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Computational screen to identify potential targets for immunotherapeutic identification and removal of senescence cells

To prioritize gene and protein candidates that may enable the selective identification and removal of senescent cells, we compared gene expression signatures from replicative senescent cells to transcriptomics and proteomics atlases of normal human tissues and cell types. RNA‐seq samples from in vit...

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Autores principales: Deng, Eden Z., Fleishman, Reid H., Xie, Zhuorui, Marino, Giacomo B., Clarke, Daniel J. B., Ma'ayan, Avi
Formato: Online Artículo Texto
Lenguaje:English
Publicado: John Wiley and Sons Inc. 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10265163/
https://www.ncbi.nlm.nih.gov/pubmed/37082798
http://dx.doi.org/10.1111/acel.13809
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author Deng, Eden Z.
Fleishman, Reid H.
Xie, Zhuorui
Marino, Giacomo B.
Clarke, Daniel J. B.
Ma'ayan, Avi
author_facet Deng, Eden Z.
Fleishman, Reid H.
Xie, Zhuorui
Marino, Giacomo B.
Clarke, Daniel J. B.
Ma'ayan, Avi
author_sort Deng, Eden Z.
collection PubMed
description To prioritize gene and protein candidates that may enable the selective identification and removal of senescent cells, we compared gene expression signatures from replicative senescent cells to transcriptomics and proteomics atlases of normal human tissues and cell types. RNA‐seq samples from in vitro senescent cells (6 studies, 13 conditions) were analyzed for identifying targets at the gene and transcript levels that are highly expressed in senescent cells compared to their expression in normal human tissues and cell types. A gene set made of 301 genes called SenoRanger was established based on consensus analysis across studies and backgrounds. Of the identified senescence‐associated targets, 29% of the genes in SenoRanger are also highly differentially expressed in aged tissues from GTEx. The SenoRanger gene set includes previously known as well as novel senescence‐associated genes. Pathway analysis that connected the SenoRanger genes to their functional annotations confirms their potential role in several aging and senescence‐related processes. Overall, SenoRanger provides solid hypotheses about potentially useful targets for identifying and removing senescence cells.
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spelling pubmed-102651632023-06-15 Computational screen to identify potential targets for immunotherapeutic identification and removal of senescence cells Deng, Eden Z. Fleishman, Reid H. Xie, Zhuorui Marino, Giacomo B. Clarke, Daniel J. B. Ma'ayan, Avi Aging Cell Short Communications To prioritize gene and protein candidates that may enable the selective identification and removal of senescent cells, we compared gene expression signatures from replicative senescent cells to transcriptomics and proteomics atlases of normal human tissues and cell types. RNA‐seq samples from in vitro senescent cells (6 studies, 13 conditions) were analyzed for identifying targets at the gene and transcript levels that are highly expressed in senescent cells compared to their expression in normal human tissues and cell types. A gene set made of 301 genes called SenoRanger was established based on consensus analysis across studies and backgrounds. Of the identified senescence‐associated targets, 29% of the genes in SenoRanger are also highly differentially expressed in aged tissues from GTEx. The SenoRanger gene set includes previously known as well as novel senescence‐associated genes. Pathway analysis that connected the SenoRanger genes to their functional annotations confirms their potential role in several aging and senescence‐related processes. Overall, SenoRanger provides solid hypotheses about potentially useful targets for identifying and removing senescence cells. John Wiley and Sons Inc. 2023-04-20 /pmc/articles/PMC10265163/ /pubmed/37082798 http://dx.doi.org/10.1111/acel.13809 Text en © 2023 The Authors. Aging Cell published by Anatomical Society and John Wiley & Sons Ltd. https://creativecommons.org/licenses/by/4.0/This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.
spellingShingle Short Communications
Deng, Eden Z.
Fleishman, Reid H.
Xie, Zhuorui
Marino, Giacomo B.
Clarke, Daniel J. B.
Ma'ayan, Avi
Computational screen to identify potential targets for immunotherapeutic identification and removal of senescence cells
title Computational screen to identify potential targets for immunotherapeutic identification and removal of senescence cells
title_full Computational screen to identify potential targets for immunotherapeutic identification and removal of senescence cells
title_fullStr Computational screen to identify potential targets for immunotherapeutic identification and removal of senescence cells
title_full_unstemmed Computational screen to identify potential targets for immunotherapeutic identification and removal of senescence cells
title_short Computational screen to identify potential targets for immunotherapeutic identification and removal of senescence cells
title_sort computational screen to identify potential targets for immunotherapeutic identification and removal of senescence cells
topic Short Communications
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10265163/
https://www.ncbi.nlm.nih.gov/pubmed/37082798
http://dx.doi.org/10.1111/acel.13809
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