Evidence map›Paper›PMID 33585235›Full record

ArticleFrontiers in oncology2020

Construction of Bone Metastasis-Specific Regulation Network Based on Prognostic Stemness-Related Signatures in Breast Invasive Carcinoma.

Runzhi Huang, Zhenyu Li, Jiayao Zhang, Zhiwei Zeng, Jiaqi Zhang, Mingxiao Li, Siqao Wang, Shuyuan Xian, Yuna Xue, Xi Chen and 6 more

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Frontiers in oncology, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.

0numbers the graph read from it
0cells of the map it votes in
7citing papers in PubMed
0.4field-weighted citation impact, top 48% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

7 citing papers in PubMed, 7 citations in OpenAlex.

  1. Article
  2. Review
  3. Article
  4. Article
  5. Review
  6. Novel insights from spatial transcriptome analysis in solid tumors.International journal of biological sciences · 2023
    Review
  7. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

16 authors at 3 institutions in 1 country.

Runzhi HuangDepartment of Orthopedics, The First Affiliated Hospital of Zhengzhou University, Zhengzhou, China.
Zhenyu LiTongji University School of Medicine, Tongji University, Shanghai, China.
Jiayao ZhangTongji University School of Mathematical Sciences, Tongji University, Shanghai, China.
Zhiwei ZengDepartment of Orthopedics, The First Affiliated Hospital of Zhengzhou University, Zhengzhou, China.
Jiaqi ZhangDepartment of Orthopedics, The First Affiliated Hospital of Zhengzhou University, Zhengzhou, China.
Mingxiao LiDepartment of Orthopedics, The First Affiliated Hospital of Zhengzhou University, Zhengzhou, China.
Siqao WangTongji University School of Medicine, Tongji University, Shanghai, China.
Shuyuan XianTongji University School of Medicine, Tongji University, Shanghai, China.
Yuna XueDepartment of Orthopedics, The First Affiliated Hospital of Zhengzhou University, Zhengzhou, China.
Xi ChenDepartment of Orthopedics, The First Affiliated Hospital of Zhengzhou University, Zhengzhou, China.
Jie LiDepartment of Orthopedics, The First Affiliated Hospital of Zhengzhou University, Zhengzhou, China.
Wenjun ChengDepartment of Orthopedics, The First Affiliated Hospital of Zhengzhou University, Zhengzhou, China.
Bin WangDepartment of General Surgery, Changzheng Hospital, Second Military Medical University, Shanghai, China.
Penghui YanDepartment of Orthopedics, The First Affiliated Hospital of Zhengzhou University, Zhengzhou, China.
Daoke YangDepartment of Radiotherpy, The First Affiliated Hospital of Zhengzhou University, Zhengzhou, China.
Zongqiang HuangDepartment of Orthopedics, The First Affiliated Hospital of Zhengzhou University, Zhengzhou, China.
First Affiliated Hospital of Zhengzhou University · CNTongji University · CNSecond Military Medical University · CN

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

backgroundBone is the most common metastatic site of Breast invasive carcinoma (BRCA). In this study, the bone metastasis-specific regulation network of BRCA was constructed based on prognostic stemness-related signatures (PSRSs), their upstream transcription factors (TFs) and downstream pathways.

methodsClinical information and RNA-seq data of 1,080 primary BRCA samples (1,048 samples without bone metastasis and 32 samples with bone metastasis) were downloaded from The Cancer Genome Atlas (TCGA). The edgeR method was performed to identify differential expressed genes (DEGs). Next, mRNA stemness index (mRNAsi) was calculated by one-class logistic regression (OCLR). To analyze DEGs by classification, similar genes were integrated into the same module by weighted gene co-expression network analysis (WGCNA). Then, univariate and multivariate Cox proportional hazard regression were applied to find the PSRSs. Furthermore, PSRSs, 318 TFs obtained from Cistrome database and 50 hallmark pathways quantified by GSVA were integrated into co-expression analysis. Significant co-expression patterns were used to construct the bone metastasis-specific regulation network. Finally, spatial single-cell RNA-seq and chromatin immunoprecipitation sequence (ChIP-seq) data and multi-omics databases were applied to validate the key scientific hypothesis in the regulation network. Additionally, Connectivity Map (CMap) was utilized to select the potential inhibitors of bone metastasis-specific regulation network in BRCA.

resultsBased on edgeR and WGCNA method, 43 PSRSs were identified. In the bone metastasis-specific regulation network, MAF positively regulated CD248 (R = 0.435, P < 0.001), and hallmark apical junction was the potential pathway of CD248 (R = 0.353, P < 0.001). This regulatory pattern was supported by spatial single-cell RNA sequence, ChIP-seq data and multi-omics online databases. Additionally, alexidine was identified as the possible inhibitor for bone metastasis of BRCA by CMap analysis.

conclusionPSRSs played important roles in bone metastasis of BRCA, and the prognostic model based on PSRSs showed good performance. Especially, we proposed that CD248 was the most significant PSRS, which was positively regulated by MAF, influenced bone metastasis

Indexed as

apical junctionbone metastasisbreast invasive carcinomaCD248MAFmRNA stemness index (mRNAsi)spatial transcriptomeweighted gene co-expression network analysis (WGCNA)

Identifiers

PMID33585235
PMCPMC7875018
OpenAlexW3124440882

What OpenQuestion holds

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LicenceCC BY
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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.