Huang C, Luo WF, Ye YF, Lin L, Wang Z, Luo MH, Song QD, He XP, Chen HW, Kong Y, Tang YK. Characterization of inflammatory factor-induced changes in mesenchymal stem cell exosomes and sequencing analysis of exosomal microRNAs. World J Stem Cells 2019; 11(10): 859-890 [PMID: 31692888 DOI: 10.4252/wjsc.v11.i10.859]
Corresponding Author of This Article
Yu-Kuan Tang, MD, Doctor, Department of Minimally Invasive Interventional Radiology, Guangzhou Panyu Central Hospital, 8 East Fuyu Road, Qiaonan Street, Panyu District, Guangzhou 511400, Guangdong Province, China. tyk20126@126.com
Research Domain of This Article
Cell Biology
Article-Type of This Article
Basic Study
Open-Access Policy of This Article
This article is an open-access article which was selected by an in-house editor and fully peer-reviewed by external reviewers. It is distributed in accordance with the Creative Commons Attribution Non Commercial (CC BY-NC 4.0) license, which permits others to distribute, remix, adapt, build upon this work non-commercially, and license their derivative works on different terms, provided the original work is properly cited and the use is non-commercial. See: http://creativecommons.org/licenses/by-nc/4.0/
World J Stem Cells. Oct 26, 2019; 11(10): 859-890 Published online Oct 26, 2019. doi: 10.4252/wjsc.v11.i10.859
Table 1 Differentially expressed miRNAs
Top 10 differentially expressed miRNAs
Control group
VCAM-1 group
In the TNFα group
In the IL6 group
sRNA id
Count (16379497)
TPM
sRNA id
Count (23095609)
TPM
sRNA id
Count (20739574)
TPM
sRNA id
Count (32116232)
miR-21-5p
1544110
76933.99
miR-21-5p
1640334
70885.38
miR-21-5p
1454726
70066.87
miR-21-5p
1323387
miR-127-3p
159283
9724.54
miR-127-3p
259830
11250.19
miR-100-5p
408192
19681.79
miR-199a-3p,miR-199b-3p
317377
miR-199a-3p,miR-199b-3p
139220
8499.65
miR-199a-3p, miR-199b-3p
155376
6727.51
miR-127-3p
321306
15492.41
miR-127-3p
300549
miR-100-5p
132865
8111.67
miR-100-5p
140774
6095.27
miR-199a-3p, miR-199b-3p
271902
13110.3
miR-100-5p
265054
miR-222-3p
89564
5468.06
miR-26a-5p
107800
4667.55
miR-23a-3p
140623
6780.42
miR-34a-5p
178542
miR-26a-5p
77524
4732.99
miR-34a-5p
86786
3757.68
miR-222-3p
129932
6264.93
miR-23a-3p
144385
miR-34a-5p
76681
4681.52
miR-451a
77297
3346.83
miR-146a-5p
128078
6175.54
miR-222-3p
111957
miR-181a-5p
67287
4108
miR-23a-3p
71930
3114.44
miR-34a-5p
119952
5783.73
miR-146a-5p
100038
miR-411-5p
56606
3455.91
miR-196a-5p
63939
2768.45
miR-143-3p
101398
4889.11
miR-26a-5p
98114
miR-143-3p
49739
3036.66
miR-181a-5p
62752
2717.05
miR-26a-5p
99628
4803.76
miR-181a-5p
97685
Table 2 Top 10 differentially expressed miRNAs in each group (Poisson distribution screening)
Comparison of top 10 differentially expressed miRNAs
VCAM-1 group vs control group
TNFα group vs control group
IL6 group vs control group
miRNA id
Count(control)
Count(VCAM-1)
TPM(control)
TPM(VCAM-1)
Log2 ratio(VCAM-1/control)
Up/down-regulation(VCAM-1/control)
P
FDR
miRNA id
Count (control)
Count(TNFα)
TPM (control)
TPM (TNFα)
Log2 ratio(TNFα/control)
Up/down-regulation(TNFα/control)
P
FDR
miRNA id
Count(control)
Count(IL6)
TPM(control)
TPM(IL6)
Log2 ratio(IL6/control)
Up/down-Regulation(IL6/control)
P value
FDR
miR-146a-5p
20510
5173
1252.18
223.98
-2.483
Down
0
0
miR-146a-5p
20510
128078
1252.18
6175.54
2.302123
Up
0
0
miR-3529-3p
473
8930
28.88
278.05
3.267202
Up
0
0
miR-149-5p
4558
2391
278.27
103.53
-1.42644
Down
0
0
miR-342-3p
2117
7130
129.25
343.79
1.411363
Up
0
0
miR-320c
1276
7983
77.9
248.57
1.673957
Up
0
0
miR-222-3p
89564
48444
5468.06
2097.54
-1.38233
Down
0
0
miR-23a-3p
42777
140623
2611.62
6780.42
1.37643
Up
0
0
miR-24-3p
11151
50968
680.79
1586.99
1.221011
Up
0
0
miR-29a-3p
8451
5054
515.95
218.83
-1.23742
Down
0
0
miR-100-5p
132865
408192
8111.67
19681.79
1.278791
Up
0
0
miR-7-5p
16653
101
1016.7
3.14
-8.33891
Down
0
0
miR-451a
2760
77297
168.5
3346.83
4.311975
Up
0
0
miR-337-3p
5655
16027
345.25
772.77
1.162398
Up
0
0
miR-196a-5p
26485
11440
1616.96
356.21
-2.18248
Down
0
0
miR-490-5p
1839
475
112.27
20.57
-2.44836
Down
2.00E-305
1.20E-303
miR-409-3p
4207
11169
256.85
538.54
1.068127
Up
0
0
miR-451a
2760
1658
168.5
51.62
-1.70675
Down
0
0
miR-1246
1812
6191
110.63
268.06
1.276813
Up
1.39E-276
8.02E-275
miR-221-3p
4067
10541
248.3
508.26
1.033482
Up
0
0
miR-379-5p
13430
8083
819.93
251.68
-1.70391
Down
0
0
miR-181a-2-3p
3400
2008
207.58
86.94
-1.25558
Down
2.31E-219
1.18E-217
miR-7-5p
16653
136
1016.7
6.56
-7.27598
Down
0
0
miR-196b-5p
18735
15676
1143.81
488.1
-1.2286
Down
0
0
miR-204-5p
3116
1757
190.24
76.08
-1.32223
Down
3.36E-218
1.66E-216
miR-196a-5p
26485
8359
1616.96
403.05
-2.00425
Down
0
0
miR-424-5p
12774
11917
779.88
371.06
-1.0716
Down
0
0
miR-378e
2
817
0.12
35.37
8.203348
Up
4.36E-186
2.00E-184
miR-26b-5p
6496
3410
396.59
164.42
-1.27026
Down
0
0
miR-26b-5p
6496
6086
396.59
189.5
-1.06545
Down
0
0
Table 3 Comparison of differentially expressed angiogenesis-related miRNAs between the TNFα group and control group
miRNA id
Count (control)
Count(TNFα)
TPM (control)
TPM (TNFα)
Log2 ratio (TNFα/ control)
Up/ down-regulation (TNFα/ control)
P
FDR
hsa-miR-196a-5p
26485
8359
1616.96
403.05
-2.004253263
Down
0
0
hsa-miR-320e
161
46
9.83
2.22
-2.14663174
Down
5.95E-23
6.85E-22
Table 4 Comparison of differentially expressed angiogenesis-related miRNAs between the IL6 group and control group
miRNA id
Count (control)
Count (IL6)
TPM (control)
TPM (IL6)
Log2 ratio (IL6/control)
Up/down-regulation (IL6/control)
P
FDR
hsa-miR-196a-5p
26485
11440
1616.96
356.21
-2.182484067
Down
0
0
hsa-miR-17-5p
252
138
15.39
4.3
-1.839584667
Down
2.24E-35
2.98E-34
hsa-miR-146b-5p
78
44
4.76
1.37
-1.79678568
Down
1.08E-11
7.53E-11
hsa-miR-21-3p
440
358
26.86
11.15
-1.268415595
Down
4.66E-35
6.02E-34
hsa-miR-320e
161
153
9.83
4.76
-1.046229843
Down
1.78E-10
1.11E-09
Citation: Huang C, Luo WF, Ye YF, Lin L, Wang Z, Luo MH, Song QD, He XP, Chen HW, Kong Y, Tang YK. Characterization of inflammatory factor-induced changes in mesenchymal stem cell exosomes and sequencing analysis of exosomal microRNAs. World J Stem Cells 2019; 11(10): 859-890