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pmid:31119084

Elevated limb-bud and heart development (LBH) expression indicates poor prognosis and promotes gastric cancer cell proliferation and invasion via upregulating Integrin/FAK/Akt pathway.

Ruoxi Yu · Zhi Li · Chuang Zhang · Huicong Song · Mingming Deng · Liping Sun · Ling Xu · Xiaofang Che · Xuejun Hu · Xiujuan Qu · Yunpeng Liu · Ye Zhang

PeerJ · 2019 doi:10.7717/peerj.6885

Paper

complete

Experiment

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Data

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Analysis

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title
Elevated limb-bud and heart development (LBH) expression indicates poor prognosis and promotes gastric cancer cell proliferation and invasion via upregulating Integrin/FAK/Akt pathway.
doi
10.7717/peerj.6885
pmid
31119084
authors array · 12 items
[0]
Ruoxi Yu
[1]
Zhi Li
[2]
Chuang Zhang
[3]
Huicong Song
[4]
Mingming Deng
[5]
Liping Sun
[6]
Ling Xu
[7]
Xiaofang Che
[8]
Xuejun Hu
[9]
Xiujuan Qu
[10]
Yunpeng Liu
[11]
Ye Zhang
journal
PeerJ
year
2019
abstract
The limb-bud and heart development (LBH) gene is a highly conserved, tissue-specific transcription cofactor in vertebrates that regulates multiple key genes in embryonic development. The role of LBH in various cancer types is still controversial, and its specific role and molecular mechanism in the oncogenesis of gastric cancer (GC) remains largely unexplored. In the present study, the prognostic significance and clinicopathological characteristics of LBH in GC was determined. The LBH mRNA expression was first investigated in four independent public datasets (TCGA-STAD, GSE15459, GSE29272, and GSE62254) and then validated with our samples at the protein level. LBH was overexpressed at both the mRNA and protein levels in cancer compared with normal tissues. High LBH expression was correlated with advanced T, N, and M stages. Kaplan-Meier analysis and log-rank test indicated that higher LBH expression was statistically correlated with shorter overall survival (OS) in the public datasets and our study samples. Univariate and multivariate Cox regression analysis showed that LBH was an independent prognostic biomarker for survival in TCGA-STAD, GSE15459, GSE62254 cohorts, and our GC patients. In vitro experiments showed that knockdown of LBH can significantly inhibit the proliferation and invasion of HGC-27 cells, while overexpression of LBH can significantly enhance the proliferation and invasion of BGC-823 cells. Gene Set Enrichment Analysis (GSEA), Gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomics (KEGG) indicated that high LBH expression is associated with the PI3K-Akt pathway, focal adhesion, and extracellular matrix (ECM)-receptor interaction. Western blot analysis showed that knockdown of LBH significantly inhibited the expression of integrin α5, integrin β1, p-FAK, and p-Akt. Therefore, results from the present study indicate that LBH is a potential independent prognostic biomarker and promotes proliferation and invasion of GC cells by activating the integrin/FAK/Akt pathway.
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Homo sapiens
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Affymetrix gene expression array data for cardia and non-cardia gastric cancer samples
resolution_checked_at
2026-11-01T15:39:54Z
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[3] object · 15 fields
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RNASeqV2 level3 data (STAD) of 375 GC patient samples with complete clinical data were downloaded from TCGA data portal (http://cancergenome.nih.gov/).
structure object · 15 fields
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GEO accession URL
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RNASeqV2 level3 data (STAD) of 375 GC patient samples with complete clinical data were downloaded from TCGA data portal (http://cancergenome.nih.gov/).
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repository_route_statement
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sample_count
300
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null
group_sizes_basis
null
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570
taxon
Homo sapiens
title
Molecular analysis of gastric cancer identifies discrete subtypes associated with distinct clinical characteristics and survival outcomes: the ACRG (Asian Cancer Research Group) study [gastric tumors]
resolution_checked_at
2026-11-01T15:39:55Z
resolution_check
identifier_resolution_only_no_download_no_licence_read
downloaded
false
licence_read
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section[21]/table-wrap[1]#table-1
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Univariate and multivariate OS Analysis in TCGA-STAD cohort.
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PMC6507893
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21
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LBH mRNA expression as independent predictor of OS in TCGA-STAD, GSE15459, and GSE62254 cohorts
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0
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table object · 8 fields
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Table 1
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Univariate and multivariate OS Analysis in TCGA-STAD cohort.
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section[21]/table-wrap[1]#table-1
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section[21]/table-wrap[2]#table-2
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Univariate and multivariate OS Analysis in GSE15459 cohort.
structure object · 5 fields
pmcid
PMC6507893
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21
section_title
LBH mRNA expression as independent predictor of OS in TCGA-STAD, GSE15459, and GSE62254 cohorts
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0
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table object · 8 fields
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Table 2
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Univariate and multivariate OS Analysis in GSE15459 cohort.
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section[21]/table-wrap[2]#table-2
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section[21]/table-wrap[3]#table-3
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Univariate and multivariate OS Analysis in GSE62254 cohort.
structure object · 5 fields
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PMC6507893
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21
section_title
LBH mRNA expression as independent predictor of OS in TCGA-STAD, GSE15459, and GSE62254 cohorts
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0
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table object · 8 fields
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Table 3
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Univariate and multivariate OS Analysis in GSE62254 cohort.
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section[21]/table-wrap[3]#table-3
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read_table
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section[23]/table-wrap[1]#table-4
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Clinicopathologic features of the patients in GC patients.
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PMC6507893
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23
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Correlation between LBH expression and clinicopathological parameters in patients with GC
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0
column_count
0
table object · 8 fields
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Table 4
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Clinicopathologic features of the patients in GC patients.
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section[23]/table-wrap[1]#table-4
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read_table
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section[25]/table-wrap[1]#table-5
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Univariate and multivariate OS Analysis in GC patients.
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PMC6507893
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25
section_title
LBH serves as an independent prognostic marker in GC patients
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0
column_count
0
table object · 8 fields
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Table 5
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Univariate and multivariate OS Analysis in GC patients.
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section[25]/table-wrap[1]#table-5
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asset:data:geo:GSE15459 not downloaded
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asset:data:geo:GSE15459 licence not read
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asset:data:geo:GSE29272 licence not read
[4]
asset:data:geo:GSE62254 not downloaded
[5]
asset:data:geo:GSE62254 licence not read
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complete
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method-1
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survival_analysis
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kaplan_meier
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Survival analysis
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[0]
survival_km
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parameters object · 0 fields
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[0]
time_to_event_with_censoring
evidence object · 3 fields
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Kaplan-Meier
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method-2
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survival_analysis
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Survival analysis
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[0]
cox_ph
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time_to_event_with_censoring
evidence object · 3 fields
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Cox regression
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method-3
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survival_analysis
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Survival analysis
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[0]
logrank_test
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time_to_event_with_censoring
evidence object · 3 fields
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log-rank
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method-4
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contingency_analysis
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chi_square
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Categorical (contingency table) analysis
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chi_square_test
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categorical_cross_tabulation
evidence object · 3 fields
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0.8
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high
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χ2
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complete
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capability:computational_analysis
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meta_analysis
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candidate
Automated Assays Laravel application and simulated adapters
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complete
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R1
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nothing:replicable_now
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R1
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survival_km
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The paper names the method it used and the corpus's method extractor maps it onto the DSL catalogue: kaplan_meier.
capability object · 4 fields
tier
R1
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capability:computational_analysis
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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
R1
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true
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[0]
GSE15459
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GSE29272
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GSE62254
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[0]
GSE15459
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GSE29272
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GSE62254
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[0]
RNASeqV2 level3 data (STAD) of 375 GC patient samples with complete clinical data were downloaded from TCGA data portal (http://cancergenome.nih.gov/).
basis
The paper names GSE15459, GSE29272, GSE62254 in Gene Expression Omnibus (GEO) database and the accession resolves in the repository. No dataset was downloaded and no licence was read.
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survival_km
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source:pmid:31119084
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run_analysis
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data:geo:GSE15459
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partial
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extraction_review
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MiniMax-M3.1-Flash
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minimax
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minimax
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single_reader
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extraction
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MiniMax-M3.1-Flash
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minimax
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execution.not_run
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pmid:31119084
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pmid:31119084
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source:pmid:31119084
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PMID 31119084 full text
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data:geo:GSE15459
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GEO GSE15459
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pmid:31119084
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PMID 31119084 full text
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data:geo:GSE15459
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GEO GSE15459
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agent:corpus-assay-engine
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agent:minimax-reader
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agent:corpus-assay-engine
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agent:corpus-assay-engine
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software
label
Corpus assay engine
[1] object · 3 fields
id
agent:minimax-reader
type
software
label
MiniMax literature reader
source_run_id
reading-sci-2026-11-01
dsl_catalogue_fingerprint
343fb30756ba6ec3
capability_table_fingerprint
2cb3e42f047d2ecf
snapshot_id
ba34b49490d9bfaf
lineage object · 4 fields
parent_id
pmid:31119084
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sha256:6a95f6a943667a51c9b5080809722acdc55744dc170561ea2e2a88984c9437a0
fork_of
null
gaps array · 10 items
[0]
asset:data:geo:GSE15459 licence not read
[1]
asset:data:geo:GSE15459 not downloaded
[2]
asset:data:geo:GSE29272 licence not read
[3]
asset:data:geo:GSE29272 not downloaded
[4]
asset:data:geo:GSE62254 licence not read
[5]
asset:data:geo:GSE62254 not downloaded
[6]
execution.not_run
[7]
review.human_critique
[8]
review.independent_reader
[9]
review.machine_critique
assays array · 4 items
[0] object · 11 fields
role
data_generation
definition_id
transfection
definition_version
99e1195c7d6f
required_operations array · 0 items
support_state
partial
source_hashes object · 1 field
assay_lexicon
99e1195c7d6f
confidence
0.99
evidence array · 2 items
[0]
C patients. In vitro experiments showed that knockdown of LBH can significantly inhibit the prolife
[1]
teraction. Western blot analysis showed that knockdown of LBH significantly inhibited the expressio
order_basis
paper_text_order:1380
id
assay:1
[1] object · 11 fields
role
data_generation
definition_id
western_blot
definition_version
99e1195c7d6f
required_operations array · 0 items
support_state
partial
source_hashes object · 1 field
assay_lexicon
99e1195c7d6f
confidence
0.93
evidence array · 1 item
[0]
acellular matrix (ECM)-receptor interaction. Western blot analysis showed that knockdown of LBH signif
order_basis
paper_text_order:1827
id
assay:2
[2] object · 11 fields
role
data_generation
definition_id
microarray
definition_version
99e1195c7d6f
required_operations array · 0 items
support_state
partial
source_hashes object · 1 field
assay_lexicon
99e1195c7d6f
confidence
0.93
evidence array · 1 item
[0]
data portal (http://cancergenome.nih.gov/). Microarray data set GSE15459, GSE29272 and GSE62254 wer
order_basis
paper_text_order:2394
id
assay:3
[3] object · 11 fields
role
analysis
definition_id
survival_analysis
definition_version
f2132e96ae6c7a4e
required_operations array · 1 item
[0]
survival_km
support_state
supported
source_hashes object · 1 field
dsl_catalogue
f2132e96ae6c7a4e
evidence array · 1 item
[0]
Kaplan-Meier
order_basis
consumes_earlier_output
id
assay:4
Complete file
{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:31119084", "kind": "science-record", "revision": 7, "content_hash": "sha256:acdbda40581c875fc37145606141febacf69c6c2a5145e7be675811fd00349f7", "created_at": "2026-11-01T15:40:45Z", "updated_at": "2026-11-01T21:22:13Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Elevated limb-bud and heart development (LBH) expression indicates poor prognosis and promotes gastric cancer cell proliferation and invasion via upregulating Integrin/FAK/Akt pathway.", "doi": "10.7717/peerj.6885", "pmid": "31119084", "authors": ["Ruoxi Yu", "Zhi Li", "Chuang Zhang", "Huicong Song", "Mingming Deng", "Liping Sun", "Ling Xu", "Xiaofang Che", "Xuejun Hu", "Xiujuan Qu", "Yunpeng Liu", "Ye Zhang"], "journal": "PeerJ", "year": 2019, "abstract": "The limb-bud and heart development (LBH) gene is a highly conserved, tissue-specific transcription cofactor in vertebrates that regulates multiple key genes in embryonic development. The role of LBH in various cancer types is still controversial, and its specific role and molecular mechanism in the oncogenesis of gastric cancer (GC) remains largely unexplored. In the present study, the prognostic significance and clinicopathological characteristics of LBH in GC was determined. The LBH mRNA expression was first investigated in four independent public datasets (TCGA-STAD, GSE15459, GSE29272, and GSE62254) and then validated with our samples at the protein level. LBH was overexpressed at both the mRNA and protein levels in cancer compared with normal tissues. High LBH expression was correlated with advanced T, N, and M stages. Kaplan-Meier analysis and log-rank test indicated that higher LBH expression was statistically correlated with shorter overall survival (OS) in the public datasets and our study samples. Univariate and multivariate Cox regression analysis showed that LBH was an independent prognostic biomarker for survival in TCGA-STAD, GSE15459, GSE62254 cohorts, and our GC patients. In vitro experiments showed that knockdown of LBH can significantly inhibit the proliferation and invasion of HGC-27 cells, while overexpression of LBH can significantly enhance the proliferation and invasion of BGC-823 cells. Gene Set Enrichment Analysis (GSEA), Gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomics (KEGG) indicated that high LBH expression is associated with the PI3K-Akt pathway, focal adhesion, and extracellular matrix (ECM)-receptor interaction. Western blot analysis showed that knockdown of LBH significantly inhibited the expression of integrin α5, integrin β1, p-FAK, and p-Akt. Therefore, results from the present study indicate that LBH is a potential independent prognostic biomarker and promotes proliferation and invasion of GC cells by activating the integrin/FAK/Akt pathway.", "claims": [{"id": "claim-data-access", "statement": "RNASeqV2 level3 data (STAD) of 375 GC patient samples with complete clinical data were downloaded from TCGA data portal (http://cancergenome.nih.gov/).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:31119084", "locator": "sections[3] \"Analysis of LBH expression in TCGA and GEO data sets\" paragraph 2", "quote": "RNASeqV2 level3 data (STAD) of 375 GC patient samples with complete clinical data were downloaded from TCGA data portal (http://cancergenome.nih.gov/)."}], "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:31119084"], "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:GSE15459"], "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:GSE15459"], "outputs": ["the replicated result and its comparison"], "instruments": [], "reagents": []}], "materials": [], "instruments": [], "reagents": [], "conditions": {}, "gaps": []}, "data": {"state": "partial", "assets": [{"id": "source:pmid:31119084", "role": "manuscript", "format": "xml", "media_type": "application/xml", "uri": "https://doi.org/10.7717/peerj.6885", "sha256": 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