Predicting age from the transcriptome of human dermal fibroblasts

被引：0

作者：

Jason G. Fleischer

Roberta Schulte

Hsiao H. Tsai

Swati Tyagi

Arkaitz Ibarra

Maxim N. Shokhirev

Ling Huang

Martin W. Hetzer

Saket Navlakha

机构：

[1] The Salk Institute for Biological Studies,Integrative Biology Laboratory

[2] The Salk Institute for Biological Studies,Molecular and Cell Biology Laboratory

[3] Molecular Stethoscope Inc.,Bioinformatics Core

[4] The Salk Institute for Biological Studies,undefined

来源：

Genome Biology | / 19卷

关键词：

Biological age; Skin fibroblasts; Machine learning; Ensemble classifiers; RNA-seq; Aging; Biomarker;

D O I：

暂无

中图分类号：

学科分类号：

摘要：

Biomarkers of aging can be used to assess the health of individuals and to study aging and age-related diseases. We generate a large dataset of genome-wide RNA-seq profiles of human dermal fibroblasts from 133 people aged 1 to 94 years old to test whether signatures of aging are encoded within the transcriptome. We develop an ensemble machine learning method that predicts age to a median error of 4 years, outperforming previous methods used to predict age. The ensemble was further validated by testing it on ten progeria patients, and our method is the only one that predicts accelerated aging in these patients.

引用

共 50 条

[21] TRANSCRIPTOME ALTERATIONS IN X-IRRADIATED HUMAN GINGIVA FIBROBLASTS
Weissmann, Robert
Kacprowski, Tim
Peper, Michel
Esche, Jennifer
Jensen, Lars R.
van Diepen, Laura
Port, Matthias
Kuss, Andreas W.
Scherthan, Harry
HEALTH PHYSICS, 2016, 111 (02): : 75 - 84
[22] Acceleration of Collagen Breakdown by Extracellular Basic pH in Human Dermal Fibroblasts
Park, Gunhyuk
Oh, Dal-Seok
Kim, Yong-ung
Park, Moon-Ki
SKIN PHARMACOLOGY AND PHYSIOLOGY, 2016, 29 (04) : 204 - 209
[23] CpG methylation changes in Alu repetitive sequences in normal aging due to diastolic hypertension in human dermal fibroblasts from the facial area
Jiraboonsri, Suvinai
Hemvipat, Panicha
Kamolratanakul, Supitcha
Bhummaphan, Narumol
Siritientong, Tippawan
Kitkumthorn, Nakarin
Mutirangura, Apiwat
Meevassana, Jiraroch
BIOMEDICAL REPORTS, 2024, 20 (01)
[24] ULTRASTRUCTURE OF DERMAL FIBROBLASTS DURING DEVELOPMENT AND AGING - RELATIONSHIP TO INVITRO SENESCENCE OF DERMAL FIBROBLASTS
BRUCE, SA
EXPERIMENTAL GERONTOLOGY, 1991, 26 (01) : 3 - 16
[25] Phytocannabinoids Stimulate Rejuvenation and Prevent Cellular Senescence in Human Dermal Fibroblasts
Gerasymchuk, Marta
Robinson, Gregory Ian
Groves, Alyssa
Haselhorst, Lucie
Nandakumar, Sanjana
Stahl, Cora
Kovalchuk, Olga
Kovalchuk, Igor
CELLS, 2022, 11 (23)
[26] Transcriptome Analysis of Dermal Fibroblasts Derived From Visceral Leishmaniasis and Post-Kala-Azar Dermal Leishmaniasis Patients Reveal Disease-Specific Gene Expression and Pathological Regulation
Singh, Sneha
Madhukar, Major
Dikhit, Manas Ranjan
Ravidas, Vidya Nand
Pandey, Krishna
Sen, Abhik
JOURNAL OF INFECTIOUS DISEASES, 2023, 227 (10) : 1132 - 1142
[27] Increased levels of a particular phosphatidylcholine species in senescent human dermal fibroblasts in vitro
Eiji Naru
Yasukazu Takanezawa
Misako Kobayashi
Yuko Misaki
Kazuhiko Kaji
Kumi Arakane
Human Cell, 2008, 21 : 70 - 78
[28] Effect of advanced glycation endproducts on gene expression profiles of human dermal fibroblasts
J. Molinari
E. Ruszova
V. Velebny
L. Robert
Biogerontology, 2008, 9
[29] Age-related response of human dermal fibroblasts to L-ascorbic acid: Study of type I and III collagen synthesis
Dumas, M
Chaudagne, C
Bonte, F
Meybeck, A
COMPTES RENDUS DE L ACADEMIE DES SCIENCES SERIE III-SCIENCES DE LA VIE-LIFE SCIENCES, 1996, 319 (12): : 1127 - 1132
[30] Effect of advanced glycation endproducts on gene expression profiles of human dermal fibroblasts
Molinari, J.
Ruszova, E.
Velebny, V.
Robert, L.
BIOGERONTOLOGY, 2008, 9 (03) : 177 - 182

← 1 2 3 4 5 →