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pmid:33336030

Clinical significance and potential mechanisms of miR-223-3p and miR-204-5p in squamous cell carcinoma of head and neck: a study based on TCGA and GEO.

Lei Zhao · Congzhe Tian · Erbin Xiao · Jinduo Du · Jingwei Liang · Xianghong Chen · Weiwei Chi

Open medicine (Warsaw, Poland) · 2020 doi:10.1515/med-2020-0146

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complete

Experiment

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Data

partial

Analysis

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Record details sci_version · id · kind · revision · content_hash · schema · created_at · updated_at · generator
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pmid:33336030
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created_at
2026-11-01T15:41:20Z
updated_at
2026-11-01T21:24:20Z
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paper object · 10 fields
state
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title
Clinical significance and potential mechanisms of miR-223-3p and miR-204-5p in squamous cell carcinoma of head and neck: a study based on TCGA and GEO.
doi
10.1515/med-2020-0146
pmid
33336030
authors array · 7 items
[0]
Lei Zhao
[1]
Congzhe Tian
[2]
Erbin Xiao
[3]
Jinduo Du
[4]
Jingwei Liang
[5]
Xianghong Chen
[6]
Weiwei Chi
journal
Open medicine (Warsaw, Poland)
year
2020
abstract
OBJECTIVE: To explore the clinical significance and mechanisms of altered miRNAs in squamous cell carcinoma of head and neck (SCCHN) and provide references for SCCHN diagnosis and prognosis. METHOD: Differential expressed miRNAs (DEMs) in SCCHN were screened through gene expression omnibus (GEO) DataSets and verified by the cancer genome atlas (TCGA) database. Next, the overall survival analysis, receiver operating characteristics, and clinical correlation analysis were adopted to filter the miRNAs with diagnostic and prognostic values. Finally, functional enrichment analyses were conducted for inquiring into the mechanisms of miRNAs. RESULTS: Total 103 DEMs (p < 0.05, fold change ≥ 2) in SCCHN were screened out from GSE124566. Partly, the expression levels of the selected (12/17) miRNAs were verified by TCGA. Followed, of the 12 miRNAs, two miRNA expression levels were associated with the overall survival, and five miRNAs showed diagnostic values (AUC ≥ 0.85). Besides, miR-223-3p and miR-204-5p expression levels were correlated to certain clinical features. Epithelial-mesenchymal transition (EMT) related biological process and energy metabolism controlling related AMPK signaling pathway might mediate the roles of miR-223-3p and miR-204-5p, respectively. CONCLUSION: With diagnostic and prognostic values, miR-223-3p and miR-204-5p may be involved in the progression of SCCHN through EMT-related biological process and energy balance related AMPK signaling pathway, respectively.
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Independent sample t-test or Mann–Whitney U test was used for measurement data and chi-square test was used for enumeration data.
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sections[9] "Statistical analysis" paragraph 2
quote
Independent sample t-test or Mann–Whitney U test was used for measurement data and chi-square test was used for enumeration data.
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Ultimately, the recently published dataset GSE124566 (published in 2020) was selected for subsequent analyses with 103 DEMs (Figure 1). Through the preliminary screening criteria (adjustment of p < 0.05 and fold change ≥2), total 103 DEMs (63 overexpressed and 40 downexpressed miRNAs) were screened out from GSE124566. For acquiring the more significant DEMs in GSE124566, the screening criteria were further narrowed down to adjust p < 0.01 and fold change ≥4. Total 18 more significant DEMs (11 overexpressed and 7 downexpressed miRNAs) were screened out and used for subsequent analyses (Figure 2).
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sections[12] "Distribution of DEMs in each included dataset" paragraph 2
quote
Ultimately, the recently published dataset GSE124566 (published in 2020) was selected for subsequent analyses with 103 DEMs (Figure 1).
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sections[13] "Details of DEMs in GSE124566" paragraph 2
quote
Through the preliminary screening criteria (adjustment of p < 0.05 and fold change ≥2), total 103 DEMs (63 overexpressed and 40 downexpressed miRNAs) were screened out from GSE124566.
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sections[13] "Details of DEMs in GSE124566" paragraph 2
quote
For acquiring the more significant DEMs in GSE124566, the screening criteria were further narrowed down to adjust p < 0.01 and fold change ≥4.
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sections[13] "Details of DEMs in GSE124566" paragraph 2
quote
Total 18 more significant DEMs (11 overexpressed and 7 downexpressed miRNAs) were screened out and used for subsequent analyses (Figure 2).
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The claim, method and evidence span published with the source article.
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the published estimate and its evidence
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Obtain the source data from the named repository
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the source data with its repository provenance
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the replicated result and its comparison
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data:geo:GSE124566
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https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE124566
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Ultimately, the recently published dataset GSE124566 (published in 2020) was selected for subsequent analyses with 103 DEMs (Figure 1). Through the preliminary screening criteria (adjustment of p < 0.05 and fold change ≥2), total 103 DEMs (63 overexpressed and 40 downexpressed miRNAs) were screened out from GSE124566. For acquiring the more significant DEMs in GSE124566, the screening criteria were further narrowed down to adjust p < 0.01 and fold change ≥4. Total 18 more significant DEMs (11 overexpressed and 7 downexpressed miRNAs) were screened out and used for subsequent analyses (Figure 2).
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Ultimately, the recently published dataset GSE124566 (published in 2020) was selected for subsequent analyses with 103 DEMs (Figure 1). Through the preliminary screening criteria (adjustment of p < 0.05 and fold change ≥2), total 103 DEMs (63 overexpressed and 40 downexpressed miRNAs) were screened out from GSE124566. For acquiring the more significant DEMs in GSE124566, the screening criteria were further narrowed down to adjust p < 0.01 and fold change ≥4. Total 18 more significant DEMs (11 overexpressed and 7 downexpressed miRNAs) were screened out and used for subsequent analyses (Figure 2).
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title
MicroRNA-204-5p is a tumor suppressor and potential therapeutic target in head and neck squamous cell carcinoma
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Comparison of miRNA expressions in different clinical features
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PMC7712329
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17
section_title
Comparison of the expression levels of miRNAs with diagnostic or prognostic values in different clinical feature groups
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26
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16
table object · 8 fields
label
Table 1
caption
Comparison of miRNA expressions in different clinical features
rows array · 26 items
[0] array · 9 items
[0]
[1]
[2]
Gender
[3]
Age (years)
[4]
Drinking
[5]
Smoking
[6]
Stage
[7]
Differentiation
[8]
Lymph node metastasis
[1] array · 14 items
[0]
Male
[1]
Female
[2]
<61
[3]
≥61
[4]
No
[5]
Yes
[6]
No
[7]
Yes
[8]
I–II
[9]
III–IV
[10]
High-medium
[11]
Low
[12]
No
[13]
Yes
[2] array · 16 items
[0]
miR-223-3p
[1]
High (n)
[2]
178
[3]
84
[4]
119
[5]
142
[6]
83
[7]
174
[8]
62
[9]
195
[10]
66
[11]
196
[12]
195
[13]
64
[14]
131
[15]
118
[3] array · 15 items
[0]
Low (n)
[1]
204
[2]
57
[3]
138
[4]
123
[5]
81
[6]
176
[7]
59
[8]
194
[9]
45
[10]
216
[11]
175
[12]
68
[13]
114
[14]
141
[4] array · 15 items
[0]
χ2
[1]
[2]
6.938
[3]
[4]
2.767
[5]
[6]
0.036
[7]
[8]
0.046
[9]
[10]
4.942
[11]
[12]
0.693
[13]
[14]
3.151
[5] array · 15 items
[0]
p
[1]
[2]
0.008
[3]
[4]
0.096
[5]
[6]
0.850
[7]
[8]
0.831
[9]
[10]
0.026
[11]
[12]
0.405
[13]
[14]
0.076
[6] array · 16 items
[0]
miR-503-5p
[1]
High (n)
[2]
180
[3]
81
[4]
138
[5]
122
[6]
83
[7]
174
[8]
82
[9]
175
[10]
55
[11]
206
[12]
192
[13]
57
[14]
116
[15]
133
[7] array · 15 items
[0]
Low (n)
[1]
200
[2]
60
[3]
118
[4]
142
[5]
81
[6]
174
[7]
39
[8]
212
[9]
56
[10]
204
[11]
176
[12]
75
[13]
127
[14]
126
[8] array · 15 items
[0]
χ2
[1]
[2]
4.178
[3]
[4]
3.078
[5]
[6]
0.017
[7]
[8]
18.750
[9]
[10]
0.017
[11]
[12]
3.142
[13]
[14]
0.655
[9] array · 15 items
[0]
p
[1]
[2]
0.041
[3]
[4]
0.079
[5]
[6]
0.898
[7]
[8]
0.000
[9]
[10]
0.897
[11]
[12]
0.076
[13]
[14]
0.418
[10] array · 16 items
[0]
miR-424-5p
[1]
High (n)
[2]
180
[3]
82
[4]
131
[5]
130
[6]
74
[7]
181
[8]
70
[9]
188
[10]
60
[11]
202
[12]
180
[13]
71
[14]
120
[15]
134
[11] array · 15 items
[0]
Low (n)
[1]
202
[2]
59
[3]
126
[4]
135
[5]
90
[6]
169
[7]
51
[8]
201
[9]
51
[10]
210
[11]
190
[12]
61
[13]
125
[14]
125
[12] array · 15 items
[0]
χ 2
[1]
[2]
5.017
[3]
[4]
0.192
[5]
[6]
1.941
[7]
[8]
3.348
[9]
[10]
0.883
[11]
[12]
1.028
[13]
[14]
0.383
[13] array · 15 items
[0]
p
[1]
[2]
0.025
[3]
[4]
0.662
[5]
[6]
0.164
[7]
[8]
0.067
[9]
[10]
0.347
[11]
[12]
0.311
[13]
[14]
0.536
[14] array · 16 items
[0]
miR-21-5p
[1]
High (n)
[2]
194
[3]
68
[4]
125
[5]
137
[6]
78
[7]
179
[8]
63
[9]
193
[10]
54
[11]
208
[12]
173
[13]
74
[14]
121
[15]
132
[15] array · 15 items
[0]
Low (n)
[1]
188
[2]
73
[3]
132
[4]
129
[5]
86
[6]
171
[7]
58
[8]
196
[9]
57
[10]
204
[11]
197
[12]
58
[13]
124
[14]
127
[16] array · 15 items
[0]
χ 2
[1]
[2]
0.270
[3]
[4]
0.429
[5]
[6]
0.573
[7]
[8]
0.222
[9]
[10]
0.118
[11]
[12]
3.370
[13]
[14]
0.125
[17] array · 15 items
[0]
p
[1]
[2]
0.604
[3]
[4]
0.512
[5]
[6]
0.449
[7]
[8]
0.638
[9]
[10]
0.731
[11]
[12]
0.066
[13]
[14]
0.723
[18] array · 16 items
[0]
miR-204-5p
[1]
High (n)
[2]
155
[3]
69
[4]
103
[5]
120
[6]
75
[7]
145
[8]
55
[9]
163
[10]
57
[11]
167
[12]
147
[13]
67
[14]
114
[15]
103
[19] array · 16 items
[0]
[1]
Low (n)
[2]
172
[3]
52
[4]
117
[5]
107
[6]
69
[7]
151
[8]
52
[9]
167
[10]
43
[11]
181
[12]
167
[13]
48
[14]
100
[15]
115
[20] array · 16 items
[0]
[1]
χ 2
[2]
[3]
3.272
[4]
[5]
1.633
[6]
[7]
0.372
[8]
[9]
0.130
[10]
[11]
2.523
[12]
[13]
4.411
[14]
[15]
1.567
[21] array · 16 items
[0]
[1]
p
[2]
[3]
0.071
[4]
[5]
0.201
[6]
[7]
0.542
[8]
[9]
0.718
[10]
[11]
0.112
[12]
[13]
0.036
[14]
[15]
0.211
[22] array · 16 items
[0]
miR-375-3p
[1]
High (n)
[2]
193
[3]
69
[4]
131
[5]
131
[6]
74
[7]
173
[8]
55
[9]
198
[10]
58
[11]
204
[12]
187
[13]
67
[14]
130
[15]
119
[23] array · 15 items
[0]
Low (n)
[1]
189
[2]
72
[3]
126
[4]
134
[5]
90
[6]
167
[7]
66
[8]
191
[9]
53
[10]
208
[11]
183
[12]
65
[13]
115
[14]
140
[24] array · 15 items
[0]
χ 2
[1]
[2]
0.104
[3]
[4]
0.124
[5]
[6]
1.469
[7]
[8]
1.095
[9]
[10]
0.262
[11]
[12]
0.002
[13]
[14]
2.550
[25] array · 15 items
[0]
p
[1]
[2]
0.747
[3]
[4]
0.725
[5]
[6]
0.226
[7]
[8]
0.295
[9]
[10]
0.609
[11]
[12]
0.966
[13]
[14]
0.110
row_count
26
column_count
16
numeric_cells
266
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2
locator
section[17]/table-wrap[1]#j_med-2020-0146_tab_001
gaps array · 2 items
[0]
asset:data:geo:GSE124566 not downloaded
[1]
asset:data:geo:GSE124566 licence not read
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state
complete
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[0] object · 10 fields
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method-1
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contingency_analysis
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Categorical (contingency table) analysis
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[0]
chi_square_test
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expressible
true
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[0]
categorical_cross_tabulation
evidence object · 3 fields
score
1
band
verbatim
quote
Independent sample t-test or Mann–Whitney U test was used for measurement data and chi-square test was used for enumeration data.
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capability object · 3 fields
state
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[0] object · 6 fields
capability_id
capability:computational_analysis
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Computational analysis platform
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[0]
meta_analysis
[1]
machine_learning
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survival_analysis
[3]
statistical_regression
[4]
pca
[5]
molecular_docking
[6]
network_analysis
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differential_expression
[8]
gwas
availability_state
owned
tier_unlocked
R1
candidate
Automated Assays Laravel application and simulated adapters
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readiness object · 8 fields
state
complete
tier
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blocking_axis
none
blocked_on
nothing:replicable_now
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tier
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[0]
chi_square_test
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basis
The paper names the method it used and the corpus's method extractor maps it onto the DSL catalogue: chi_square.
capability object · 4 fields
tier
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capability_id
capability:computational_analysis
availability_state
owned
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The computational analysis is owned. The physical bench the paper used is not, so a physical validation cannot be run here.
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tier
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[0]
GSE124566
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GSE124566
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Ultimately, the recently published dataset GSE124566 (published in 2020) was selected for subsequent analyses with 103 DEMs (Figure 1). Through the preliminary screening criteria (adjustment of p < 0.05 and fold change ≥2), total 103 DEMs (63 overexpressed and 40 downexpressed miRNAs) were screened out from GSE124566. For acquiring the more significant DEMs in GSE124566, the screening criteria were further narrowed down to adjust p < 0.01 and fold change ≥4. Total 18 more significant DEMs (11 overexpressed and 7 downexpressed miRNAs) were screened out and used for subsequent analyses (Figure 2).
basis
The paper names GSE124566 in Gene expression omnibus (GEO) DataSets and the accession resolves in the repository. No dataset was downloaded and no licence was read.
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[0]
chi_square_test
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[0]
source:pmid:33336030
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run_analysis
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Complete file 
{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:33336030", "kind": "science-record", "revision": 7, "content_hash": "sha256:d46ec591d2ea5e1b79cf3398f2f6daea8276cbaeda2e47e57f3b23d662faadef", "created_at": "2026-11-01T15:41:20Z", "updated_at": "2026-11-01T21:24:20Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Clinical significance and potential mechanisms of miR-223-3p and miR-204-5p in squamous cell carcinoma of head and neck: a study based on TCGA and GEO.", "doi": "10.1515/med-2020-0146", "pmid": "33336030", "authors": ["Lei Zhao", "Congzhe Tian", "Erbin Xiao", "Jinduo Du", "Jingwei Liang", "Xianghong Chen", "Weiwei Chi"], "journal": "Open medicine (Warsaw, Poland)", "year": 2020, "abstract": "OBJECTIVE: To explore the clinical significance and mechanisms of altered miRNAs in squamous cell carcinoma of head and neck (SCCHN) and provide references for SCCHN diagnosis and prognosis.\nMETHOD: Differential expressed miRNAs (DEMs) in SCCHN were screened through gene expression omnibus (GEO) DataSets and verified by the cancer genome atlas (TCGA) database. Next, the overall survival analysis, receiver operating characteristics, and clinical correlation analysis were adopted to filter the miRNAs with diagnostic and prognostic values. Finally, functional enrichment analyses were conducted for inquiring into the mechanisms of miRNAs.\nRESULTS: Total 103 DEMs (p < 0.05, fold change ≥ 2) in SCCHN were screened out from GSE124566. Partly, the expression levels of the selected (12/17) miRNAs were verified by TCGA. Followed, of the 12 miRNAs, two miRNA expression levels were associated with the overall survival, and five miRNAs showed diagnostic values (AUC ≥ 0.85). Besides, miR-223-3p and miR-204-5p expression levels were correlated to certain clinical features. Epithelial-mesenchymal transition (EMT) related biological process and energy metabolism controlling related AMPK signaling pathway might mediate the roles of miR-223-3p and miR-204-5p, respectively.\nCONCLUSION: With diagnostic and prognostic values, miR-223-3p and miR-204-5p may be involved in the progression of SCCHN through EMT-related biological process and energy balance related AMPK signaling pathway, respectively.", "claims": [{"id": "claim-method", "statement": "Independent sample t-test or Mann–Whitney U test was used for measurement data and chi-square test was used for enumeration data.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:33336030", "locator": "sections[9] \"Statistical analysis\" paragraph 2", "quote": "Independent sample t-test or Mann–Whitney U test was used for measurement data and chi-square test was used for enumeration data."}], "state": "complete"}, {"id": "claim-data-access", "statement": "Ultimately, the recently published dataset GSE124566 (published in 2020) was selected for subsequent analyses with 103 DEMs (Figure 1).\n\nThrough the preliminary screening criteria (adjustment of p < 0.05 and fold change ≥2), total 103 DEMs (63 overexpressed and 40 downexpressed miRNAs) were screened out from GSE124566. For acquiring the more significant DEMs in GSE124566, the screening criteria were further narrowed down to adjust p < 0.01 and fold change ≥4. Total 18 more significant DEMs (11 overexpressed and 7 downexpressed miRNAs) were screened out and used for subsequent analyses (Figure 2).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:33336030", "locator": "sections[12] \"Distribution of DEMs in each included dataset\" paragraph 2", "quote": "Ultimately, the recently published dataset GSE124566 (published in 2020) was selected for subsequent analyses with 103 DEMs (Figure 1)."}, {"asset": "source:pmid:33336030", "locator": "sections[13] \"Details of DEMs in GSE124566\" paragraph 2", "quote": "Through the preliminary screening criteria (adjustment of p < 0.05 and fold change ≥2), total 103 DEMs (63 overexpressed and 40 downexpressed miRNAs) were screened out from GSE124566."}, {"asset": "source:pmid:33336030", "locator": "sections[13] \"Details of DEMs in GSE124566\" paragraph 2", "quote": "For acquiring the more significant DEMs in GSE124566, the screening criteria were further narrowed down to adjust p < 0.01 and fold change ≥4."}, {"asset": "source:pmid:33336030", "locator": "sections[13] \"Details of DEMs in GSE124566\" paragraph 2", "quote": "Total 18 more significant DEMs (11 overexpressed and 7 downexpressed miRNAs) were screened out and used for subsequent analyses (Figure 2)."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": null, "steps": [{"id": "read_published_estimate", "order": 1, "name": "Read the published estimate from the source", "kind": "other", "state": "complete", "blocked_on": null, "description": "The claim, method and evidence span published with the source article.", "duration_hours": null, "parameters": {}, "inputs": ["source:pmid:33336030"], "outputs": ["the published estimate and its evidence"], "instruments": [], "reagents": []}, {"id": "obtain_source_data", "order": 2, "name": "Obtain the source data from the named repository", "kind": "data-preparation", "state": "complete", "blocked_on": null, "description": "The GEO series accession resolves and its sample accessions are listed. This lane did not download the dataset or read its licence.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:GSE124566"], "outputs": ["the source data with its repository provenance"], "instruments": [], "reagents": []}, {"id": "run_analysis", "order": 3, "name": "Run the published analysis", "kind": "analysis", "state": "complete", "blocked_on": null, "description": "Apply the paper's statistical method to the resolved series and compare the result with the published target.", "duration_hours": null, "parameters": {}, "inputs": ["data:geo:GSE124566"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:33336030", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.1515/med-2020-0146", "sha256": "sha256:2d2169a65b3658b995699cfa166bfa7b2676c357d530c6d181b2071ba0712e7b", "bytes": 26329, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "10.1515/med-2020-0146", "version": null, "note": "Full article fetched from PMC; the checksum covers the rendered section body, not the original XML bytes.", "structure": {"pmcid": "PMC7712329", "source": "europe_pmc_fulltext", "coverage": "whole_body_without_references", "text_hash_scope": "rendered_section_body"}}, {"id": "data:geo:GSE124566", "role": "raw", "format": "geo-series", "media_type": "application/vnd.ncbi.geo-series+json", "uri": "https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE124566", "sha256": null, "bytes": null, "access": "open", "state": "resolved", "reader": null, "reader_status": "reader_required", "identifier": "GSE124566", "version": null, "note": "Ultimately, the recently published dataset GSE124566 (published in 2020) was selected for subsequent analyses with 103 DEMs (Figure 1).\n\nThrough the preliminary screening criteria (adjustment of p < 0.05 and fold change ≥2), total 103 DEMs (63 overexpressed and 40 downexpressed miRNAs) were screened out from GSE124566. 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Total 18 more significant DEMs (11 overexpressed and 7 downexpressed miRNAs) were screened out and used for subsequent analyses (Figure 2).", "access_statement_kind": "repository_route_statement", "sample_accessions": ["GSM3536880", "GSM3536881", "GSM3536882", "GSM3536883", "GSM3536884", "GSM3536885", "GSM3536886", "GSM3536887", "GSM3536888", "GSM3536889", "GSM3536890", "GSM3536891", "GSM3536892", "GSM3536893", "GSM3536894", "GSM3536895", "GSM3536896", "GSM3536897", "GSM3536898", "GSM3536899"], "sample_count": 20, "group_sizes": null, "group_sizes_basis": null, "platform": "18402", "taxon": "Homo sapiens", "title": "MicroRNA-204-5p is a tumor suppressor and potential therapeutic target in head and neck squamous cell carcinoma", "resolution_checked_at": "2026-11-01T15:39:54Z", "resolution_check": "identifier_resolution_only_no_download_no_licence_read", "downloaded": false, "licence_read": false}}, {"id": "asset:table:pmid:33336030:1", "role": "table", "format": "jats-table", 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