Gene Page:NPTX1

Summary?
GeneID 4884
Symbol NPTX1
Synonyms NP1
Description neuronal pentraxin 1
Reference MIM:602367|HGNC:HGNC:7952|Ensembl:ENSG00000171246|HPRD:03843|Vega:OTTHUMG00000177607
Gene type protein-coding
Map location 17q25.3
Pascal p-value 4.757E-5
Sherlock p-value 0.911
DMG 1 (# studies)
eGene Cerebellum
Nucleus accumbens basal ganglia
Myers' cis & trans
Support INTRACELLULAR SIGNAL TRANSDUCTION
G2Cdb.human_BAYES-COLLINS-HUMAN-PSD-FULL
G2Cdb.human_clathrin
G2Cdb.human_Synaptosome
Potential synaptic genes

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:PGCnp 全基因组关联研究 GWAS
DMG:Wockner_2014 Genome-wide DNA methylation analysis This dataset includes 4641 differentially methylated probes corresponding to 2929 unique genes between schizophrenia patients (n=24) and controls (n=24). 1
PMID:cooccur High-throughput literature-search Systematic search in PubMed for genes co-occurring with SCZ keywords. A total of 3027 genes were included.
Literature High-throughput literature-search Co-occurance with Schizophrenia keywords: schizophrenia,schizophrenias Click to show details
GO_Annotation Mapping neuro-related keywords to Gene Ontology annotations Hits with neuro-related keywords: 2

Section I. Genetics and epigenetics annotation

@Differentially methylated gene

Probe Chromosome Position Nearest gene P (dis) Beta (dis) FDR (dis) Study
cg23752000 17 78442298 NPTX1 1.83E-5 -0.573 0.016 DMG:Wockner_2014

@eQTL annotation

SNP ID Chromosome Position eGene Gene Entrez ID pvalue qvalue TSS distance eQTL type
rs8081537 chr17 77708263 NPTX1 4884 0.12 cis
rs9515552 chr13 89948963 NPTX1 4884 0.14 trans
rs7321205 chr13 89949815 NPTX1 4884 0.09 trans

Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

Gene expression of temporal and spatial changes (BrainSpan)

Footnote:
SC: sub-cortical regions; SM: sensory-motor regions; FC: frontal cortex; and TP: temporal-parietal cortex
ST1: fetal (13 - 26 postconception weeks), ST2: early infancy to late childhood (4 months to 11 years), and ST3: adolescence to adulthood (13 - 23 years)
The bar shown representes the lower 25% and upper 25% of the expression distribution.

Top co-expressed genes in brain regions

Top 10 positively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
ITGAV 0.82 0.82
ARHGAP5 0.80 0.78
GPM6B 0.79 0.76
IL6ST 0.79 0.77
KIAA0494 0.79 0.78
NEBL 0.78 0.75
ALDH5A1 0.77 0.77
PCGF5 0.76 0.72
SLC30A1 0.76 0.76
SPRED1 0.76 0.77
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
RP9P -0.41 -0.51
SNHG12 -0.41 -0.48
ST20 -0.39 -0.43
MRPL52 -0.37 -0.38
BCL7C -0.37 -0.42
RPL35 -0.36 -0.44
IL32 -0.35 -0.35
AL022328.1 -0.35 -0.36
RPL36 -0.35 -0.43
AC008763.1 -0.35 -0.36

Section III. Gene Ontology annotation

Molecular function 去你rm Evidence Neuro keywords PubMed ID
GO:0005509 calcium ion binding IEA -
Biological process 去你rm Evidence Neuro keywords PubMed ID
GO:0007417 central nervous system development TAS Brain (GO term level: 6) 8884281
GO:0007268 synaptic transmission TAS neuron, Synap, Neurotransmitter (GO term level: 6) 8884281
GO:0006810 transport TAS 8884281
Cellular component 去你rm Evidence Neuro keywords PubMed ID
GO:0031410 cytoplasmic vesicle IEA -

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
NAKAMURA TUMOR ZONE PERIPHERAL VS CENTRAL DN 634 384 All SZGR 2.0 genes in this pathway
ZHONG RESPONSE TO AZACITIDINE AND TSA UP 183 119 All SZGR 2.0 genes in this pathway
HUTTMANN B CLL POOR SURVIVAL UP 276 187 All SZGR 2.0 genes in this pathway
TONKS TARGETS OF RUNX1 RUNX1T1 FUSION HSC UP 185 126 All SZGR 2.0 genes in this pathway
GOZGIT ESR1 TARGETS UP 149 84 All SZGR 2.0 genes in this pathway
CHEBOTAEV GR TARGETS DN 120 73 All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY DOXORUBICIN UP 1142 669 All SZGR 2.0 genes in this pathway
GRAESSMANN RESPONSE TO MC AND DOXORUBICIN UP 612 367 All SZGR 2.0 genes in this pathway
PEREZ TP63 TARGETS 355 243 All SZGR 2.0 genes in this pathway
PEREZ TP53 AND TP63 TARGETS 205 145 All SZGR 2.0 genes in this pathway
LIANG HEMATOPOIESIS STEM CELL NUMBER LARGE VS TINY DN 45 24 All SZGR 2.0 genes in this pathway
LIANG HEMATOPOIESIS STEM CELL NUMBER SMALL VS HUGE DN 33 22 All SZGR 2.0 genes in this pathway
SCHLESINGER METHYLATED DE NOVO IN CANCER 88 64 All SZGR 2.0 genes in this pathway
GROSS HYPOXIA VIA HIF1A DN 110 78 All SZGR 2.0 genes in this pathway
NUYTTEN NIPP1 TARGETS DN 848 527 All SZGR 2.0 genes in this pathway
NUYTTEN EZH2 TARGETS UP 1037 673 All SZGR 2.0 genes in this pathway
BENPORATH SUZ12 TARGETS 1038 678 All SZGR 2.0 genes in this pathway
BENPORATH EED TARGETS 1062 725 All SZGR 2.0 genes in this pathway
BENPORATH ES WITH H3K27ME3 1118 744 All SZGR 2.0 genes in this pathway
BENPORATH PRC2 TARGETS 652 441 All SZGR 2.0 genes in this pathway
霁转移STK11压抑 27 17 All SZGR 2.0 genes in this pathway
SWEET KRAS TARGETS UP 84 51 All SZGR 2.0 genes in this pathway
NADLER HYPERGLYCEMIA AT OBESITY 58 35 All SZGR 2.0 genes in this pathway
PETROVA ENDOTHELIUM LYMPHATIC VS BLOOD DN 162 102 All SZGR 2.0 genes in this pathway
MODY HIPPOCAMPUS POSTNATAL 63 50 All SZGR 2.0 genes in this pathway
WANG SMARCE1 TARGETS DN 371 218 All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 14HR DN 298 200 All SZGR 2.0 genes in this pathway
MCCLUNG DELTA FOSB TARGETS 2WK 48 36 All SZGR 2.0 genes in this pathway
DEBIASI APOPTOSIS BY REOVIRUS INFECTION DN 287 208 All SZGR 2.0 genes in this pathway
SATO SILENCED BY METHYLATION IN PANCREATIC CANCER 1 419 273 All SZGR 2.0 genes in this pathway
JIANG AGING CEREBRAL CORTEX DN 54 43 All SZGR 2.0 genes in this pathway
DURCHDEWALD SKIN CARCINOGENESIS DN 264 168 All SZGR 2.0 genes in this pathway
LIN NPAS4 TARGETS DN 68 48 All SZGR 2.0 genes in this pathway
BLUM RESPONSE TO SALIRASIB DN 342 220 All SZGR 2.0 genes in this pathway
LIANG HEMATOPOIESIS STEM CELL NUMBER QTL 17 10 All SZGR 2.0 genes in this pathway
YAO TEMPORAL RESPONSE TO PROGESTERONE CLUSTER 2 86 50 All SZGR 2.0 genes in this pathway
BROWNE HCMV INFECTION 2HR DN 49 33 All SZGR 2.0 genes in this pathway
MARTENS TRETINOIN RESPONSE UP 857 456 All SZGR 2.0 genes in this pathway
KIM ALL DISORDERS OLIGODENDROCYTE NUMBER CORR UP 756 494 All SZGR 2.0 genes in this pathway
KIM BIPOLAR DISORDER OLIGODENDROCYTE DENSITY CORR UP 682 440 All SZGR 2.0 genes in this pathway
KIM ALL DISORDERS CALB1 CORR UP 548 370 All SZGR 2.0 genes in this pathway
CHICAS RB1 TARGETS CONFLUENT 567 365 All SZGR 2.0 genes in this pathway
BRUINS UVC RESPONSE LATE 1137 655 All SZGR 2.0 genes in this pathway
FORTSCHEGGER PHF8 TARGETS UP 279 155 All SZGR 2.0 genes in this pathway

Section VI. microRNA annotation

miRNA family Target position miRNA ID miRNA seq
UTR start UTR end Match method
miR-1/206 3262 3268 1A hsa-miR-1 UGGAAUGUAAAGAAGUAUGUA
hsa-miR-206SZ UGGAAUGUAAGGAAGUGUGUGG
hsa-miR-613 AGGAAUGUUCCUUCUUUGCC
miR-101 2958 2964 1A hsa-miR-101 UACAGUACUGUGAUAACUGAAG
miR-128 2624 2630 m8 hsa-miR-128a UCACAGUGAACCGGUCUCUUUU
hsa-miR-128b UCACAGUGAACCGGUCUCUUUC
miR-130/301 2734 2740 m8 hsa-miR-130abrain CAGUGCAAUGUUAAAAGGGCAU
hsa-miR-301 CAGUGCAAUAGUAUUGUCAAAGC
hsa-miR-130bbrain CAGUGCAAUGAUGAAAGGGCAU
hsa-miR-454-3p UAGUGCAAUAUUGCUUAUAGGGUUU
hsa-miR-130abrain CAGUGCAAUGUUAAAAGGGCAU
hsa-miR-301 CAGUGCAAUAGUAUUGUCAAAGC
hsa-miR-130bbrain CAGUGCAAUGAUGAAAGGGCAU
hsa-miR-454-3p UAGUGCAAUAUUGCUUAUAGGGUUU
miR-133 3311 3317 m8 hsa-miR-133a UUGGUCCCCUUCAACCAGCUGU
hsa-miR-133b UUGGUCCCCUUCAACCAGCUA
miR-138 3183 3189 m8 hsa-miR-138brain AGCUGGUGUUGUGAAUC
miR-139 2959 2966 1A,m8 hsa-miR-139brain UCUACAGUGCACGUGUCU
miR-144 2958 2964 1A hsa-miR-144 UACAGUAUAGAUGAUGUACUAG
miR-148/152 2735 2742 1A,m8 hsa-miR-148a UCAGUGCACUACAGAACUUUGU
hsa-miR-152brain UCAGUGCAUGACAGAACUUGGG
hsa-miR-148b UCAGUGCAUCACAGAACUUUGU
miR-182 3661 3668 1A,m8 hsa-miR-182 UUUGGCAAUGGUAGAACUCACA
miR-200bc/429 2943 2950 1A,m8 hsa-miR-200b UAAUACUGCCUGGUAAUGAUGAC
hsa-miR-200c UAAUACUGCCGGGUAAUGAUGG
hsa-miR-429 UAAUACUGUCUGGUAAAACCGU
miR-204/211 3597 3604 1A,m8 hsa-miR-204brain UUCCCUUUGUCAUCCUAUGCCU
hsa-miR-211 UUCCCUUUGUCAUCCUUCGCCU
miR-210 127 133 m8 hsa-miR-210 CUGUGCGUGUGACAGCGGCUGA
miR-25/32/92/363/367 3584 3590 m8 hsa-miR-25brain CAUUGCACUUGUCUCGGUCUGA
hsa-miR-32 UAUUGCACAUUACUAAGUUGC
hsa-miR-92 UAUUGCACUUGUCCCGGCCUG
hsa-miR-367 AAUUGCACUUUAGCAAUGGUGA
hsa-miR-92bSZ UAUUGCACUCGUCCCGGCCUC
miR-34/449 1600 1606 m8 hsa-miR-34abrain UGGCAGUGUCUUAGCUGGUUGUU
hsa-miR-34c AGGCAGUGUAGUUAGCUGAUUGC
hsa-miR-449 UGGCAGUGUAUUGUUAGCUGGU
hsa-miR-449b AGGCAGUGUAUUGUUAGCUGGC
miR-346 1623 1629 1A hsa-miR-346brain UGUCUGCCCGCAUGCCUGCCUCU
miR-34b 1601 1607 m8 hsa-miR-34b UAGGCAGUGUCAUUAGCUGAUUG
miR-369-3p 2945 2951 m8 hsa-miR-369-3p AAUAAUACAUGGUUGAUCUUU
miR-539 2950 2956 m8 hsa-miR-539 GGAGAAAUUAUCCUUGGUGUGU
miR-9 3776 3782 m8 hsa-miR-9SZ UCUUUGGUUAUCUAGCUGUAUGA
miR-96 3662 3668 1A hsa-miR-96brain UUUGGCACUAGCACAUUUUUGC