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Yohey Ogawa

@yohey-ogawa.bsky.social
94 followers 257 following 13 posts

A vision and genome scientist. Evodevo. Transcriptional regulation. Transposable elements. Cis-Regulatory Elements. Color vision. NIG, Japan homepage, compcell.net

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Yohey Ogawa @yohey-ogawa.bsky.social · 16/12/2025
🧬👁️ Our Science Advances paper is published! snATAC-seq analysis across lamprey to human retina uncovers deeply conserved cis-regulatory codes in all six retinal cell types — even with extensive enhancer turnover. Immensely grateful to my coauthors and collaborators. 🙏 www.science.org/doi/10.1126/...
science.org
Conservation of cis-regulatory codes over half a billion years of evolution
The regulatory codes controlling vertebrate retinal gene expression have been conserved over more than half a billion years.
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Reposted by Yohey Ogawa
Yawako @yawaguchi.bsky.social · 18/11/2025
I’ve released a tool to sketch and edit phylogenetic trees! yawak.jp/PhyloWeaver/ Load a Newick file and intuitively add/remove/resize branches. Useful for quick conceptual trees, extracting subtrees, or turning ideas into Newick.
yawak.jp
PhyloWeaver – Interactive phylogenetic tree editor
Edit and visualize phylogenetic trees directly in your browser. PhyloWeaver lets you interactively rearrange tree topologies and export high-quality figures for publications and presentations.
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Yohey Ogawa @yohey-ogawa.bsky.social · 21/05/2025
I am pleased to continue my journey as a scientist. I started a new job at 遺伝研NIG🧬 in Japan. My goal: (1) keep learning new stuff. (2) interacting with as many people as possible through my passion. よろしくお願いします!
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Yohey Ogawa @yohey-ogawa.bsky.social · 22/01/2025
未だ就職先決まらず。こまったな。 I still need an academic position in Japan. I feel that I do not understand the key points of getting a job.
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Reposted by Yohey Ogawa
Anshul Kundaje @anshulkundaje.bsky.social · 17/01/2025
We share a lot of our ideas, code, datasets (that we spend years sanitizing) early. Often way before we release preprints. We do this so that others can use, build on, improve & even "beat" our approaches. But I want to say a few things about some simple expectations 1/
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Yohey Ogawa @yohey-ogawa.bsky.social · 09/01/2025
My homepage is finally open! compcell.net It's very simple and elementary but better than nothing😎。アカデミア就活がんばろ。
compcell.net
Yohei Ogawa (小川 洋平)
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Yohey Ogawa @yohey-ogawa.bsky.social · 25/12/2024
Cell Ranger ATAC (v2.1.0) does not create an index reference for chromosomes larger than 2^29-1, approximately 500 Mbp. How can I resolve this issue?
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Yohey Ogawa @yohey-ogawa.bsky.social · 19/12/2024
parrotsって、オウムとインコ両方を含むのかな?parrotsをなんて訳せばいいんだろ?そもそもオウムとインコの違いってなんだろ。
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Yohey Ogawa @yohey-ogawa.bsky.social · 19/12/2024
オウム目の鳥の羽毛の色素、Psittacofulvin、の日本語訳知ってる方いませんか?シッタコフルビンであってる?
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Yohey Ogawa @yohey-ogawa.bsky.social · 17/12/2024
I'm writing an HTML personal website. I'd love to have my domain, but which service should I use?
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Yohey Ogawa @yohey-ogawa.bsky.social · 15/12/2024
無事にプレプリントにアップロードできたはいいものの、各所に散らばったデータとコードスクリプトの山をどうやって整理して公開すればいいのだろうか?解析メインの論文の作成が始めてで、よくわからない。Githubかな?
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Yohey Ogawa @yohey-ogawa.bsky.social · 15/12/2024
I've successfully uploaded the preprint, but how do I organize and publish the piles of data and code scripts scattered around? I'm not sure, since this is my first time writing a paper that focuses on analysis. Maybe Github?.
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Reposted by Yohey Ogawa
Tom Baden @neurofishh.bsky.social · 13/12/2024
Vertebrate evolution nerds, help please: I seem to recall that I read something recently suggesting that hagfish might need to be moved about the base of the vertebrate tree of life (away from the lampreys??) but I can't find anything now. All recent work seem to confirm the "original" position
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Yohey Ogawa @yohey-ogawa.bsky.social · 19/11/2024
Preprint alert as of Nov. 2024. We found a cis-regulatory code conserved across a broad range of vertebrates, including jawless species in retinas. www.biorxiv.org/content/10.1...
biorxiv.org
Conservation of cis-regulatory codes over half a billion years of evolution
The identification of homologous cell types across species represents a crucial step in understanding cell type evolution. The retina is particularly amenable to comparative analysis because the basic...
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