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pmid:30476929

Nucleolar and Spindle Associated Protein 1 (NUSAP1) Inhibits Cell Proliferation and Enhances Susceptibility to Epirubicin In Invasive Breast Cancer Cells by Regulating Cyclin D Kinase (CDK1) and DLGAP5 Expression.

Xi Zhang · Yuliang Pan · Huiqun Fu · Juan Zhang

Medical science monitor : international medical journal of experimental and clinical research · 2018 doi:10.12659/MSM.910364

Paper

complete

Experiment

complete

Data

partial

Analysis

partial

Execution

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Record details sci_version · id · kind · revision · content_hash · schema · created_at · updated_at · generator
id
pmid:30476929
kind
science-record
content_hash
sha256:8bdce9637e9c81772f59bd72903b1065497569ea2a790983e64ff69d0992f710
schema
https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json
created_at
2026-11-01T15:40:39Z
updated_at
2026-11-01T21:21:47Z
generator object · 2 fields
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corpus-assay-engine
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reading-sci-2026-11-01
paper object · 10 fields
state
complete
title
Nucleolar and Spindle Associated Protein 1 (NUSAP1) Inhibits Cell Proliferation and Enhances Susceptibility to Epirubicin In Invasive Breast Cancer Cells by Regulating Cyclin D Kinase (CDK1) and DLGAP5 Expression.
doi
10.12659/MSM.910364
pmid
30476929
authors array · 4 items
[0]
Xi Zhang
[1]
Yuliang Pan
[2]
Huiqun Fu
[3]
Juan Zhang
journal
Medical science monitor : international medical journal of experimental and clinical research
year
2018
abstract
BACKGROUND Differentially expressed genes (DEGs) of IBC were selected from the Gene Expression Omnibus (GEO) chip data: GSE21422 and GSE21974. Network analysis of the DEGs and IBC-related genes was performed in STRING database to find the core gene. Thus, this study aimed to determine the role of NUSAP1 in invasive breast cancer (IBC) and to investigate its effect on drug susceptibility to epirubicin (E-ADM). MATERIAL AND METHODS The mRNA expression of NUSAP1 was determined by quantitative polymerase chain reaction (q-PCR). The protein expression was detected by Western blotting. Cell growth and growth cycle were detected by MTT assay and flow cytometry, respectively. Cell migration and invasion were tested by Transwell assay. RESULTS Through use of gene network analysis, we found that NUSAP1 interacts with IBC-related genes. NUSAP1 presented high expression in IBC tissue samples and MCF-7 cells. NUSAP1 overexpression promoted the growth, migration, and invasion of MCF-7 cells. While NUSAP1 gene silencing downregulated the expression of genes associated with cell cycle progression in G2/M phase, cyclin D kinase (CDK1) and DLGAP5 arrested cells in G2/M phase and significantly inhibited the growth, migration, and invasion of MCF-7 cells. si-NUSAP1 increased the susceptibility of MCF-7 cells to E-ADM-induced apoptosis. CONCLUSIONS Our study provides evidence that downregulation of NUSAP1 can inhibit the proliferation, migration, and invasion of IBC cells by regulating CDK1 and DLGAP5 expression and enhances the drug susceptibility to E-ADM.
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Measurement data are expressed as mean ± standard deviation (SD) and were analyzed by t test.
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methodological
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sections[15] "Statistical analysis" paragraph 2
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Measurement data are expressed as mean ± standard deviation (SD) and were analyzed by t test.
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The data set GSE21974 was obtained from the Gene Expression Omnibus (GEO) (http://www.nebi.nlm.nih.gov/geo) with “invasive breast cancer” and/or “neoadjuvant chemotherapy” as the key words. The chip platform was Agilent-014850 Whole Human Genome Microarray 4×44k G4112F (GPL 6480). GSE21974 included 57 samples (32 invasive breast cancer samples before treatment and 25 invasive breast cancer samples after treatment).
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methodological
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sections[3] "Gene chip data processing" paragraph 2
quote
The data set GSE21974 was obtained from the Gene Expression Omnibus (GEO) (http://www.nebi.nlm.nih.gov/geo) with “invasive breast cancer” and/or “neoadjuvant chemotherapy” as the key words. The chip platform was Agilent-014850 Whole Human Genome Microarray 4×44k G4112F (GPL 6480). GSE21974 included 57 samples (32 invasive breast cancer samples before treatment and 25 invasive breast cancer samples after treatment).
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https://doi.org/10.12659/MSM.910364
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The data set GSE21974 was obtained from the Gene Expression Omnibus (GEO) (http://www.nebi.nlm.nih.gov/geo) with “invasive breast cancer” and/or “neoadjuvant chemotherapy” as the key words. The chip platform was Agilent-014850 Whole Human Genome Microarray 4×44k G4112F (GPL 6480). GSE21974 included 57 samples (32 invasive breast cancer samples before treatment and 25 invasive breast cancer samples after treatment).
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GEO
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The data set GSE21974 was obtained from the Gene Expression Omnibus (GEO) (http://www.nebi.nlm.nih.gov/geo) with “invasive breast cancer” and/or “neoadjuvant chemotherapy” as the key words. The chip platform was Agilent-014850 Whole Human Genome Microarray 4×44k G4112F (GPL 6480). GSE21974 included 57 samples (32 invasive breast cancer samples before treatment and 25 invasive breast cancer samples after treatment).
access_statement_kind
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GSM535604
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GSM535616
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GSM535618
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GSM535619
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GSM535620
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GSM535621
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GSM535622
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19
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null
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null
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570
taxon
Homo sapiens
title
Expression profiling of human DCIS and invasive ductal breast carcinoma
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2026-11-01T15:39:54Z
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The data set GSE21974 was obtained from the Gene Expression Omnibus (GEO) (http://www.nebi.nlm.nih.gov/geo) with “invasive breast cancer” and/or “neoadjuvant chemotherapy” as the key words. The chip platform was Agilent-014850 Whole Human Genome Microarray 4×44k G4112F (GPL 6480). GSE21974 included 57 samples (32 invasive breast cancer samples before treatment and 25 invasive breast cancer samples after treatment).
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The data set GSE21974 was obtained from the Gene Expression Omnibus (GEO) (http://www.nebi.nlm.nih.gov/geo) with “invasive breast cancer” and/or “neoadjuvant chemotherapy” as the key words. The chip platform was Agilent-014850 Whole Human Genome Microarray 4×44k G4112F (GPL 6480). GSE21974 included 57 samples (32 invasive breast cancer samples before treatment and 25 invasive breast cancer samples after treatment).
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GSM546381
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GSM546400
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GSM546433
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GSM546434
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GSM546435
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GSM546436
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GSM546437
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57
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null
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null
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6480
taxon
Homo sapiens
title
Molecular Subtype Predicts Response to Neoadjuvant Chemotherapy in Breast Cancer
resolution_checked_at
2026-11-01T15:39:54Z
resolution_check
identifier_resolution_only_no_download_no_licence_read
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[3] object · 16 fields
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asset:table:pmid:30476929:1
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List of detailed genes selected by network-based meta-analysis in the study.
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PMC6278864
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26
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Supplementary Tables
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57
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6
table object · 8 fields
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Supplementary Table 1.
caption
List of detailed genes selected by network-based meta-analysis in the study.
rows array · 57 items
[0] array · 6 items
[0]
Name
[1]
Name
[2]
Name
[3]
Name
[4]
Name
[5]
Name
[1] array · 6 items
[0]
IGF1
[1]
IGFBP4
[2]
OLFML3
[3]
ZBTB16
[4]
COPZ2
[5]
KERA
[2] array · 6 items
[0]
C19orf80
[1]
SLC2A4
[2]
ATP1B2
[3]
FAM72D
[4]
ENPP2
[5]
C2orf40
[3] array · 6 items
[0]
VWF
[1]
OAF
[2]
MRAP
[3]
CDK1
[4]
FOXM1
[5]
TNIP3
[4] array · 6 items
[0]
COL14A1
[1]
FBLN1
[2]
EXO1
[3]
PTTG2
[4]
DGAT2
[5]
HJURP
[5] array · 6 items
[0]
NCAPH
[1]
MMP23B
[2]
OIP5
[3]
CCL20
[4]
KIF4A
[5]
C3
[6] array · 6 items
[0]
PPAP2A
[1]
LPL
[2]
PLIN1
[3]
IL33
[4]
KL
[5]
RRAD
[7] array · 6 items
[0]
SDPR
[1]
KIF11
[2]
HAPLN1
[3]
PLK1
[4]
EPHX1
[5]
DMRT2
[8] array · 6 items
[0]
CD36
[1]
AKAP12
[2]
RAD51
[3]
PBK
[4]
CXCL14
[5]
ATOH8
[9] array · 6 items
[0]
FXYD1
[1]
SCRN2
[2]
AOC3
[3]
SPAG5
[4]
PDGFRL
[5]
TUSC5
[10] array · 6 items
[0]
GDF10
[1]
LAMA2
[2]
C15orf42
[3]
MME
[4]
KCNB1
[5]
CLDN19
[11] array · 6 items
[0]
RAD54L
[1]
SFRP4
[2]
C1QTNF7
[3]
MMRN1
[4]
RDH5
[5]
AQP7P2
[12] array · 6 items
[0]
UHRF1
[1]
MCM10
[2]
CMA1
[3]
ABLIM3
[4]
MAOA
[5]
GSTM2
[13] array · 6 items
[0]
TNNT3
[1]
DARC
[2]
F10
[3]
PCOLCE
[4]
CA4
[5]
TPX2
[14] array · 6 items
[0]
KIF23
[1]
PRC1
[2]
ESCO2
[3]
HIST1H1B
[4]
G0S2
[5]
CCNA2
[15] array · 6 items
[0]
FAM64A
[1]
CD300LG
[2]
CES1
[3]
TSHZ2
[4]
ELTD1
[5]
TSC22D3
[16] array · 6 items
[0]
TGFBR3
[1]
ALDH1A1
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TFPI
[3]
SAMD5
[4]
CA3
[5]
NUSAP1
[17] array · 6 items
[0]
PDE2A
[1]
LEP
[2]
PTTG1
[3]
C16orf89
[4]
MMP11
[5]
TMEM100
[18] array · 6 items
[0]
ITIH5
[1]
JAM2
[2]
C1QTNF9B
[3]
LUZP2
[4]
TIMP4
[5]
FAM83D
[19] array · 6 items
[0]
FHL1
[1]
MEOX2
[2]
CENPA
[3]
ACACB
[4]
APOD
[5]
SERPING1
[20] array · 6 items
[0]
AKR1C3
[1]
ROBO4
[2]
PHYHIP
[3]
CAV2
[4]
ELN
[5]
EMX2
[21] array · 6 items
[0]
CEP55
[1]
LDB2
[2]
GSC
[3]
PODN
[4]
PTN
[5]
FLNC
[22] array · 6 items
[0]
TROAP
[1]
THRSP
[2]
RPSA
[3]
NNAT
[4]
CAMK1
[5]
PDLIM1
[23] array · 6 items
[0]
DLGAP5
[1]
C16orf59
[2]
RERGL
[3]
MMP1
[4]
FREM1
[5]
PCK1
[24] array · 6 items
[0]
HRC
[1]
CDCA8
[2]
ZWINT
[3]
CFD
[4]
PAMR1
[5]
CYP4F22
[25] array · 6 items
[0]
CDCA5
[1]
BLM
[2]
RBP4
[3]
CENPE
[4]
AKR1C1
[5]
FIGF
[26] array · 6 items
[0]
IGFBP6
[1]
PPARG
[2]
CKS2
[3]
OMD
[4]
HOXA5
[5]
1-Mar
[27] array · 6 items
[0]
TK1
[1]
CD34
[2]
SEMA3G
[3]
CKMT2
[4]
ERCC6L
[5]
DEPDC1B
[28] array · 6 items
[0]
TSPAN7
[1]
VWCE
[2]
DEPDC1
[3]
ANGPTL1
[4]
HABP4
[5]
CCDC8
[29] array · 6 items
[0]
ASPM
[1]
RDM1
[2]
CYGB
[3]
PID1
[4]
ZNF695
[5]
ART5
[30] array · 6 items
[0]
GPC3
[1]
DPT
[2]
CPZ
[3]
AGPAT2
[4]
ITGA7
[5]
NMU
[31] array · 6 items
[0]
E2F1
[1]
FAM54A
[2]
OGN
[3]
HSPB7
[4]
PPP1R1A
[5]
LHX2
[32] array · 6 items
[0]
POLQ
[1]
MATN2
[2]
SCN2B
[3]
NPR1
[4]
FABP4
[5]
MYOM2
[33] array · 6 items
[0]
CLDN5
[1]
PLIN4
[2]
ASPA
[3]
NDN
[4]
ACADS
[5]
SOX11
[34] array · 6 items
[0]
HMMR
[1]
FANCA
[2]
ABCA8
[3]
LOC100128164
[4]
RARRES2
[5]
CFHR4
[35] array · 6 items
[0]
KIF2C
[1]
NGFR
[2]
SLIT2
[3]
KIFC1
[4]
MYZAP
[5]
TREM1
[36] array · 6 items
[0]
CDKN1C
[1]
MAB21L1
[2]
PTH1R
[3]
PDGFD
[4]
GIMAP7
[5]
TTK
[37] array · 6 items
[0]
EMCN
[1]
CIDEC
[2]
MFAP4
[3]
LRRC17
[4]
MMP2
[5]
LGALS12
[38] array · 6 items
[0]
EZH2
[1]
NEK2
[2]
BMX
[3]
MYOC
[4]
GAS6
[5]
PDZRN3
[39] array · 6 items
[0]
IL11RA
[1]
OSR1
[2]
H19
[3]
MEOX1
[4]
MELK
[5]
ANGPTL7
[40] array · 6 items
[0]
HSPA12B
[1]
C7
[2]
MAMDC2
[3]
CDH5
[4]
MYH11
[5]
MYRIP
[41] array · 6 items
[0]
FLRT2
[1]
RNASE4
[2]
RHOJ
[3]
CENPF
[4]
DAAM2
[5]
CITED1
[42] array · 6 items
[0]
BTNL9
[1]
TNMD
[2]
C4orf49
[3]
C1orf115
[4]
BOC
[5]
CDKN3
[43] array · 6 items
[0]
SGOL1
[1]
SKA3
[2]
VIPR2
[3]
C5orf46
[4]
CMTM5
[5]
TCEA2
[44] array · 6 items
[0]
CLEC14A
[1]
EBF1
[2]
CLEC3B
[3]
EBF3
[4]
DENND2A
[5]
HLF
[45] array · 6 items
[0]
CCDC80
[1]
CDO1
[2]
CIDECP
[3]
GPX3
[4]
TPO
[5]
BCHE
[46] array · 6 items
[0]
DTL
[1]
ABCA9
[2]
DIO3OS
[3]
OLR1
[4]
CRTAC1
[5]
MIR143HG
[47] array · 6 items
[0]
SLC25A18
[1]
ITM2A
[2]
E2F8
[3]
CDC25C
[4]
EDN3
[5]
ANLN
[48] array · 6 items
[0]
BIRC5
[1]
SHE
[2]
RAMP3
[3]
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[4]
TPSAB1
[5]
MMP12
[49] array · 6 items
[0]
ADIPOQ
[1]
IL1B
[2]
E2F7
[3]
C18orf34
[4]
HAMP
[5]
PEBP4
[50] array · 6 items
[0]
GPD1
[1]
GUCA2B
[2]
SPC25
[3]
GPIHBP1
[4]
LOC572558
[5]
LYVE1
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[0]
CAV1
[1]
PYGM
[2]
GSTM5
[3]
PCDH12
[4]
LOC100507537
[5]
ANKRD29
[52] array · 6 items
[0]
NCAPG
[1]
ADH1A
[2]
ABCB1
[3]
KIF18A
[4]
IGF2
[5]
4-Sep
[53] array · 6 items
[0]
GPAM
[1]
ZCCHC24
[2]
SRPX
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CDCA2
[4]
RSPO3
[5]
GTSE1
[54] array · 6 items
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UBE2C
[1]
ADH1C
[2]
AVPR2
[3]
CKAP2L
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FGF2
[5]
PLP1
[55] array · 6 items
[0]
SCN4B
[1]
PKMYT1
[2]
SELP
[3]
CPXM1
[4]
TF
[5]
KIF20A
[56] array · 6 items
[0]
CDC45
[1]
UBE2T
[2]
DNASE1L3
[3]
CDCA3
[4]
SFRP2
[5]
BUB1
locator
section[26]/table-wrap[1]#t1-medscimonit-24-8553
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asset:table:pmid:30476929:2
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section[26]/table-wrap[2]#t2-medscimonit-24-8553
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null
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IBC-related genes were downloaded from the../../../../Documents/tencent files/1002826528/filerecv/the database.
structure object · 5 fields
pmcid
PMC6278864
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26
section_title
Supplementary Tables
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Supplementary Table 2.
caption
IBC-related genes were downloaded from the../../../../Documents/tencent files/1002826528/filerecv/the database.
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Name
[1] array · 2 items
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ERBB2
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CD324
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EGFR
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GFRP1
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ESR1
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PPIG
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[0]
NR3C3
[1]
RAD1
locator
section[26]/table-wrap[2]#t2-medscimonit-24-8553
gaps array · 4 items
[0]
asset:data:geo:GSE21422 not downloaded
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asset:data:geo:GSE21422 licence not read
[2]
asset:data:geo:GSE21974 not downloaded
[3]
asset:data:geo:GSE21974 licence not read
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method-1
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null
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t test
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score
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verbatim
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Measurement data are expressed as mean ± standard deviation (SD) and were analyzed by t test.
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method.reader_named_unmapped
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meta_analysis
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machine_learning
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survival_analysis
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statistical_regression
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pca
[5]
molecular_docking
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network_analysis
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differential_expression
[8]
gwas
candidate
Automated Assays Laravel application and simulated adapters
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readiness object · 8 fields
state
blocked
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R4
blocking_axis
method
blocked_on
method:not_determinable
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R4
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false
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missing_operations array · 0 items
basis
The reader quoted the method the paper names (t test), but the corpus's method extractor could not map it onto a DSL operation, so the method is published but not expressible.
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 · 2 items
[0]
GSE21974
[1]
GSE21422
resolved_accessions array · 2 items
[0]
GSE21974
[1]
GSE21422
statements array · 1 item
[0]
The data set GSE21974 was obtained from the Gene Expression Omnibus (GEO) (http://www.nebi.nlm.nih.gov/geo) with “invasive breast cancer” and/or “neoadjuvant chemotherapy” as the key words. The chip platform was Agilent-014850 Whole Human Genome Microarray 4×44k G4112F (GPL 6480). GSE21974 included 57 samples (32 invasive breast cancer samples before treatment and 25 invasive breast cancer samples after treatment).
basis
The paper names GSE21974, GSE21422 in Gene Expression Omnibus (GEO) and the accession resolves in the repository. No dataset was downloaded and no licence was read.
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source:pmid:30476929
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data:geo:GSE21422
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asset:table:pmid:30476929:1
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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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independence
single_reader
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verbatim
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null
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21453
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complete
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review.independent_reader
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review.machine_critique
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not_run
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execution.not_run
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pmid:30476929
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paper
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pmid:30476929
[1] object · 3 fields
id
source:pmid:30476929
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manuscript
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PMID 30476929 full text
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data:geo:GSE21422
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dataset
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GEO GSE21422
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activity-reading-sci-2026-11-01
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pmid:30476929
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pmid:30476929
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id
source:pmid:30476929
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PMID 30476929 full text
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data:geo:GSE21422
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GEO GSE21422
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agent:corpus-assay-engine
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activity-read-30476929
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agent:minimax-reader
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activity-resolve-GSE21422
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accession_resolution
used array · 1 item
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data:geo:GSE21422
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agent:corpus-assay-engine
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agent:corpus-assay-engine
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agent:minimax-reader
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343fb30756ba6ec3
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pmid:30476929
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sha256:2f98e079cfcd219a3ec058caf5d40f1cbc4a1041cf436f15fe661225433b8822
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asset:data:geo:GSE21422 licence not read
[1]
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[2]
asset:data:geo:GSE21974 licence not read
[3]
asset:data:geo:GSE21974 not downloaded
[4]
execution.not_run
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method.reader_named_unmapped
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review.human_critique
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western_blot
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99e1195c7d6f
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99e1195c7d6f
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0.93
evidence array · 1 item
[0]
PCR). The protein expression was detected by Western blotting. Cell growth and growth cycle were detected
order_basis
paper_text_order:738
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assay:1
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data_generation
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apoptosis_assay
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99e1195c7d6f
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99e1195c7d6f
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[0]
sceptibility of MCF-7 cells to E-ADM-induced apoptosis. CONCLUSIONS Our study provides evidence tha
[1]
ell growth and growth cycle were detected by MTT assay and flow cytometry, respectively. Cell
order_basis
paper_text_order:802
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assay:2
[2] object · 11 fields
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99e1195c7d6f
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growth cycle were detected by MTT assay and flow cytometry, respectively. Cell migration and invasion w
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cell_culture
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[0]
ed high expression in IBC tissue samples and MCF-7 cells. NUSAP1 overexpression promoted the gr
[1]
moted the growth, migration, and invasion of MCF-7 cells. While NUSAP1 gene silencing downregul
[2]
bited the growth, migration, and invasion of MCF-7 cells. si-NUSAP1 increased the susceptibilit
[3]
s. si-NUSAP1 increased the susceptibility of MCF-7 cells to E-ADM-induced apoptosis. CONCLUSION
order_basis
paper_text_order:1066
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assay:4
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data_generation
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microarray
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99e1195c7d6f
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99e1195c7d6f
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0.93
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atform was Agilent-014850 Whole Human Genome Microarray 4×44k G4112F (GPL 6480). GSE21974 included 5
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Complete file
{"sci_version": "1.2", "schema": "https://corpus.bntrg.co.uk/sci/1.0/sci.schema.json", "id": "pmid:30476929", "kind": "science-record", "revision": 7, "content_hash": "sha256:8bdce9637e9c81772f59bd72903b1065497569ea2a790983e64ff69d0992f710", "created_at": "2026-11-01T15:40:39Z", "updated_at": "2026-11-01T21:21:47Z", "generator": {"name": "corpus-assay-engine", "run_id": "reading-sci-2026-11-01"}, "paper": {"state": "complete", "title": "Nucleolar and Spindle Associated Protein 1 (NUSAP1) Inhibits Cell Proliferation and Enhances Susceptibility to Epirubicin In Invasive Breast Cancer Cells by Regulating Cyclin D Kinase (CDK1) and DLGAP5 Expression.", "doi": "10.12659/MSM.910364", "pmid": "30476929", "authors": ["Xi Zhang", "Yuliang Pan", "Huiqun Fu", "Juan Zhang"], "journal": "Medical science monitor : international medical journal of experimental and clinical research", "year": 2018, "abstract": "BACKGROUND Differentially expressed genes (DEGs) of IBC were selected from the Gene Expression Omnibus (GEO) chip data: GSE21422 and GSE21974. Network analysis of the DEGs and IBC-related genes was performed in STRING database to find the core gene. Thus, this study aimed to determine the role of NUSAP1 in invasive breast cancer (IBC) and to investigate its effect on drug susceptibility to epirubicin (E-ADM). MATERIAL AND METHODS The mRNA expression of NUSAP1 was determined by quantitative polymerase chain reaction (q-PCR). The protein expression was detected by Western blotting. Cell growth and growth cycle were detected by MTT assay and flow cytometry, respectively. Cell migration and invasion were tested by Transwell assay. RESULTS Through use of gene network analysis, we found that NUSAP1 interacts with IBC-related genes. NUSAP1 presented high expression in IBC tissue samples and MCF-7 cells. NUSAP1 overexpression promoted the growth, migration, and invasion of MCF-7 cells. While NUSAP1 gene silencing downregulated the expression of genes associated with cell cycle progression in G2/M phase, cyclin D kinase (CDK1) and DLGAP5 arrested cells in G2/M phase and significantly inhibited the growth, migration, and invasion of MCF-7 cells. si-NUSAP1 increased the susceptibility of MCF-7 cells to E-ADM-induced apoptosis. CONCLUSIONS Our study provides evidence that downregulation of NUSAP1 can inhibit the proliferation, migration, and invasion of IBC cells by regulating CDK1 and DLGAP5 expression and enhances the drug susceptibility to E-ADM.", "claims": [{"id": "claim-method", "statement": "Measurement data are expressed as mean ± standard deviation (SD) and were analyzed by t test.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:30476929", "locator": "sections[15] \"Statistical analysis\" paragraph 2", "quote": "Measurement data are expressed as mean ± standard deviation (SD) and were analyzed by t test."}], "state": "complete"}, {"id": "claim-data-access", "statement": "The data set GSE21974 was obtained from the Gene Expression Omnibus (GEO) (http://www.nebi.nlm.nih.gov/geo) with “invasive breast cancer” and/or “neoadjuvant chemotherapy” as the key words. The chip platform was Agilent-014850 Whole Human Genome Microarray 4×44k G4112F (GPL 6480). GSE21974 included 57 samples (32 invasive breast cancer samples before treatment and 25 invasive breast cancer samples after treatment).", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:30476929", "locator": "sections[3] \"Gene chip data processing\" paragraph 2", "quote": "The data set GSE21974 was obtained from the Gene Expression Omnibus (GEO) (http://www.nebi.nlm.nih.gov/geo) with “invasive breast cancer” and/or “neoadjuvant chemotherapy” as the key words. The chip platform was Agilent-014850 Whole Human Genome Microarray 4×44k G4112F (GPL 6480). 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"Supplementary Table 1.", "caption": "List of detailed genes selected by network-based meta-analysis in the study.", "rows": [["Name", "Name", "Name", "Name", "Name", "Name"], ["IGF1", "IGFBP4", "OLFML3", "ZBTB16", "COPZ2", "KERA"], ["C19orf80", "SLC2A4", "ATP1B2", "FAM72D", "ENPP2", "C2orf40"], ["VWF", "OAF", "MRAP", "CDK1", "FOXM1", "TNIP3"], ["COL14A1", "FBLN1", "EXO1", "PTTG2", "DGAT2", "HJURP"], ["NCAPH", "MMP23B", "OIP5", "CCL20", "KIF4A", "C3"], ["PPAP2A", "LPL", "PLIN1", "IL33", "KL", "RRAD"], ["SDPR", "KIF11", "HAPLN1", "PLK1", "EPHX1", "DMRT2"], ["CD36", "AKAP12", "RAD51", "PBK", "CXCL14", "ATOH8"], ["FXYD1", "SCRN2", "AOC3", "SPAG5", "PDGFRL", "TUSC5"], ["GDF10", "LAMA2", "C15orf42", "MME", "KCNB1", "CLDN19"], ["RAD54L", "SFRP4", "C1QTNF7", "MMRN1", "RDH5", "AQP7P2"], ["UHRF1", "MCM10", "CMA1", "ABLIM3", "MAOA", "GSTM2"], ["TNNT3", "DARC", "F10", "PCOLCE", "CA4", "TPX2"], ["KIF23", "PRC1", "ESCO2", "HIST1H1B", "G0S2", "CCNA2"], ["FAM64A", "CD300LG", "CES1", "TSHZ2", "ELTD1", "TSC22D3"], ["TGFBR3", "ALDH1A1", "TFPI", "SAMD5", "CA3", "NUSAP1"], ["PDE2A", "LEP", "PTTG1", "C16orf89", "MMP11", "TMEM100"], ["ITIH5", "JAM2", "C1QTNF9B", "LUZP2", "TIMP4", "FAM83D"], ["FHL1", "MEOX2", "CENPA", "ACACB", "APOD", "SERPING1"], ["AKR1C3", "ROBO4", "PHYHIP", "CAV2", "ELN", "EMX2"], ["CEP55", "LDB2", "GSC", "PODN", "PTN", "FLNC"], ["TROAP", "THRSP", "RPSA", "NNAT", "CAMK1", "PDLIM1"], ["DLGAP5", "C16orf59", "RERGL", "MMP1", "FREM1", "PCK1"], ["HRC", "CDCA8", "ZWINT", "CFD", "PAMR1", "CYP4F22"], ["CDCA5", "BLM", "RBP4", "CENPE", "AKR1C1", "FIGF"], ["IGFBP6", "PPARG", "CKS2", "OMD", "HOXA5", "1-Mar"], ["TK1", "CD34", "SEMA3G", "CKMT2", "ERCC6L", "DEPDC1B"], ["TSPAN7", "VWCE", "DEPDC1", "ANGPTL1", "HABP4", "CCDC8"], ["ASPM", "RDM1", "CYGB", "PID1", "ZNF695", "ART5"], ["GPC3", "DPT", "CPZ", "AGPAT2", "ITGA7", "NMU"], ["E2F1", "FAM54A", "OGN", "HSPB7", "PPP1R1A", "LHX2"], ["POLQ", "MATN2", "SCN2B", "NPR1", "FABP4", "MYOM2"], ["CLDN5", "PLIN4", "ASPA", "NDN", "ACADS", "SOX11"], ["HMMR", "FANCA", "ABCA8", "LOC100128164", "RARRES2", "CFHR4"], ["KIF2C", "NGFR", "SLIT2", "KIFC1", "MYZAP", "TREM1"], ["CDKN1C", "MAB21L1", "PTH1R", "PDGFD", "GIMAP7", "TTK"], ["EMCN", "CIDEC", "MFAP4", "LRRC17", "MMP2", "LGALS12"], ["EZH2", "NEK2", "BMX", "MYOC", "GAS6", "PDZRN3"], ["IL11RA", "OSR1", "H19", "MEOX1", "MELK", "ANGPTL7"], ["HSPA12B", "C7", "MAMDC2", "CDH5", "MYH11", "MYRIP"], ["FLRT2", "RNASE4", "RHOJ", "CENPF", "DAAM2", "CITED1"], ["BTNL9", "TNMD", "C4orf49", "C1orf115", "BOC", "CDKN3"], ["SGOL1", "SKA3", "VIPR2", "C5orf46", "CMTM5", "TCEA2"], ["CLEC14A", "EBF1", "CLEC3B", "EBF3", "DENND2A", "HLF"], ["CCDC80", "CDO1", "CIDECP", "GPX3", "TPO", "BCHE"], ["DTL", "ABCA9", "DIO3OS", "OLR1", "CRTAC1", "MIR143HG"], ["SLC25A18", "ITM2A", "E2F8", "CDC25C", "EDN3", "ANLN"], ["BIRC5", "SHE", "RAMP3", "MYBL2", "TPSAB1", "MMP12"], ["ADIPOQ", "IL1B", "E2F7", "C18orf34", "HAMP", "PEBP4"], ["GPD1", "GUCA2B", "SPC25", "GPIHBP1", "LOC572558", "LYVE1"], ["CAV1", "PYGM", "GSTM5", 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The protein expression was detected by Western blotting. Cell growth and growth cycle were detected"], "order_basis": "paper_text_order:738", "id": "assay:1"}, {"role": "data_generation", "definition_id": "apoptosis_assay", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.99, "evidence": ["sceptibility of MCF-7 cells to E-ADM-induced apoptosis. CONCLUSIONS Our study provides evidence tha", "ell growth and growth cycle were detected by MTT assay and flow cytometry, respectively. Cell"], "order_basis": "paper_text_order:802", "id": "assay:2"}, {"role": "data_generation", "definition_id": "flow_cytometry", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.93, "evidence": ["growth cycle were detected by MTT assay and flow cytometry, respectively. Cell migration and invasion w"], "order_basis": "paper_text_order:817", "id": "assay:3"}, {"role": "data_generation", "definition_id": "cell_culture", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.99, "evidence": ["ed high expression in IBC tissue samples and MCF-7 cells. NUSAP1 overexpression promoted the gr", "moted the growth, migration, and invasion of MCF-7 cells. While NUSAP1 gene silencing downregul", "bited the growth, migration, and invasion of MCF-7 cells. si-NUSAP1 increased the susceptibilit", "s. si-NUSAP1 increased the susceptibility of MCF-7 cells to E-ADM-induced apoptosis. CONCLUSION"], "order_basis": "paper_text_order:1066", "id": "assay:4"}, {"role": "data_generation", "definition_id": "microarray", "definition_version": "99e1195c7d6f", "definition_digest": null, "required_operations": [], "support_state": "partial", "source_hashes": {"assay_lexicon": "99e1195c7d6f"}, "confidence": 0.93, "evidence": ["atform was Agilent-014850 Whole Human Genome Microarray 4×44k G4112F (GPL 6480). GSE21974 included 5"], "order_basis": "paper_text_order:2026", "id": "assay:5"}]}