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Niraj Rayamajhi

@niraj-rayamajhi.bsky.social
19 followers 31 following 4 posts

Father (🐻) of two kids || Immigrant 🇳🇵✈️ 🇺🇸 || computational biologist with research interest in AI, genomics, & evolution || Postdoc @Purdue (current), former postdoc @ASU, PhD @UofIllinois, & Masters @TexasTech

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Niraj Rayamajhi @niraj-rayamajhi.bsky.social · 10/09/2026
Happy to share our new review paper!! Our goal was to write something accessible: a starting point for plant biologists who want to get their foot in the door of AI, without needing a computational background. Read it here: academic.oup.com/jxb/article/...
academic.oup.com
Decoding gene regulation in plant genomes with artificial intelligence
Artificial Intelligence (AI) and Large Language Models (LLMs) are transforming plant functional genomics by enabling prediction of regulatory elements, epi
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Reposted by Niraj Rayamajhi
Milton Tan @mtanichthys.bsky.social · 18/06/2026
Happy to see the new publication of our study on the Ironcolor Shiner and understanding its genetic diversity using population genomics. link.springer.com/article/10.1...
link.springer.com
Unique genetic diversity and differential demographics revealed in peripheral populations of a North American minnow, the Ironcolor Shiner (Alburnops chalybaeus) - Conservation Genetics
Peripheral and disjunct populations are often the result of historic geological changes in the landscape and because of the long temporal span of colonization or vicariance, they are often genetically...
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Niraj Rayamajhi @niraj-rayamajhi.bsky.social · 18/06/2026
Want to do transformer-based gene regulatory network (GRN) inference from single-cell multi-omics data? Check out Epigenome-aware Transformer! arxiv.org/abs/2606.00685
arxiv.org
Prior-Guided Multi-Omic Transformers for Single-Cell Gene Regulatory Network Inference
Gene regulatory networks (GRNs) capture transcription factor-target interactions and are central to understanding cell-state regulation and disease. Reconstructing GRNs from paired single-cell transcr...
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Reposted by Niraj Rayamajhi
Rachel Moran @rachelmoran.bsky.social · 15/04/2026
New paper led by @taylorblack.bsky.social shows AVT modulates aggression in darter lineages with nest site territoriality and paternal care but elicits no behavioral response in a species that secondarily lost territoriality and care www.sciencedirect.com/science/arti...
sciencedirect.com
Lineage-specific decoupling of arginine vasotocin-evoked aggression in male darters (Percidae: Etheostomatinae)
The repeated evolution of parental care is often accompanied by shifts in the neural circuits and hormonal pathways that regulate motivation and aggre…
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Niraj Rayamajhi @niraj-rayamajhi.bsky.social · 27/03/2026
Wishing Balen and the team a great tenure filled with success, growth, and meaningful achievements. This would do justice to the aspirations of Gen Z (especially those lost in recent protests against corruption), honoring their expectations and reflecting their vision. www.bbc.com/news/article...
bbc.com
Balen Shah: Ex-rapper to be sworn in as Nepal's prime minister
Balendra Shah won the election by a landslide promising change to Nepalis who are angry at corruption.
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Reposted by Niraj Rayamajhi
Julian Catchen @jcatchen.bsky.social · 16/01/2025
If you want to search and/or visualize how a set of long reads lay down on a reference genome -- whether to check a gene annotation, for assembly error, or another reason, Gio Madrigal's Klumpy can help you do it. Excited to see it on the cover! (and online: catchenlab.life.illinois.edu/klumpy/)
Molecular Ecology Resources journal cover image of the Klumpy algorithm.
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Niraj Rayamajhi @niraj-rayamajhi.bsky.social · 10/01/2025
Check out our latest collaborative work on the high-quality, chromosome-level genome assembly of a female bald notothen (Antarctic fish)! Huge thanks to all authors for making this possible!! Read more below from @arcolon14.bsky.social who significantly contributed to the study!
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