factors synergistically induce regeneration involving somatic embryogenesis and can break recalcitrance in Arabidopsis and pepper w
doi.org
November 24, 2025 at 4:27 PM
Rational design of induced regeneration via somatic embryogenesis in the absence of exogenous phytohormones (Jana Wittmer, Menno Pijnenburg, Tristan Wijsman, Sieme Pelzer, et al) doi.org/10.1093/plce... #PlantScience @aspbofficial
Reposted by Harm Nijveen
New preprint out by #RobertKoetsier, the first of his PhD project, on assessing the use of cross-species coexpression analysis to identify primary and secondary metabolic interactions in microbiomes: www.biorxiv.org/content/10.1...
Using cross-species co-expression to predict metabolic interactions in microbiomes
In microbial ecosystems, metabolic interactions are key determinants of species’ relative abundance and activity. Given the immense number of possible interactions in microbial communities, their expe...
www.biorxiv.org
September 22, 2025 at 7:42 AM
New preprint out by #RobertKoetsier, the first of his PhD project, on assessing the use of cross-species coexpression analysis to identify primary and secondary metabolic interactions in microbiomes: www.biorxiv.org/content/10.1...
Reposted by Harm Nijveen
Elucidating #plant #Biosynthetic pathways: @jjjvanderhooft.bsky.social @marnixmedema.bsky.social &co develop #MEANtools, an unsupervised computational workflow that integrates #MultiOmics data to predict #metabolic pathways by linking transcripts to metabolites @plosbiology.org 🧪 plos.io/4odL94g
July 31, 2025 at 8:49 AM
Elucidating #plant #Biosynthetic pathways: @jjjvanderhooft.bsky.social @marnixmedema.bsky.social &co develop #MEANtools, an unsupervised computational workflow that integrates #MultiOmics data to predict #metabolic pathways by linking transcripts to metabolites @plosbiology.org 🧪 plos.io/4odL94g
Reposted by Harm Nijveen
We are hiring! If you have experience in plant genomics + AI, or promoter engineering + synthetic biology, check out our two open postdoc positions (computational + wetlab): www.vandepoelelab.be/Jobs please re-share RT #ERC
Jobs | Vandepoele Lab
www.vandepoelelab.be
July 16, 2025 at 8:45 PM
We are hiring! If you have experience in plant genomics + AI, or promoter engineering + synthetic biology, check out our two open postdoc positions (computational + wetlab): www.vandepoelelab.be/Jobs please re-share RT #ERC
Reposted by Harm Nijveen
I'm developing a strategic 1-on-1 game called Base Pair™ – based on biologically accurate rules 🧬🎲
Want to play and give feedback? Reply to this tweet (or RT), and I might send you a free handmade beta copy!
(I have a limited nr right now, but more are on the way)
Want to play and give feedback? Reply to this tweet (or RT), and I might send you a free handmade beta copy!
(I have a limited nr right now, but more are on the way)
March 13, 2025 at 4:28 PM
I'm developing a strategic 1-on-1 game called Base Pair™ – based on biologically accurate rules 🧬🎲
Want to play and give feedback? Reply to this tweet (or RT), and I might send you a free handmade beta copy!
(I have a limited nr right now, but more are on the way)
Want to play and give feedback? Reply to this tweet (or RT), and I might send you a free handmade beta copy!
(I have a limited nr right now, but more are on the way)
Reposted by Harm Nijveen
Wageningen University seeks a postdoc for a 2-year project on phage-host-superhost evolution using spatially explicit modeling. PhD required. Apply: https://www.wur.nl/en/vacancy/postdoctoral-researcher-interacting-scales-in-host-pathogen-superhost-coevolution.htm #postdoc
Postdoctoral researcher - Interacting scales in host-pathogen-superhost coevolution
www.wur.nl
May 20, 2025 at 3:15 PM
Wageningen University seeks a postdoc for a 2-year project on phage-host-superhost evolution using spatially explicit modeling. PhD required. Apply: https://www.wur.nl/en/vacancy/postdoctoral-researcher-interacting-scales-in-host-pathogen-superhost-coevolution.htm #postdoc
Reposted by Harm Nijveen
PhD Position in Modelling Regulation of Plant Stress Responses across Species!! 🌱🌽🌾🥬🌡️🌡️
Apply before June 16 to join this exciting project with Kirsten ten Tusscher in the context of CropXR!! www.uu.nl/en/organisat...
Apply before June 16 to join this exciting project with Kirsten ten Tusscher in the context of CropXR!! www.uu.nl/en/organisat...
PhD Position in Modelling Regulation of Plant Stress Responses across Species
Join us to model plant stress responses and help breed climate-resilient crops in a collaborative, interdisciplinary research environment!
www.uu.nl
May 12, 2025 at 6:42 PM
PhD Position in Modelling Regulation of Plant Stress Responses across Species!! 🌱🌽🌾🥬🌡️🌡️
Apply before June 16 to join this exciting project with Kirsten ten Tusscher in the context of CropXR!! www.uu.nl/en/organisat...
Apply before June 16 to join this exciting project with Kirsten ten Tusscher in the context of CropXR!! www.uu.nl/en/organisat...
Reposted by Harm Nijveen
Join our symposium The evolution of microbial pangenomes at @eseb2025.bsky.social with @bjesseshapiro.bsky.social and @annadewar.bsky.social (co-organized with @fbaumdicker.bsky.social and Jaime Iranzo) eseb2025.com/call-for-abs...
April 10, 2025 at 4:10 PM
Join our symposium The evolution of microbial pangenomes at @eseb2025.bsky.social with @bjesseshapiro.bsky.social and @annadewar.bsky.social (co-organized with @fbaumdicker.bsky.social and Jaime Iranzo) eseb2025.com/call-for-abs...
Reposted by Harm Nijveen
Farmers and researchers prime seeds to get an even germination. Now researchers from the Netherlands show in New Phytologist that priming puts the available mRNA in the translation starting blocks.
Read more about this study on my blog plantenzo.net/2025/04/08/s...
🧪 #PlantScience
Read more about this study on my blog plantenzo.net/2025/04/08/s...
🧪 #PlantScience
Seeds in the starting blocks
Farmers and researchers prime seeds to get an even germination. Now researchers from the Netherlands show in New Phytologist that priming puts the available mRNA in the translation starting blocks.
plantenzo.net
April 8, 2025 at 6:31 AM
Farmers and researchers prime seeds to get an even germination. Now researchers from the Netherlands show in New Phytologist that priming puts the available mRNA in the translation starting blocks.
Read more about this study on my blog plantenzo.net/2025/04/08/s...
🧪 #PlantScience
Read more about this study on my blog plantenzo.net/2025/04/08/s...
🧪 #PlantScience
Reposted by Harm Nijveen
Our research published in @newphyt.bsky.social titled "Unravelling the dynamics of seed‐stored mRNAs during seed priming" (nph.onlinelibrary.wiley.com/doi/full/10....) explores how hydropriming affects mRNA dynamics, enhancing germination but reducing longevity. Thanks to all my co-authors!
Unravelling the dynamics of seed‐stored mRNAs during seed priming
Seed priming is a pre-sowing treatment that enables more efficient and uniform seed germination; however, it negatively affects seed longevity. In this work, the mRNA dynamics underlying a hydroprim...
nph.onlinelibrary.wiley.com
March 28, 2025 at 1:28 PM
Our research published in @newphyt.bsky.social titled "Unravelling the dynamics of seed‐stored mRNAs during seed priming" (nph.onlinelibrary.wiley.com/doi/full/10....) explores how hydropriming affects mRNA dynamics, enhancing germination but reducing longevity. Thanks to all my co-authors!
We invite motivated candidates to apply for a PhD or Postdoctoral position focusing on the analysis of single cell RNA-seq, tomo-seq, and degradome sequencing data in Arabidopsis thaliana seeds.
Reposting is appreciated :)
www.wur.nl/en/vacancy/p...
Reposting is appreciated :)
www.wur.nl/en/vacancy/p...
Postdoc/ PhD student Spatial and single cell seed transcriptomics
www.wur.nl
March 18, 2025 at 9:06 AM
We invite motivated candidates to apply for a PhD or Postdoctoral position focusing on the analysis of single cell RNA-seq, tomo-seq, and degradome sequencing data in Arabidopsis thaliana seeds.
Reposting is appreciated :)
www.wur.nl/en/vacancy/p...
Reposting is appreciated :)
www.wur.nl/en/vacancy/p...
Reposted by Harm Nijveen
Ten days left to apply!!
Exciting opportunity to join our group as postdoc! Apply now for this project on computational (meta)genome mining as part of a collaborative European research consortium: www.wur.nl/en/vacancy/p...
Please share!
Please share!
Postdoc position on computational (meta)genome mining for natural products
www.wur.nl
March 14, 2025 at 9:17 AM
Ten days left to apply!!
Reposted by Harm Nijveen
We're offering a fully funded PhD at the intersection of ML/AI and the natural sciences with a focus on sustainability and chemistry.
You'll work at WUR in the Netherlands, ranked #3 in environ. sciences, #1 in agricultural science, #38 in life sciences (QS).
Apply here:
www.wur.nl/nl/vacature/...
You'll work at WUR in the Netherlands, ranked #3 in environ. sciences, #1 in agricultural science, #38 in life sciences (QS).
Apply here:
www.wur.nl/nl/vacature/...
March 14, 2025 at 5:29 PM
We're offering a fully funded PhD at the intersection of ML/AI and the natural sciences with a focus on sustainability and chemistry.
You'll work at WUR in the Netherlands, ranked #3 in environ. sciences, #1 in agricultural science, #38 in life sciences (QS).
Apply here:
www.wur.nl/nl/vacature/...
You'll work at WUR in the Netherlands, ranked #3 in environ. sciences, #1 in agricultural science, #38 in life sciences (QS).
Apply here:
www.wur.nl/nl/vacature/...
Reposted by Harm Nijveen
Please spread the word. We're looking at recruiting a structural biologist (any level) @KamounLab to study plant-pathogen protein complexes especially in the context of coevolution.
Direct inquiries welcome.
Please include a cover letter.
medium.com/@kamounlab/2...
Direct inquiries welcome.
Please include a cover letter.
medium.com/@kamounlab/2...
February 12, 2025 at 11:20 AM
Please spread the word. We're looking at recruiting a structural biologist (any level) @KamounLab to study plant-pathogen protein complexes especially in the context of coevolution.
Direct inquiries welcome.
Please include a cover letter.
medium.com/@kamounlab/2...
Direct inquiries welcome.
Please include a cover letter.
medium.com/@kamounlab/2...
Reposted by Harm Nijveen
Join our symposium The evolution of microbial pangenomes at @eseb2025.bsky.social with @bjesseshapiro.bsky.social @annadewar.bsky.social (co-organized with @fbaumdicker.bsky.social and Jaime Iranzo)
February 11, 2025 at 5:16 PM
Join our symposium The evolution of microbial pangenomes at @eseb2025.bsky.social with @bjesseshapiro.bsky.social @annadewar.bsky.social (co-organized with @fbaumdicker.bsky.social and Jaime Iranzo)
Reposted by Harm Nijveen
[Please repost] Re-upping this in the new year.
Please let us know if you want to contribute to the 1001 Genomes Plus Project, which revolves around a curated collection of almost 600 long-read assemblies of #Arabidopsis thaliana.
#plantscience
Please let us know if you want to contribute to the 1001 Genomes Plus Project, which revolves around a curated collection of almost 600 long-read assemblies of #Arabidopsis thaliana.
#plantscience
January 8, 2025 at 4:23 PM
[Please repost] Re-upping this in the new year.
Please let us know if you want to contribute to the 1001 Genomes Plus Project, which revolves around a curated collection of almost 600 long-read assemblies of #Arabidopsis thaliana.
#plantscience
Please let us know if you want to contribute to the 1001 Genomes Plus Project, which revolves around a curated collection of almost 600 long-read assemblies of #Arabidopsis thaliana.
#plantscience
Reposted by Harm Nijveen
📢 Abstract Submission Extended Until January 12th.
Don't miss your chance to present at the upcoming Symposium on Bioinformatics in Food Science!
☯️ We encourage abstracts from female speakers. Submit here: forms.gle/nA6b5zx9qv5K...
~80 in-person attendees registered, few spots still available!
Don't miss your chance to present at the upcoming Symposium on Bioinformatics in Food Science!
☯️ We encourage abstracts from female speakers. Submit here: forms.gle/nA6b5zx9qv5K...
~80 in-person attendees registered, few spots still available!
Symposium: Bioinformatics in Food Science
Join us to explore how bioinformatics and data science, including AI technologies, are transforming the science behind our food, from microbes in food fermentation and sustainable agriculture to advan...
forms.gle
January 6, 2025 at 12:34 PM
📢 Abstract Submission Extended Until January 12th.
Don't miss your chance to present at the upcoming Symposium on Bioinformatics in Food Science!
☯️ We encourage abstracts from female speakers. Submit here: forms.gle/nA6b5zx9qv5K...
~80 in-person attendees registered, few spots still available!
Don't miss your chance to present at the upcoming Symposium on Bioinformatics in Food Science!
☯️ We encourage abstracts from female speakers. Submit here: forms.gle/nA6b5zx9qv5K...
~80 in-person attendees registered, few spots still available!
Reposted by Harm Nijveen
📢JOB ALERT!
An interesting position is open in our department for a project coordinator!
Please share!
#plantscijobs #plantscifyi
@pph-wur.bsky.social
www.wur.nl/en/vacancy/p...
An interesting position is open in our department for a project coordinator!
Please share!
#plantscijobs #plantscifyi
@pph-wur.bsky.social
www.wur.nl/en/vacancy/p...
Project Coordinator Plant Physiology
www.wur.nl
December 30, 2024 at 10:53 AM
📢JOB ALERT!
An interesting position is open in our department for a project coordinator!
Please share!
#plantscijobs #plantscifyi
@pph-wur.bsky.social
www.wur.nl/en/vacancy/p...
An interesting position is open in our department for a project coordinator!
Please share!
#plantscijobs #plantscifyi
@pph-wur.bsky.social
www.wur.nl/en/vacancy/p...
Reposted by Harm Nijveen
If you're looking for a (fully funded) PhD position in #ml / #ai methodology (with plenty of opportunities to apply it) at the intersection of #chemistry and #biology, don't forget to apply before the end of the year.
www.wur.nl/en/vacancy/p...
www.wur.nl/en/vacancy/p...
PhD student - Machine learning in bio- and cheminformatics
www.wur.nl
December 16, 2024 at 10:31 AM
If you're looking for a (fully funded) PhD position in #ml / #ai methodology (with plenty of opportunities to apply it) at the intersection of #chemistry and #biology, don't forget to apply before the end of the year.
www.wur.nl/en/vacancy/p...
www.wur.nl/en/vacancy/p...
Reposted by Harm Nijveen
Come join us!!
We have an opening for a 4-year postdoc position to study the #rhizosphere #microbiome in @utrechtuniversity.bsky.social @w-u-r.bsky.social, joint project with @marnixmedema.bsky.social in the context of MiCRop. Please tag/forward this to potential candidates and/or repost: www.uu.nl/en/organisat...
Bioinformatics Postdoc at UU/WUR: Map Metabolic Interactions in the Rhizosphere
Contribute to plant health and our understanding of the metabolic interactions between microbes and plants in the rhizosphere by computational modelling!
www.uu.nl
December 5, 2024 at 5:41 AM
Come join us!!
Reposted by Harm Nijveen
www.wur.nl/nl/vacature/...
My colleagues Rumyana Karlova and Leónie Bentsink are hiring! @pph-wur.bsky.social
@w-u-r.bsky.social
My colleagues Rumyana Karlova and Leónie Bentsink are hiring! @pph-wur.bsky.social
@w-u-r.bsky.social
PhD student MiSeed
www.wur.nl
December 3, 2024 at 8:05 PM
www.wur.nl/nl/vacature/...
My colleagues Rumyana Karlova and Leónie Bentsink are hiring! @pph-wur.bsky.social
@w-u-r.bsky.social
My colleagues Rumyana Karlova and Leónie Bentsink are hiring! @pph-wur.bsky.social
@w-u-r.bsky.social
Reposted by Harm Nijveen
Dear hivemind, in the absence of a fresh CAFA publication: what predictor(s) do people consider to be the state-of-the-art in protein function prediction nowadays? #bioinformatics #bioml #protein
December 2, 2024 at 5:01 PM
Dear hivemind, in the absence of a fresh CAFA publication: what predictor(s) do people consider to be the state-of-the-art in protein function prediction nowadays? #bioinformatics #bioml #protein
Reposted by Harm Nijveen
Here's a first:
I'm hiring a PhD student.
If you have (or know someone who has) a strong background and interest in computational (bio)chemistry or computer science (especially 3D computer vision), let's work together 😊
www.wur.nl/nl/vacature/...
I'm hiring a PhD student.
If you have (or know someone who has) a strong background and interest in computational (bio)chemistry or computer science (especially 3D computer vision), let's work together 😊
www.wur.nl/nl/vacature/...
PhD student - Machine learning in bio- and cheminformatics
www.wur.nl
December 2, 2024 at 5:51 PM
Here's a first:
I'm hiring a PhD student.
If you have (or know someone who has) a strong background and interest in computational (bio)chemistry or computer science (especially 3D computer vision), let's work together 😊
www.wur.nl/nl/vacature/...
I'm hiring a PhD student.
If you have (or know someone who has) a strong background and interest in computational (bio)chemistry or computer science (especially 3D computer vision), let's work together 😊
www.wur.nl/nl/vacature/...
Reposted by Harm Nijveen
I started a WUR (Wageningen University and Research) starter pack. Will add people as I find them 😉
go.bsky.app/6mNyhCa
November 29, 2024 at 10:38 PM
I started a WUR (Wageningen University and Research) starter pack. Will add people as I find them 😉
go.bsky.app/6mNyhCa