Zobrazeno 1 - 10
of 56
pro vyhledávání: '"Alexis Vandenbon"'
Autor:
Alexis Vandenbon, Diego Diez
Publikováno v:
Scientific Reports, Vol 13, Iss 1, Pp 1-14 (2023)
Abstract With the growing complexity of single-cell and spatial genomics data, there is an increasing importance of unbiased and efficient exploratory data analysis tools. One common exploratory data analysis step is the prediction of genes with diff
Externí odkaz:
https://doaj.org/article/2acba4ded4ad4de49671193c21d839b4
Autor:
Alexis Vandenbon, Rin Mizuno, Riyo Konishi, Masaya Onishi, Kyoko Masuda, Yuka Kobayashi, Hiroshi Kawamoto, Ayako Suzuki, Chenfeng He, Yuki Nakamura, Kosuke Kawaguchi, Masakazu Toi, Masahito Shimizu, Yasuhito Tanaka, Yutaka Suzuki, Shinpei Kawaoka
Publikováno v:
Communications Biology, Vol 6, Iss 1, Pp 1-12 (2023)
Spatial transcriptomics reveal how distant cancer affect gene expression and zonation in mouse liver in a manner that differs between biological pathways.
Externí odkaz:
https://doaj.org/article/48608d65ba534a52a3c3a5a77a96a0fd
Autor:
Masanori Yoshinaga, Kyuho Han, David W. Morgens, Takuro Horii, Ryosuke Kobayashi, Tatsuaki Tsuruyama, Fabian Hia, Shota Yasukura, Asako Kajiya, Ting Cai, Pedro H. C. Cruz, Alexis Vandenbon, Yutaka Suzuki, Yukio Kawahara, Izuho Hatada, Michael C. Bassik, Osamu Takeuchi
Publikováno v:
Nature Communications, Vol 13, Iss 1, Pp 1-17 (2022)
In this work, Yoshinaga et al. use functional CRISPR screens and in vivo analyses to show that an RNA methyltransferase METTL16 and MTR4-nuclear exosome play an essential role in maintaining erythropoiesis and regulating DNA repair in erythroblasts.
Externí odkaz:
https://doaj.org/article/f78942b01fb44792b4c4ca4cc22d55e8
Autor:
Alexis Vandenbon, Diego Diez
Publikováno v:
Nature Communications, Vol 11, Iss 1, Pp 1-10 (2020)
How cell clusters are defined in single-cell sequencing data has important consequences for downstream analyses and the interpretation of results, but is often not straightforward. Here, the authors present a new approach that enables the prediction
Externí odkaz:
https://doaj.org/article/1be0aefe11034fad8a85057c8b048b54
Autor:
Alexis Vandenbon
Publikováno v:
PLoS ONE, Vol 17, Iss 1, p e0263344 (2022)
MotivationGene co-expression analysis is an attractive tool for leveraging enormous amounts of public RNA-seq datasets for the prediction of gene functions and regulatory mechanisms. However, the optimal data processing steps for the accurate predict
Externí odkaz:
https://doaj.org/article/ca945d64fc424b2fa49d339241ae129b
Publikováno v:
Genome Biology, Vol 19, Iss 1, Pp 1-15 (2018)
Abstract Background The importance of transcription factors (TFs) and epigenetic modifications in the control of gene expression is widely accepted. However, causal relationships between changes in TF binding, histone modifications, and gene expressi
Externí odkaz:
https://doaj.org/article/c1e1cacddeaf4a85aff1b3af01cdc1fa
Autor:
Kenta Maruyama, Hiroyasu Kidoya, Naoki Takemura, Erika Sugisawa, Osamu Takeuchi, Takeshi Kondo, Mohammed Mansour Abbas Eid, Hiroki Tanaka, Mikaël M. Martino, Nobuyuki Takakura, Yasunori Takayama, Shizuo Akira, Alexis Vandenbon, Yutaro Kumagai
Publikováno v:
Cell Reports, Vol 32, Iss 2, Pp 107906- (2020)
Summary: Zinc finger protein St18 was initially reported as candidate tumor suppressor gene, and also suggested that fibroblast St18 positively regulates NF-κB activation. Despite the pleiotropic functions of St18, little is known about its roles in
Externí odkaz:
https://doaj.org/article/39335951d565447b9f5690311309b724
Autor:
Masanori Yoshinaga, Yoshinari Nakatsuka, Alexis Vandenbon, Daisuke Ori, Takuya Uehata, Tohru Tsujimura, Yutaka Suzuki, Takashi Mino, Osamu Takeuchi
Publikováno v:
Cell Reports, Vol 19, Iss 8, Pp 1614-1630 (2017)
Iron metabolism is regulated by transcriptional and post-transcriptional mechanisms. The mRNA of the iron-controlling gene, transferrin receptor 1 (TfR1), has long been believed to be negatively regulated by a yet-unidentified endonuclease. Here, we
Externí odkaz:
https://doaj.org/article/4478bd5cf27044d5a529b547ea52d3dc
Publikováno v:
PeerJ, Vol 5, p e3389 (2017)
Because transcription is the first step in the regulation of gene expression, understanding how transcription factors bind to their DNA binding motifs has become absolutely necessary. It has been shown that the promoters of genes with similar express
Externí odkaz:
https://doaj.org/article/8ffa53c4a65148f289eed07db01d9361
Publikováno v:
PLoS ONE, Vol 9, Iss 8, p e104342 (2014)
Unraveling the biological information within the regulatory region (RR) of genes has become one of the major focuses of current genomic research. It has been hypothesized that RRs of co-expressed genes share similar architecture, but to the best of o
Externí odkaz:
https://doaj.org/article/a257ca9560424e2db5162a0a099b86d5