Bioinformatics analysis of ferroptosis in spinal cord injury
Ferroptosis plays a key role in aggravating the progression of spinal cord injury (SCI), but the specific mechanism remains unknown. In this study, we constructed a rat model of T10 SCI using a modified Allen method. We identified 48, 44, and 27 ferroptosis genes that were differentially expressed at 1, 3, and 7 days after SCI induction. Compared with the sham group and other SCI subgroups, the subgroup at 1 day after SCI showed increased expression of the ferroptosis marker acyl-CoA synthetase long-chain family member 4 and the oxidative stress marker malondialdehyde in the injured spinal cord while glutathione in the injured spinal cord was lower. These findings with our bioinformatics results suggested that 1 day after SCI was the important period of ferroptosis progression. Bioinformatics analysis identified the following top ten hub ferroptosis genes in the subgroup at 1 day after SCI: STAT3, JUN, TLR4, ATF3, HMOX1, MAPK1, MAPK9, PTGS2, VEGFA, and RELA. Real-time polymerase chain reaction on rat spinal cord tissue confirmed that STAT3, JUN, TLR4, ATF3, HMOX1, PTGS2, and RELA mRNA levels were up-regulated and VEGFA, MAPK1 and MAPK9 mRNA levels were down-regulated. Ten potential compounds were predicted using the DSigDB database as potential drugs or molecules targeting ferroptosis to repair SCI. We also constructed a ferroptosis-related mRNA-miRNA-lncRNA network in SCI that included 66 lncRNAs, 10 miRNAs, and 12 genes. Our results help further the understanding of the mechanism underlying ferroptosis in SCI.
Medienart: |
E-Artikel |
---|
Erscheinungsjahr: |
2023 |
---|---|
Erschienen: |
2023 |
Enthalten in: |
Zur Gesamtaufnahme - volume:18 |
---|---|
Enthalten in: |
Neural regeneration research - 18(2023), 3 vom: 30. März, Seite 626-633 |
Sprache: |
Englisch |
---|
Beteiligte Personen: |
Li, Jin-Ze [VerfasserIn] |
---|
Links: |
---|
Anmerkungen: |
Date Revised 09.12.2022 published: Print Citation Status PubMed-not-MEDLINE |
---|
doi: |
10.4103/1673-5374.350209 |
---|
funding: |
|
---|---|
Förderinstitution / Projekttitel: |
|
PPN (Katalog-ID): |
NLM34536578X |
---|
LEADER | 01000naa a22002652 4500 | ||
---|---|---|---|
001 | NLM34536578X | ||
003 | DE-627 | ||
005 | 20231226024912.0 | ||
007 | cr uuu---uuuuu | ||
008 | 231226s2023 xx |||||o 00| ||eng c | ||
024 | 7 | |a 10.4103/1673-5374.350209 |2 doi | |
028 | 5 | 2 | |a pubmed24n1151.xml |
035 | |a (DE-627)NLM34536578X | ||
035 | |a (NLM)36018187 | ||
040 | |a DE-627 |b ger |c DE-627 |e rakwb | ||
041 | |a eng | ||
100 | 1 | |a Li, Jin-Ze |e verfasserin |4 aut | |
245 | 1 | 0 | |a Bioinformatics analysis of ferroptosis in spinal cord injury |
264 | 1 | |c 2023 | |
336 | |a Text |b txt |2 rdacontent | ||
337 | |a ƒaComputermedien |b c |2 rdamedia | ||
338 | |a ƒa Online-Ressource |b cr |2 rdacarrier | ||
500 | |a Date Revised 09.12.2022 | ||
500 | |a published: Print | ||
500 | |a Citation Status PubMed-not-MEDLINE | ||
520 | |a Ferroptosis plays a key role in aggravating the progression of spinal cord injury (SCI), but the specific mechanism remains unknown. In this study, we constructed a rat model of T10 SCI using a modified Allen method. We identified 48, 44, and 27 ferroptosis genes that were differentially expressed at 1, 3, and 7 days after SCI induction. Compared with the sham group and other SCI subgroups, the subgroup at 1 day after SCI showed increased expression of the ferroptosis marker acyl-CoA synthetase long-chain family member 4 and the oxidative stress marker malondialdehyde in the injured spinal cord while glutathione in the injured spinal cord was lower. These findings with our bioinformatics results suggested that 1 day after SCI was the important period of ferroptosis progression. Bioinformatics analysis identified the following top ten hub ferroptosis genes in the subgroup at 1 day after SCI: STAT3, JUN, TLR4, ATF3, HMOX1, MAPK1, MAPK9, PTGS2, VEGFA, and RELA. Real-time polymerase chain reaction on rat spinal cord tissue confirmed that STAT3, JUN, TLR4, ATF3, HMOX1, PTGS2, and RELA mRNA levels were up-regulated and VEGFA, MAPK1 and MAPK9 mRNA levels were down-regulated. Ten potential compounds were predicted using the DSigDB database as potential drugs or molecules targeting ferroptosis to repair SCI. We also constructed a ferroptosis-related mRNA-miRNA-lncRNA network in SCI that included 66 lncRNAs, 10 miRNAs, and 12 genes. Our results help further the understanding of the mechanism underlying ferroptosis in SCI | ||
650 | 4 | |a Journal Article | |
650 | 4 | |a Gene Ontology enrichment analysis | |
650 | 4 | |a Kyoto Encyclopedia of Genes and Genomes pathway | |
650 | 4 | |a bioinformatics | |
650 | 4 | |a drug | |
650 | 4 | |a ferroptosis | |
650 | 4 | |a gene-miRNA network | |
650 | 4 | |a mRNA-miRNA-lncRNA network | |
650 | 4 | |a progression | |
650 | 4 | |a spinal cord injury | |
700 | 1 | |a Fan, Bao-You |e verfasserin |4 aut | |
700 | 1 | |a Sun, Tao |e verfasserin |4 aut | |
700 | 1 | |a Wang, Xiao-Xiong |e verfasserin |4 aut | |
700 | 1 | |a Li, Jun-Jin |e verfasserin |4 aut | |
700 | 1 | |a Zhang, Jian-Ping |e verfasserin |4 aut | |
700 | 1 | |a Gu, Guang-Jin |e verfasserin |4 aut | |
700 | 1 | |a Shen, Wen-Yuan |e verfasserin |4 aut | |
700 | 1 | |a Liu, De-Rong |e verfasserin |4 aut | |
700 | 1 | |a Wei, Zhi-Jian |e verfasserin |4 aut | |
700 | 1 | |a Feng, Shi-Qing |e verfasserin |4 aut | |
773 | 0 | 8 | |i Enthalten in |t Neural regeneration research |d 2012 |g 18(2023), 3 vom: 30. März, Seite 626-633 |w (DE-627)NLM234805757 |x 1673-5374 |7 nnns |
773 | 1 | 8 | |g volume:18 |g year:2023 |g number:3 |g day:30 |g month:03 |g pages:626-633 |
856 | 4 | 0 | |u http://dx.doi.org/10.4103/1673-5374.350209 |3 Volltext |
912 | |a GBV_USEFLAG_A | ||
912 | |a GBV_NLM | ||
951 | |a AR | ||
952 | |d 18 |j 2023 |e 3 |b 30 |c 03 |h 626-633 |