Gene Page:NCL

Summary?
GeneID 4691
Symbol NCL
Synonyms C23
Description nucleolin
Reference MIM:164035|HGNC:HGNC:7667|HPRD:01245|
Gene type protein-coding
Map location 2q37.1
Pascal p-value 0.062
Sherlock p-value 0.159
Fetal beta 0.246
eGene Meta
Support Ascano FMRP targets

Gene in Data Sources
Gene set name Method of gene set Description Info
CV:PGCnp Genome-wide Association Study GWAS
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,schizophrenic,schizophrenics,schizotypy,schizophrenias,schizotypal Click to show details
Network Shortest path distance of core genes in the Human protein-protein interaction network Contribution to shortest path in PPI network: 0.0143

Section I. Genetics and epigenetics annotation


Section II. Transcriptome annotation

General gene expression (GTEx)

Not available

Gene expression during devlopment (BrainCloud)

Footnote:
A total of 269 time points ploted, with n=38 fetal samples (x=1:38). Each triangle represents one time point.

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
AC116610.1 1.00 1.00
ZNHIT1 0.87 0.75
COX8A 0.86 0.75
TRAPPC5 0.86 0.76
NDUFB7 0.85 0.71
NDUFA11 0.85 0.70
MRP63 0.85 0.74
C7orf59 0.85 0.72
C19orf70 0.85 0.75
NDUFA2 0.84 0.73
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
BAT2D1 -0.44 -0.41
RBM25 -0.41 -0.44
MYH9 -0.40 -0.37
ZC3H13 -0.39 -0.37
UPF2 -0.38 -0.34
ZNHIT6 -0.37 -0.34
MACF1 -0.37 -0.34
SFRS12 -0.37 -0.41
MDN1 -0.36 -0.33
SLC6A6 -0.36 -0.34

Section III. Gene Ontology annotation

Molecular function 去的术语 Evidence Neuro keywords PubMed ID
GO:0000166 nucleotide binding IEA -
GO:0003676 nucleic acid binding IEA -
GO:0003677 DNA binding IEA -
GO:0003723 RNA binding TAS 2737305
GO:0005515 protein binding IEA -
GO:0008022 protein C-terminus binding 新闻学会 16403913
Biological process 去的术语 Evidence Neuro keywords PubMed ID
GO:0001525 angiogenesis IDA 16403913
Cellular component 去的术语 Evidence Neuro keywords PubMed ID
GO:0005634 nucleus IEA -
GO:0005730 nucleolus IDA 12944467
GO:0005730 nucleolus IEA -
GO:0005938 cell cortex IDA 16403913

Section IV. Protein-protein interaction annotation

Interactors Aliases B Official full name B Experimental Source PubMed ID
ADAP1 CENTA1 | GCS1L | p42IP4 ArfGAP with dual PH domains 1 - HPRD,BioGRID 12565890
CD3E FLJ18683 | T3E | TCRE CD3e molecule, epsilon (CD3-TCR complex) Reconstituted Complex BioGRID 11115514
CSNK2A1 CK2A1 | CKII casein kinase 2, alpha 1 polypeptide - HPRD 2192260|8663258
CSNK2A2 CK2A2 | CSNK2A1 | FLJ43934 casein kinase 2, alpha prime polypeptide Affinity Capture-Western
Biochemical Activity
Far Western		 BioGRID 8663258
CYFIP1 FLJ45151 | P140SRA-1 | SHYC | SRA1 cytoplasmic FMR1 interacting protein 1 Affinity Capture-Western BioGRID 11438699
FMR1 FMRP | FRAXA | MGC87458 | POF | POF1 fragile X mental retardation 1 Affinity Capture-Western BioGRID 10567518
GZMA CTLA3 | HFSP granzyme A (granzyme 1, cytotoxic T-lymphocyte-associated serine esterase 3) - HPRD 1860869
MDK FLJ27379 |可|底片F2 midkine (neurite growth-promoting factor 2) - HPRD,BioGRID 12147681
MYB Cmyb | c-myb | c-myb_CDS | efg v-myb myeloblastosis viral oncogene homolog (avian) Affinity Capture-Western BioGRID 10660576
MYBL1 A-MYB | AMYB | MGC120059 | MGC120061 v-myb myeloblastosis viral oncogene homolog (avian)-like 1 Affinity Capture-Western
Far Western		 BioGRID 10660576
MYC bHLHe39 | c-Myc v-myc myelocytomatosis viral oncogene homolog (avian) Ncl (nucleolin) interacts with Myc (c-Myc). BIND 15674325
NPM1 B23 | MGC104254 | NPM nucleophosmin (nucleolar phosphoprotein B23, numatrin) - HPRD,BioGRID 8620867|10503877
NR3C1 GCCR | GCR | GR | GRL nuclear receptor subfamily 3, group C, member 1 (glucocorticoid receptor) - HPRD,BioGRID 8530516|11162542
PPARGC1A LEM6 | PGC-1(alpha) | PGC-1v | PGC1 | PGC1A | PPARGC1 过氧物酶体proliferator-activated受体γ,coactivator 1 alpha - HPRD 10983978
PPP1CB MGC3672 | PP-1B | PPP1CD protein phosphatase 1, catalytic subunit, beta isoform Affinity Capture-Western BioGRID 12185196
PRKCZ PKC-ZETA | PKC2 protein kinase C, zeta - HPRD,BioGRID 9388266
S100A11 MLN70 | S100C S100 calcium binding protein A11 - HPRD,BioGRID 14623863
SFRS12 DKFZp564B176 | MGC133045 | SRrp508 | SRrp86 splicing factor, arginine/serine-rich 12 - HPRD 14559993
SP1 - Sp1 transcription factor Affinity Capture-Western BioGRID 14623863
SSB LARP3 | La Sjogren syndrome antigen B (autoantigen La) Affinity Capture-MS
Affinity Capture-Western		 BioGRID 12096904
SWAP70 FLJ39540 | HSPC321 | KIAA0640 | SWAP-70 SWAP-70 protein - HPRD,BioGRID 9642267
TERT EST2 | TCS1 | TP2 | TRT | hEST2 telomerase reverse transcriptase Affinity Capture-Western
Reconstituted Complex		 BioGRID 15371412
TERT EST2 | TCS1 | TP2 | TRT | hEST2 telomerase reverse transcriptase nucleolin interacts with hTERT. BIND 15371412
TOP1 TOPI topoisomerase (DNA) I Top1 interacts with Nucleolin BIND 10967121
TOP1 TOPI topoisomerase (DNA) I - HPRD,BioGRID 8567649|9512561
|10967121
TP53 FLJ92943 | LFS1 | TRP53 | p53 tumor protein p53 - HPRD,BioGRID 12138209
TROVE2 RO60 | SSA2 TROVE domain family, member 2 - HPRD 12096904


Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
KEGG PATHOGENIC ESCHERICHIA COLI INFECTION 59 36 All SZGR 2.0 genes in this pathway
BIOCARTA SARS PATHWAY 10 5 All SZGR 2.0 genes in this pathway
PID AURORA B PATHWAY 39 24 All SZGR 2.0 genes in this pathway
PID MYC ACTIV PATHWAY 79 62 All SZGR 2.0 genes in this pathway
PID TELOMERASE PATHWAY 68 48 All SZGR 2.0 genes in this pathway
PID UPA UPAR PATHWAY 42 30 All SZGR 2.0 genes in this pathway
DODD NASOPHARYNGEAL CARCINOMA DN 1375 806 All SZGR 2.0 genes in this pathway
GRAESSMANN APOPTOSIS BY SERUM DEPRIVATION UP 552 347 All SZGR 2.0 genes in this pathway
GRAESSMANN RESPONSE TO MC AND SERUM DEPRIVATION UP 211 136 All SZGR 2.0 genes in this pathway
CAIRO PML TARGETS BOUND BY MYC UP 23 17 All SZGR 2.0 genes in this pathway
HAMAI APOPTOSIS VIA TRAIL UP 584 356 All SZGR 2.0 genes in this pathway
DARWICHE SKIN TUMOR PROMOTER UP 142 96 All SZGR 2.0 genes in this pathway
DARWICHE PAPILLOMA RISK LOW UP 162 104 All SZGR 2.0 genes in this pathway
DARWICHE PAPILLOMA RISK HIGH UP 147 101 All SZGR 2.0 genes in this pathway
DARWICHE SQUAMOUS CELL CARCINOMA UP 146 104 All SZGR 2.0 genes in this pathway
SCHLOSSER MYC TARGETS AND SERUM RESPONSE DN 47 34 All SZGR 2.0 genes in this pathway
MARTORIATI MDM4 TARGETS FETAL LIVER DN 514 319 All SZGR 2.0 genes in this pathway
KIM MYC AMPLIFICATION TARGETS UP 201 127 All SZGR 2.0 genes in this pathway
HATADA METHYLATED IN LUNG CANCER UP 390 236 All SZGR 2.0 genes in this pathway
PUJANA BRCA1 PCC NETWORK 1652 1023 All SZGR 2.0 genes in this pathway
PUJANA ATM PCC NETWORK 1442 892 All SZGR 2.0 genes in this pathway
PUJANA CHEK2 PCC NETWORK 779 480 All SZGR 2.0 genes in this pathway
RICKMAN METASTASIS UP 344 180 All SZGR 2.0 genes in this pathway
SCHAEFFER PROSTATE DEVELOPMENT 6HR UP 176 115 All SZGR 2.0 genes in this pathway
DEN INTERACT WITH LCA5 26 21 All SZGR 2.0 genes in this pathway
BENPORATH MYC TARGETS WITH EBOX 230 156 All SZGR 2.0 genes in this pathway
BENPORATH MYC MAX TARGETS 775 494 All SZGR 2.0 genes in this pathway
MENSSEN MYC TARGETS 53 35 All SZGR 2.0 genes in this pathway
PENG LEUCINE DEPRIVATION DN 187 122 All SZGR 2.0 genes in this pathway
COLLER MYC TARGETS UP 25 19 All SZGR 2.0 genes in this pathway
PENG GLUTAMINE DEPRIVATION DN 337 230 All SZGR 2.0 genes in this pathway
MATSUDA NATURAL KILLER DIFFERENTIATION 475 313 All SZGR 2.0 genes in this pathway
BROWN MYELOID CELL DEVELOPMENT DN 129 86 All SZGR 2.0 genes in this pathway
HESS TARGETS OF HOXA9 AND MEIS1 UP 65 44 All SZGR 2.0 genes in this pathway
MA MYELOID DIFFERENTIATION UP 39 29 All SZGR 2.0 genes in this pathway
IVANOVA HEMATOPOIESIS EARLY PROGENITOR 532 309 All SZGR 2.0 genes in this pathway
JOSEPH RESPONSE TO SODIUM BUTYRATE DN 64 45 All SZGR 2.0 genes in this pathway
ZHOU TNF SIGNALING 4HR 54 36 All SZGR 2.0 genes in this pathway
HU GENOTOXIN ACTION DIRECT VS INDIRECT 24HR 55 38 All SZGR 2.0 genes in this pathway
JIANG HYPOXIA NORMAL 311 205 All SZGR 2.0 genes in this pathway
JIANG AGING CEREBRAL CORTEX DN 54 43 All SZGR 2.0 genes in this pathway
BILD MYC ONCOGENIC SIGNATURE 206 117 All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 6HR DN 911 527 All SZGR 2.0 genes in this pathway
KRIGE RESPONSE TO TOSEDOSTAT 24HR DN 1011 592 All SZGR 2.0 genes in this pathway
RIZKI TUMOR INVASIVENESS 2D UP 69 46 All SZGR 2.0 genes in this pathway
GRADE COLON CANCER UP 871 505 All SZGR 2.0 genes in this pathway
MUELLER PLURINET 299 189 All SZGR 2.0 genes in this pathway
BOYLAN MULTIPLE MYELOMA C D UP 139 95 All SZGR 2.0 genes in this pathway
SWEET LUNG CANCER KRAS UP 491 316 All SZGR 2.0 genes in this pathway
HSIAO HOUSEKEEPING GENES 389 245 All SZGR 2.0 genes in this pathway
MILI PSEUDOPODIA CHEMOTAXIS UP 74 45 All SZGR 2.0 genes in this pathway
CAIRO HEPATOBLASTOMA CLASSES UP 605 377 All SZGR 2.0 genes in this pathway
DANG MYC TARGETS UP 143 100 All SZGR 2.0 genes in this pathway
DANG BOUND BY MYC 1103 714 All SZGR 2.0 genes in this pathway
WONG EMBRYONIC STEM CELL CORE 335 193 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
FEVR CTNNB1 TARGETS DN 553 343 All SZGR 2.0 genes in this pathway
GOBERT OLIGODENDROCYTE DIFFERENTIATION UP 570 339 All SZGR 2.0 genes in this pathway
IKEDA MIR1 TARGETS UP 53 39 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 90 97 1A,m8 hsa-miR-1 UGGAAUGUAAAGAAGUAUGUA
hsa-miR-206SZ UGGAAUGUAAGGAAGUGUGUGG
hsa-miR-613 AGGAAUGUUCCUUCUUUGCC
miR-194 57 63 m8 hsa-miR-194 UGUAACAGCAACUCCAUGUGGA
miR-431 96 102 1A hsa-miR-431 UGUCUUGCAGGCCGUCAUGCA