Gene Page:SMARCA1

Summary?
GeneID 6594
Symbol SMARCA1
Synonyms ISWI|NURF140|SNF2L|SNF2L1|SNF2LB|SNF2LT|SWI|SWI2|hSNF2L
Description SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 1
Reference MIM:300012|HGNC:HGNC:11097|Ensembl:ENSG00000102038|HPRD:02055|Vega:OTTHUMG00000022370
Gene type protein-coding
Map location Xq25
Sherlock p-value 0.938
Fetal beta 0.543
Support Ascano FMRP targets
Chromatin Remodeling Genes

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,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


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
SAP30BP 0.88 0.89
PRKRIP1 0.86 0.87
PDAP1 0.86 0.89
RBM8A 0.86 0.91
FTSJ3 0.85 0.87
EXOSC2 0.85 0.86
ODF2 0.85 0.89
XRCC1 0.85 0.86
ILKAP 0.85 0.86
SNRPA1 0.84 0.85
Top 10 negatively co-expressed genes
Gene Pearson's Correlation Spearman's Correlation
AF347015.27 -0.73 -0.79
AF347015.31 -0.73 -0.78
MT-CO2 -0.70 -0.76
MT-CYB -0.69 -0.74
AF347015.2 -0.69 -0.78
AF347015.33 -0.68 -0.73
AF347015.8 -0.68 -0.74
AF347015.15 -0.68 -0.75
AF347015.21 -0.64 -0.74
HLA-F -0.64 -0.66

Section III. Gene Ontology annotation

Molecular function 去的术语 Evidence Neuro keywords PubMed ID
GO:0000166 nucleotide binding IEA -
GO:0003677 DNA binding IEA -
GO:0005515 protein binding 新闻学会 14609955
GO:0005524 ATP binding IEA -
GO:0004386 helicase activity TAS 1408766
GO:0016787 hydrolase activity IEA -
GO:0008094 DNA-dependent ATPase activity IDA 14609955
GO:0030528 transcription regulator activity IMP 14609955
GO:0031491 nucleosome binding IEA -
Biological process 去的术语 Evidence Neuro keywords PubMed ID
GO:0007420 brain development IMP Brain (GO term level: 7) 14609955
GO:0030182 neuron differentiation ISS neuron (GO term level: 8) -
GO:0006355 regulation of transcription, DNA-dependent IEA -
GO:0006350 transcription IEA -
GO:0043193 positive regulation of gene-specific transcription IMP 14609955
GO:0043044 ATP-dependent chromatin remodeling IEA -
Cellular component 去的术语 Evidence Neuro keywords PubMed ID
GO:0005634 nucleus IDA 14609955
GO:0005737 cytoplasm IDA 18029348
GO:0016585 chromatin remodeling complex IEA -

Section V. Pathway annotation

Pathway name Pathway size # SZGR 2.0 genes in pathway Info
ONKEN UVEAL MELANOMA DN 526 357 All SZGR 2.0 genes in this pathway
VECCHI GASTRIC CANCER EARLY DN 367 220 All SZGR 2.0 genes in this pathway
MULLIGHAN MLL SIGNATURE 1 DN 242 165 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
SENESE HDAC1 TARGETS DN 260 143 All SZGR 2.0 genes in this pathway
JAATINEN HEMATOPOIETIC STEM CELL UP 316 190 All SZGR 2.0 genes in this pathway
ENK UV RESPONSE KERATINOCYTE DN 485 334 All SZGR 2.0 genes in this pathway
DN CHEBOTAEV GR目标 120 73 All SZGR 2.0 genes in this pathway
MCBRYAN PUBERTAL TGFB1 TARGETS UP 169 127 All SZGR 2.0 genes in this pathway
XU HGF TARGETS REPRESSED BY AKT1 DN 95 58 All SZGR 2.0 genes in this pathway
DACOSTA UV RESPONSE VIA ERCC3 DN 855 609 All SZGR 2.0 genes in this pathway
RICKMAN METASTASIS UP 344 180 All SZGR 2.0 genes in this pathway
ROZANOV MMP14 CORRELATED 11 9 All SZGR 2.0 genes in this pathway
ROZANOV MMP14 TARGETS UP 266 171 All SZGR 2.0 genes in this pathway
MAGRANGEAS MULTIPLE MYELOMA IGLL VS IGLK UP 42 24 All SZGR 2.0 genes in this pathway
ZHAN MULTIPLE MYELOMA MF UP 47 27 All SZGR 2.0 genes in this pathway
KAAB FAILED HEART ATRIUM DN 141 99 All SZGR 2.0 genes in this pathway
SATO SILENCED BY METHYLATION IN PANCREATIC CANCER 2 50 34 All SZGR 2.0 genes in this pathway
KAYO AGING MUSCLE UP 244 165 All SZGR 2.0 genes in this pathway
XU GH1 EXOGENOUS TARGETS DN 120 69 All SZGR 2.0 genes in this pathway
YIH RESPONSE TO ARSENITE C1 24 14 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
HELLER SILENCED BY METHYLATION UP 282 183 All SZGR 2.0 genes in this pathway
AMUNDSON POOR SURVIVAL AFTER GAMMA RADIATION 8G 95 62 All SZGR 2.0 genes in this pathway
AMUNDSON POOR SURVIVAL AFTER GAMMA RADIATION 2G 171 96 All SZGR 2.0 genes in this pathway
ACEVEDO LIVER CANCER UP 973 570 All SZGR 2.0 genes in this pathway
ALONSO METASTASIS EMT UP 36 24 All SZGR 2.0 genes in this pathway
ALONSO METASTASIS UP 198 128 All SZGR 2.0 genes in this pathway
HAN SATB1 TARGETS UP 395 249 All SZGR 2.0 genes in this pathway
BOYAULT LIVER CANCER SUBCLASS G1 UP 113 70 All SZGR 2.0 genes in this pathway
HOSHIDA LIVER CANCER SUBCLASS S2 115 74 All SZGR 2.0 genes in this pathway
开罗类肝母细胞癌UP 605 377 All SZGR 2.0 genes in this pathway
CAIRO LIVER DEVELOPMENT UP 166 105 All SZGR 2.0 genes in this pathway
KYNG WERNER SYNDROM AND NORMAL AGING DN 225 124 All SZGR 2.0 genes in this pathway
GREGORY SYNTHETIC LETHAL WITH IMATINIB 145 83 All SZGR 2.0 genes in this pathway
LEE BMP2 TARGETS UP 745 475 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-101 347 354 1A,m8 hsa-miR-101 UACAGUACUGUGAUAACUGAAG
miR-128 615 621 1A hsa-miR-128a UCACAGUGAACCGGUCUCUUUU
hsa-miR-128b UCACAGUGAACCGGUCUCUUUC
miR-134 74 80 1A hsa-miR-134brain UGUGACUGGUUGACCAGAGGG
miR-144 718 724 m8 hsa-miR-144 UACAGUAUAGAUGAUGUACUAG
hsa-miR-144 UACAGUAUAGAUGAUGUACUAG
miR-27 615 621 m8 hsa-miR-27abrain UUCACAGUGGCUAAGUUCCGC
hsa-miR-27bbrain UUCACAGUGGCUAAGUUCUGC
miR-369-3p 481 487 m8 hsa-miR-369-3p AAUAAUACAUGGUUGAUCUUU
miR-376c 431 437 m8 hsa-miR-376c AACAUAGAGGAAAUUCCACG
miR-410 277 283 1A hsa-miR-410 AAUAUAACACAGAUGGCCUGU
miR-494 491 497 1A hsa-miR-494brain UGAAACAUACACGGGAAACCUCUU
miR-503 447 453 m8 hsa-miR-503 UAGCAGCGGGAACAGUUCUGCAG