#158. Rename entities in the dataset according the ones in DB

scripts/expression_change_human_mrna/08-09-2023-update-items-human-mrna.csv

@@ -16,7 +16,7 @@ SIRT6,10.1007/s10517-020-04986-4,human,n/a,all,83.0%,<0.01,saliva,n/a,n/a,63,82,
 HMGB2,10.1007/s11357-018-0015-1,human,n/a,all,209.0%,,plasma,20,70,20,70,24,84,years,increased gene expression,4,108,Pearson correlation,protein,ELISA,"The data for 20-24 vs. 70-80 years old. Circulating levels of HMGB2 in human plasma were investigated. Control - young donors 20-24 years old (n=4). The old donors were a cohort of 108 people aged 70 to 100 years (n=108). Protein concentrations were measured by the ELISA kit from Lifespan Biosciences (LS-F11643-1). HMGB2 levels increased with age (R2 value=0.0826, Pearson correlation=0.546). Absolute levels of HMGB2 ranged from 0.4 to 7.9 ng/ml.",n/a
 HMGB2,10.1007/s11357-018-0015-1,human,n/a,all,292.0%,,plasma,20,90,20,90,24,100,years,increased gene expression,4,108,Pearson correlation,protein,ELISA,"The data for 20-24 vs. 90-100 years old. Circulating levels of HMGB2 in human plasma were investigated. Control - young donors 20-24 years old (n=4). The old donors were a cohort of 108 people aged 70 to 100 years (n=108). Protein concentrations were measured by the ELISA kit from Lifespan Biosciences (LS-F11643-1). HMGB2 levels increased with age (R2 value=0.0826, Pearson correlation=0.546). Absolute levels of HMGB2 ranged from 0.4 to 7.9 ng/ml.",n/a
 FOXO1,10.1007/s10522-007-9114-6,rat,F344,male,66.0%,<0.001,kidney,n/a,n/a,6,24,n/a,n/a,months,decreased protein activity,3,3,"ANOVA, Fisher's test",protein,EMSA,The EMSA method was used to compare nuclear FOXO binding activities in kidney nuclear protein from rats. FOXO activity was decreased with age. The caloric restriction protects from age-related FOXO binding activity decreasing.,n/a
-FOS,10.1002/jnr.10428,rat,F344,all,32.0%,<0.02,hippocampus,n/a,n/a,3,30,n/a,n/a,months,decreased protein activity,4,4,two-tailed t test,protein,EMSA,"Measurements of AP-1 binding activity by EMSA over time after hyperoxia also showed significant increases in AP-1 DNA binding activity after 24 hr of hyperoxia. When aged animals were also challenged with a hyperoxia insult, there were no significant increases in AP-1 binding activity",n/a
+FOS,10.1002/jnr.10428,rat,F344,all,32.0%,<0.02,hippocampus,n/a,n/a,3,30,n/a,n/a,months,decreased protein activity,4,4,two-tailed t-test,protein,EMSA,"Measurements of AP-1 binding activity by EMSA over time after hyperoxia also showed significant increases in AP-1 DNA binding activity after 24 hr of hyperoxia. When aged animals were also challenged with a hyperoxia insult, there were no significant increases in AP-1 binding activity",n/a
 LAIR1,10.1002/eji.200636678,human,n/a,all,30.0%,<0.001,CD4+ T cells,"0,4",22,n/a,n/a,1,68,years,decreased gene expression,16,25,Mann-Whitney test,protein,flow cytometry,"110 healthy humans of varios age participated in the stuly. The Lair1 gene expression decreases in the CD4 T lymphocytes with age, significant diferences were found between the ages 0 and >20 years. At the same time, these differences were caused by the reduction of the naive T-cells and not by the change in the Lair1 expression in the any of the T-cell subpopulations. The Lair1 expression was consistently higher in the naive T-cells, than in the memory T-cells and do not shows any significant changes with time in the any T-cell subpopulation.",n/a
 LAIR1,10.1002/eji.200636678,human,n/a,all,47.0%,0.002,CD8+ T cells,"0,4",22,n/a,n/a,1,68,years,decreased gene expression,16,25,Mann-Whitney test,protein,flow cytometry,"110 healthy humans of varios age participated in the stuly. The Lair1 gene expression decreases in the CD8 T lymphocytes with age, significant diferences were found between the ages 0 and >20 years. At the same time, these differences were caused by the reduction of the naive T-cells and not by the change in Lair1 expression in the any of the T-cell subpopulations. The Lair1 expression was consistently higher in the naive T-cells, than in the memory T-cells and do not shows any significant changes with time in the any T-cell subpopulation.",n/a
 PDGFRA,10.1002/oby.21727,mouse,C57BL/6J,male,30.6%,<0.05,inguinal white adipose tissue,n/a,n/a,4,20,n/a,n/a,months,decreased gene expression,7,7,n/a,number of cells expressing the gene,flow cytometry,Flow cytometry.,n/a
@@ -108,7 +108,7 @@ IKBKB,10.1007/s10495-013-0806-x,rhesus monkey,Macaca mulatta,all,50.0%,0.0034,or
 COL3A1,10.1007/s00125-015-3837-8,rat,Wistar,male,331.0%,<0.05,pancreas,n/a,n/a,3,15,n/a,n/a,months,increased gene expression,4-10,4-10,n/a,mRNA,"microarray, qPCR",The COL3A1 gene mRNA level in the pancreatic islet was estimated.,n/a
 RB1,10.1002/reg2.25,axolotl,Ambystoma mexicanum,n/a,n/a,<0.05,iris,n/a,n/a,7,91,n/a,n/a,days,increased gene expression,n/a,n/a,Student t-test,mRNA,"microarray, qPCR",n/a,n/a
 TYMS,10.1002/reg2.25,axolotl,Ambystoma mexicanum,n/a,n/a,<0.05,iris,n/a,n/a,7,90,n/a,n/a,days,decreased gene expression,n/a,n/a,Student t-test,mRNA,"microarray, qPCR",n/a,n/a
-NIPSNAP1,10.1002/hipo.20703,mouse,C57BL/6,female,17.0%,<0.025,hippocampus,n/a,n/a,4,18,n/a,n/a,months,decreased gene expression,26,28,two-tailed t test,mRNA,"microarray, qPCR","In aged mice (18 months), NIPSNAP1 estradiol-induced expression was decreased compared to young (4 months) or middle-aged (12 months) mice.",n/a
+NIPSNAP1,10.1002/hipo.20703,mouse,C57BL/6,female,17.0%,<0.025,hippocampus,n/a,n/a,4,18,n/a,n/a,months,decreased gene expression,26,28,two-tailed t-test,mRNA,"microarray, qPCR","In aged mice (18 months), NIPSNAP1 estradiol-induced expression was decreased compared to young (4 months) or middle-aged (12 months) mice.",n/a
 GCLC,10.1016/s0891-5849(99)00269-5,rat,F344,all,26.0%,<0.05,liver,n/a,n/a,3,24,n/a,n/a,months,decreased protein activity,n/a,n/a,ANOVA,n/a,n/a,"GCL activity was significantly decreased with increased age in liver, kidney, lung, and red blood cells (RBC). Parallel with the decreased enzyme activity, the protein and mRNA contents of both GCL subunits also changed inversely with age in liver, kidney, and lung, implying a decreased GCL gene expression during aging.",n/a
 GCLC,10.1016/s0891-5849(99)00269-5,rat,F344,all,45.0%,<0.05,kidney,n/a,n/a,3,24,n/a,n/a,months,decreased protein activity,n/a,n/a,ANOVA,n/a,n/a,"GCL activity was significantly decreased with increased age in liver, kidney, lung, and red blood cells (RBC). Parallel with the decreased enzyme activity, the protein and mRNA contents of both GCL subunits also changed inversely with age in liver, kidney, and lung, implying a decreased GCL gene expression during aging.",n/a
 GCLC,10.1016/s0891-5849(99)00269-5,rat,F344,all,27.0%,<0.05,lung,n/a,n/a,3,24,n/a,n/a,months,decreased protein activity,n/a,n/a,ANOVA,n/a,n/a,"GCL activity was significantly decreased with increased age in liver, kidney, lung, and red blood cells (RBC). Parallel with the decreased enzyme activity, the protein and mRNA contents of both GCL subunits also changed inversely with age in liver, kidney, and lung, implying a decreased GCL gene expression during aging.",n/a
@@ -258,7 +258,7 @@ GCLM,10.1016/s0891-5849(99)00269-5,rat,F344,all,30.0%,<0.05,liver,n/a,n/a,3,12,n
 GCLM,10.1016/s0891-5849(99)00269-5,rat,F344,all,48.0%,<0.05,liver,n/a,n/a,3,24,n/a,n/a,months,decreased gene expression,n/a,n/a,ANOVA,mRNA,northern blot,"Decrease in GCS mRNA content with increased age was found in liver (30 and 48% decrease in GCS-LS in 12 and 24 month old rats, respectively, compared to 3 month old rats).",n/a
 GCLM,10.1016/s0891-5849(99)00269-5,rat,F344,all,33.0%,<0.05,lung,n/a,n/a,3,24,n/a,n/a,months,decreased gene expression,n/a,n/a,ANOVA,mRNA,northern blot,"In lung tissues however, only GCS-LS mRNA content was found to be significantly decreased (33%) in old rats compared to young and adult rats.",n/a
 ERCC3,10.1096/fj.14.10.1325,human,n/a,all,64.0%,<0.002,skin fibroblasts,21,63,n/a,n/a,49,69,years,decreased gene expression,6,6,ANOVA with Fisher and Bonferroni/Dunn post hoc analysis,mRNA,northern blot,"The study took primary fibroblasts from human skin. There were three age groups, for the formation of each cells derived from 6 donors: 1 - newborns, 2 - young adults (21–34 years old) and 3 - old people (63–88 years old). In the old adult age group the ERCC3 gene mRNA level was reduced by 64% ± 11% (P",n/a
-RET,10.1002/(SICI)1097-4547(19990715)57:2<153::AID-JNR1>3.0.CO;2-A,rat,Sprague Dawley,all,50.0%,<0.05,neurons,2,n/a,n/a,30,3,n/a,months,increased gene expression,9,9,ANOVA with Fisher’s LSD,mRNA,northern blot,c-ret mRNA is upregulated in both motoneurons and primary sensory neurons of aged rats.,n/a
+RET,10.1002/(SICI)1097-4547(19990715)57:2<153::AID-JNR1>3.0.CO;2-A,rat,Sprague Dawley,all,50.0%,<0.05,neurons,2,n/a,n/a,30,3,n/a,months,increased gene expression,9,9,ANOVA, Fisher's LSD,mRNA,northern blot,c-ret mRNA is upregulated in both motoneurons and primary sensory neurons of aged rats.,n/a
 UCP2,10.1006/bbrc.2000.3859,rat,F344/N,male,60.0%,<0.001,brain,n/a,n/a,6,26,n/a,n/a,months,increased gene expression,10,9,"ANOVA, Fisher's test",mRNA,northern blot,n/a,n/a
 CDC42,10.1002/jor.20185,horse,wild type,all,7.0%,ns,cartilage,0,"7,5",3.75,11.25,"7,5",15,months,increased gene expression,8,6,"ANOVA, Tukey's test",mRNA,northern blot,"Age groups of horses: prepubescent (0-7,5 month, n=8); pubescent (7,5 to 15 months, n=6); postpubescent (15-24 months, n=6); fully mature (24 months, n=7). Mean age is not specified. The method is Northern blot. p=0.040.",n/a
 CDC42,10.1002/jor.20185,horse,wild type,all,6.0%,ns,cartilage,"7,5",15,11.25,21.5,15,24,months,decreased gene expression,6,6,"ANOVA, Tukey's test",mRNA,northern blot,"Age groups of horses: prepubescent (0-7,5 month, n=8); pubescent (7,5 to 15 months, n=6); postpubescent (15-24 months, n=6); fully mature (24 months, n=7). Mean age is not specified. The method is Northern blot. p=0.040.",n/a