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pmid:37187896

Ferroptosis-related genes in cervical cancer as biomarkers for predicting the prognosis of gynecological tumors.

Songtao Han · Senyu Wang · Xiang Lv · Dan Li · Yangchun Feng

Frontiers in molecular biosciences · 2023 doi:10.3389/fmolb.2023.1188027

Paper

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Experiment

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Data

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title
Ferroptosis-related genes in cervical cancer as biomarkers for predicting the prognosis of gynecological tumors.
doi
10.3389/fmolb.2023.1188027
pmid
37187896
authors array · 5 items
[0]
Songtao Han
[1]
Senyu Wang
[2]
Xiang Lv
[3]
Dan Li
[4]
Yangchun Feng
journal
Frontiers in molecular biosciences
year
2023
abstract
Background: Ferroptosis has been identified as a potent predictor of cancer prognosis. Currently, cervical cancer ranks among the most prevalent malignant tumors in women. Enhancing the prognosis for patients experiencing metastasis or recurrence is of critical importance. Consequently, investigating the potential of ferroptosis-related genes (FRGs) as prognostic biomarkers for cervical cancer patients is essential. Methods: In this study, 52 FRGs were obtained from the GSE9750, GSE7410, GSE63514, and FerrDb databases. Six genes possessing prognostic characteristics were identified: JUN, TSC22D3, SLC11A2, DDIT4, DUOX1, and HELLS. The multivariate Cox regression analysis was employed to establish and validate the prognostic model, while simultaneously performing a correlation analysis of the immune microenvironment. Results: The prediction model was validated using TCGA-CESC and GSE44001 datasets. Furthermore, the prognostic model was validated in endometrial cancer and ovarian serous cystadenocarcinoma cases. KM curves revealed significant differences in OS between high-risk and low-risk groups. ROC curves demonstrated the stability and accuracy of the prognostic model established in this study. Concurrently, the research identified a higher proportion of immune cells in patients within the low-risk group. Additionally, the expression of immune checkpoints (TIGIT, CTLA4, BTLA, CD27, and CD28) was elevated in the low-risk group. Ultimately, 4 FRGs in cervical cancer were corroborated through qRT-PCR. Conclusion: The FRGs prognostic model for cervical cancer not only exhibits robust stability and accuracy in predicting the prognosis of cervical cancer patients but also demonstrates considerable prognostic value in other gynecological tumors.
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The multivariate Cox regression analysis was employed to establish and validate the prognostic model, while simultaneously performing a correlation analysis of the immune microenvironment.
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The original contributions presented in the study are included in the article/Supplementary Material, further inquiries can be directed to the corresponding author.
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GSM178834
[7]
GSM178835
[8]
GSM178836
[9]
GSM178837
[10]
GSM178838
[11]
GSM178839
[12]
GSM178840
[13]
GSM178841
[14]
GSM178842
[15]
GSM178843
[16]
GSM178844
[17]
GSM178845
[18]
GSM178846
[19]
GSM178847
[20]
GSM178848
[21]
GSM178849
[22]
GSM178850
[23]
GSM178851
[24]
GSM178852
[25]
GSM178853
[26]
GSM178854
[27]
GSM178855
[28]
GSM178856
[29]
GSM178857
[30]
GSM178858
[31]
GSM178859
[32]
GSM178860
[33]
GSM178861
[34]
GSM178862
[35]
GSM178863
[36]
GSM178864
[37]
GSM178865
[38]
GSM178866
[39]
GSM178867
[40]
GSM178868
[41]
GSM178869
[42]
GSM178870
[43]
GSM178871
[44]
GSM178872
sample_count
45
group_sizes
null
group_sizes_basis
null
platform
1708
taxon
Homo sapiens
title
Gene expression in early stage cervical cancer
resolution_checked_at
2026-11-01T15:39:55Z
resolution_check
identifier_resolution_only_no_download_no_licence_read
downloaded
false
licence_read
false
[4] object · 15 fields
id
data:geo:GSE9750
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=GSE9750
sha256
null
bytes
null
access
open
state
resolved
reader
null
reader_status
reader_required
identifier
GSE9750
version
null
note
The original contributions presented in the study are included in the article/Supplementary Material, further inquiries can be directed to the corresponding author.
structure object · 15 fields
repository
GEO
access_route
GEO accession URL
access_statement_verbatim
The original contributions presented in the study are included in the article/Supplementary Material, further inquiries can be directed to the corresponding author.
access_statement_kind
data_availability_statement
sample_accessions array · 66 items
[0]
GSM246087
[1]
GSM246088
[2]
GSM246089
[3]
GSM246090
[4]
GSM246119
[5]
GSM246120
[6]
GSM246121
[7]
GSM246122
[8]
GSM246123
[9]
GSM246422
[10]
GSM246423
[11]
GSM246484
[12]
GSM246485
[13]
GSM246486
[14]
GSM246487
[15]
GSM246488
[16]
GSM246489
[17]
GSM246490
[18]
GSM246491
[19]
GSM247162
[20]
GSM247163
[21]
GSM247164
[22]
GSM247165
[23]
GSM247166
[24]
GSM247168
[25]
GSM247169
[26]
GSM247171
[27]
GSM247173
[28]
GSM247174
[29]
GSM247175
[30]
GSM247188
[31]
GSM247189
[32]
GSM247190
[33]
GSM247650
[34]
GSM247651
[35]
GSM247652
[36]
GSM247653
[37]
GSM247654
[38]
GSM247655
[39]
GSM247656
[40]
GSM247657
[41]
GSM247658
[42]
GSM247659
[43]
GSM247660
[44]
GSM247661
[45]
GSM247662
[46]
GSM247663
[47]
GSM247856
[48]
GSM247857
[49]
GSM247859
[50]
GSM247860
[51]
GSM247862
[52]
GSM247864
[53]
GSM247865
[54]
GSM247866
[55]
GSM247876
[56]
GSM247877
[57]
GSM247878
[58]
GSM247879
[59]
GSM247881
[60]
GSM247882
[61]
GSM247883
[62]
GSM247884
[63]
GSM247885
[64]
GSM247886
[65]
GSM247887
sample_count
66
group_sizes
null
group_sizes_basis
null
platform
96
taxon
Homo sapiens
title
Identification of gene expression profiles in cervical cancer
resolution_checked_at
2026-11-01T15:39:55Z
resolution_check
identifier_resolution_only_no_download_no_licence_read
downloaded
false
licence_read
false
gaps array · 8 items
[0]
asset:data:geo:GSE44001 not downloaded
[1]
asset:data:geo:GSE44001 licence not read
[2]
asset:data:geo:GSE63514 not downloaded
[3]
asset:data:geo:GSE63514 licence not read
[4]
asset:data:geo:GSE7410 not downloaded
[5]
asset:data:geo:GSE7410 licence not read
[6]
asset:data:geo:GSE9750 not downloaded
[7]
asset:data:geo:GSE9750 licence not read
analysis object · 4 fields
state
complete
methods array · 6 items
[0] object · 10 fields
id
method-1
family
survival_analysis
specific
cox_proportional_hazards
label
Survival analysis
dsl_operations array · 1 item
[0]
cox_ph
missing_operations array · 0 items
parameters object · 0 fields
data_shapes array · 1 item
[0]
time_to_event_with_censoring
evidence object · 3 fields
score
1
band
verbatim
quote
The multivariate Cox regression analysis was employed to establish and validate the prognostic model, while simultaneously performing a correlation analysis of the immune microenvironment.
[1] object · 10 fields
id
method-2
family
survival_analysis
specific
kaplan_meier
label
Survival analysis
dsl_operations array · 1 item
[0]
survival_km
missing_operations array · 0 items
parameters object · 0 fields
data_shapes array · 1 item
[0]
time_to_event_with_censoring
evidence object · 3 fields
score
0.7
band
medium
quote
KM
[2] object · 10 fields
id
method-3
family
differential_expression
specific
edger
label
Differential expression analysis
dsl_operations array · 3 items
[0]
normalise_counts
[1]
differential_expression_fit
[2]
fdr_bh
missing_operations array · 0 items
parameters object · 1 field
fold_change
th a threshold of |Log (FC)|>1 and p adj<0
data_shapes array · 1 item
[0]
count_matrix_with_condition
evidence object · 3 fields
score
0.8
band
high
quote
edgeR
[3] object · 10 fields
id
method-4
family
network_analysis
specific
pathway_enrichment
label
Network / pathway analysis
dsl_operations array · 1 item
[0]
pathway_enrich
missing_operations array · 0 items
parameters object · 0 fields
data_shapes array · 1 item
[0]
edge_list
evidence object · 3 fields
score
0.8
band
high
quote
GO enrichment
[4] object · 10 fields
id
method-5
family
diagnostic_evaluation
specific
roc
label
Diagnostic test evaluation
dsl_operations array · 6 items
[0]
confusion_counts
[1]
roc_curve
[2]
sensitivity_specificity
[3]
solve_confusion_matrix
[4]
classification_metrics
[5]
published_precision_envelope
missing_operations array · 0 items
parameters object · 0 fields
data_shapes array · 1 item
[0]
reference_standard_and_test
evidence object · 3 fields
score
0.8
band
high
quote
ROC curve
[5] object · 10 fields
id
method-6
family
model_calibration
specific
decision_curve
label
Model calibration / clinical utility
dsl_operations array · 2 items
[0]
calibration_bins
[1]
net_benefit
missing_operations array · 0 items
parameters object · 0 fields
data_shapes array · 1 item
[0]
predictions_and_outcomes
evidence object · 3 fields
score
0.8
band
high
quote
Decision curve analysis
targets array · 0 items
gaps array · 0 items
capability object · 3 fields
state
complete
requirements array · 1 item
[0] object · 6 fields
capability_id
capability:computational_analysis
label
Computational analysis platform
assay_families array · 9 items
[0]
meta_analysis
[1]
machine_learning
[2]
survival_analysis
[3]
statistical_regression
[4]
pca
[5]
molecular_docking
[6]
network_analysis
[7]
differential_expression
[8]
gwas
candidate
Automated Assays Laravel application and simulated adapters
gaps array · 0 items
readiness object · 8 fields
state
complete
tier
R1
blocked_on
nothing:replicable_now
axes object · 3 fields
method object · 5 fields
tier
R1
expressible
true
required_operations array · 1 item
[0]
cox_ph
missing_operations array · 0 items
basis
The paper names the method it used and the corpus's method extractor maps it onto the DSL catalogue: cox_proportional_hazards.
capability object · 4 fields
tier
R1
capability_id
capability:computational_analysis
availability_state
owned
basis
The computational analysis is owned. The physical bench the paper used is not, so a physical validation cannot be run here.
data object · 6 fields
tier
R1
reachable
true
accessions array · 4 items
[0]
GSE9750
[1]
GSE7410
[2]
GSE63514
[3]
GSE44001
resolved_accessions array · 4 items
[0]
GSE9750
[1]
GSE7410
[2]
GSE63514
[3]
GSE44001
statements array · 1 item
[0]
The original contributions presented in the study are included in the article/Supplementary Material, further inquiries can be directed to the corresponding author.
basis
The paper names GSE9750, GSE7410, GSE63514, GSE44001 in GEO and the accession resolves in the repository. No dataset was downloaded and no licence was read.
can_run object · 3 fields
dsl_operations array · 1 item
[0]
cox_ph
assets array · 2 items
[0]
source:pmid:37187896
[1]
data:geo:GSE44001
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[0]
run_analysis
must_build object · 5 fields
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readers array · 0 items
capabilities array · 0 items
data_gaps array · 1 item
[0]
data:geo:GSE44001
gaps array · 0 items
review object · 5 fields
state
partial
machine_critique object · 5 fields
kind
extraction_review
reader object · 5 fields
model
MiniMax-M3.1-Flash
provider
minimax
provider_family
minimax
read_at
2026-11-01T18:40:18Z
independence
single_reader
evidence_check object · 2 fields
method
verbatim
availability
verbatim
calls
5
usage object · 3 fields
prompt_tokens
14107
completion_tokens
2049
cached_tokens
256
stages array · 1 item
[0] object · 4 fields
id
extraction
state
complete
reader
MiniMax-M3.1-Flash
provider
minimax
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review.independent_reader
[1]
review.machine_critique
[2]
review.human_critique
execution object · 5 fields
state
absent
status
not_run
mode
null
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gaps array · 1 item
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execution.not_run
provenance object · 7 fields
entities array · 3 items
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id
pmid:37187896
type
paper
label
pmid:37187896
[1] object · 3 fields
id
source:pmid:37187896
type
manuscript
label
PMID 37187896 full text
[2] object · 3 fields
id
data:geo:GSE44001
type
dataset
label
GEO GSE44001
activities array · 3 items
[0] object · 4 fields
id
activity-reading-sci-2026-11-01
type
classification
used array · 3 items
[0] object · 3 fields
id
pmid:37187896
type
paper
label
pmid:37187896
[1] object · 3 fields
id
source:pmid:37187896
type
manuscript
label
PMID 37187896 full text
[2] object · 3 fields
id
data:geo:GSE44001
type
dataset
label
GEO GSE44001
agent
agent:corpus-assay-engine
[1] object · 4 fields
id
activity-read-37187896
type
extraction
used array · 1 item
[0]
source:pmid:37187896
agent
agent:minimax-reader
[2] object · 4 fields
id
activity-resolve-GSE44001
type
accession_resolution
used array · 1 item
[0]
data:geo:GSE44001
agent
agent:corpus-assay-engine
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[0] object · 3 fields
id
agent:corpus-assay-engine
type
software
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Corpus assay engine
[1] object · 3 fields
id
agent:minimax-reader
type
software
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MiniMax literature reader
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dsl_catalogue_fingerprint
343fb30756ba6ec3
capability_table_fingerprint
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lineage object · 4 fields
parent_id
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[3]
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[4]
asset:data:geo:GSE7410 licence not read
[5]
asset:data:geo:GSE7410 not downloaded
[6]
asset:data:geo:GSE9750 licence not read
[7]
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execution.not_run
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review.human_critique
[10]
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[0] object · 11 fields
role
analysis
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survival_analysis
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f2132e96ae6c7a4e
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cox_ph
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supported
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dsl_catalogue
f2132e96ae6c7a4e
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The multivariate Cox regression analysis was employed to establish and validate the prognostic model, while simultaneously performing a correlation analysis of the immune microenvironment.
order_basis
analysis_only
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Complete file
{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:37187896", "kind": "science-record", "revision": 3, "content_hash": "sha256:5d0e2575ee7c17050e0fa3b1665e74754bc5055b25cc9e654f3f431b0b606eea", "created_at": "2026-11-01T19:01:52Z", "updated_at": "2026-11-01T22:09:28Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Ferroptosis-related genes in cervical cancer as biomarkers for predicting the prognosis of gynecological tumors.", "doi": "10.3389/fmolb.2023.1188027", "pmid": "37187896", "authors": ["Songtao Han", "Senyu Wang", "Xiang Lv", "Dan Li", "Yangchun Feng"], "journal": "Frontiers in molecular biosciences", "year": 2023, "abstract": "Background: Ferroptosis has been identified as a potent predictor of cancer prognosis. Currently, cervical cancer ranks among the most prevalent malignant tumors in women. Enhancing the prognosis for patients experiencing metastasis or recurrence is of critical importance. Consequently, investigating the potential of ferroptosis-related genes (FRGs) as prognostic biomarkers for cervical cancer patients is essential. Methods: In this study, 52 FRGs were obtained from the GSE9750, GSE7410, GSE63514, and FerrDb databases. Six genes possessing prognostic characteristics were identified: JUN, TSC22D3, SLC11A2, DDIT4, DUOX1, and HELLS. The multivariate Cox regression analysis was employed to establish and validate the prognostic model, while simultaneously performing a correlation analysis of the immune microenvironment. Results: The prediction model was validated using TCGA-CESC and GSE44001 datasets. Furthermore, the prognostic model was validated in endometrial cancer and ovarian serous cystadenocarcinoma cases. KM curves revealed significant differences in OS between high-risk and low-risk groups. ROC curves demonstrated the stability and accuracy of the prognostic model established in this study. Concurrently, the research identified a higher proportion of immune cells in patients within the low-risk group. Additionally, the expression of immune checkpoints (TIGIT, CTLA4, BTLA, CD27, and CD28) was elevated in the low-risk group. Ultimately, 4 FRGs in cervical cancer were corroborated through qRT-PCR. Conclusion: The FRGs prognostic model for cervical cancer not only exhibits robust stability and accuracy in predicting the prognosis of cervical cancer patients but also demonstrates considerable prognostic value in other gynecological tumors.", "claims": [{"id": "claim-method", "statement": "The multivariate Cox regression analysis was employed to establish and validate the prognostic model, while simultaneously performing a correlation analysis of the immune microenvironment.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37187896", "locator": "sections[0] \"Abstract\" paragraph 2", "quote": "The multivariate Cox regression analysis was employed to establish and validate the prognostic model, while simultaneously performing a correlation analysis of the immune microenvironment."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The original contributions presented in the study are included in the article/Supplementary Material, further inquiries can be directed to the corresponding author.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:37187896", "locator": "sections[21] \"Data availability statement\" paragraph 2", "quote": "The original contributions presented in the study are included in the article/Supplementary Material, further inquiries can be directed to the corresponding author."}], "state": "complete"}], "gaps": []}, "experiment": {"state": "complete", "objective": "", "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:37187896"], "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:GSE44001"], "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:GSE44001"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:37187896", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.3389/fmolb.2023.1188027", "sha256": 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directed to the corresponding author.", "structure": {"repository": "GEO", "access_route": "GEO accession URL", "access_statement_verbatim": "The original contributions presented in the study are included in the article/Supplementary Material, further inquiries can be directed to the corresponding author.", "access_statement_kind": "data_availability_statement", "sample_accessions": ["GSM1076341", "GSM1076342", "GSM1076343", "GSM1076344", "GSM1076345", "GSM1076346", "GSM1076347", "GSM1076348", "GSM1076349", "GSM1076350", "GSM1076351", "GSM1076352", "GSM1076353", "GSM1076354", "GSM1076355", "GSM1076356", "GSM1076357", "GSM1076358", "GSM1076359", "GSM1076360", "GSM1076361", "GSM1076362", "GSM1076363", "GSM1076364", "GSM1076365", "GSM1076366", "GSM1076367", "GSM1076368", "GSM1076369", "GSM1076370", "GSM1076371", "GSM1076372", "GSM1076373", "GSM1076374", "GSM1076375", "GSM1076376", "GSM1076377", "GSM1076378", "GSM1076379", "GSM1076380", "GSM1076381", "GSM1076382", "GSM1076383", 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