AutismKB 2.0

Annotation Detail for LIMCH1


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Basic Information Top
Gene Symbol:LIMCH1 ( DKFZp434I0312,DKFZp686A01247,DKFZp686B2470,DKFZp686G18243,DKFZp686G2094,DKFZp781C1754,DKFZp781I1455,LIMCH1A,LMO7B,MGC72127 )
Gene Full Name: LIM and calponin homology domains 1
Band: 4p13
Quick LinksEntrez ID:22998; OMIM: NA; Uniprot ID:LIMC1_HUMAN; ENSEMBL ID: ENSG00000064042; HGNC ID: 29191
Relate to Another Database: SFARIGene; denovo-db
Unigene EST Top
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
embryoid body5 / 7076170
blastocyst0 / 623190 
fetus67 / 564012118
neonate2 / 3109764
infant1 / 2362042
juvenile1 / 5555617
adult163 / 193912184
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
adrenal tumor3 / 12794234
bladder carcinoma1 / 1747557
breast (mammary gland) tumor4 / 9417842
cervical tumor6 / 34366174
chondrosarcoma6 / 8282372
colorectal tumor0 / 1142460 
esophageal tumor0 / 172900 
gastrointestinal tumor7 / 11936958
germ cell tumor9 / 26384534
glioma0 / 1068830 
head and neck tumor5 / 13630236
kidney tumor3 / 6895943
leukemia0 / 958420 
liver tumor6 / 9635962
lung tumor0 / 1031270 
lymphoma0 / 717550 
non-neoplasia10 / 97250102
normal294 / 336030787
ovarian tumor1 / 7668213
pancreatic tumor6 / 10461657
primitive neuroectodermal tumor of the CNS1 / 1256807
prostate cancer15 / 102680146
retinoblastoma0 / 463560 
skin tumor1 / 1249498
soft tissue/muscle tissue tumor1 / 1251917
uterine tumor1 / 9025711
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
adipose tissue2 / 13106152
adrenal gland3 / 3319790
ascites4 / 4001599
bladder3 / 29757100
blood0 / 1234780 
bone4 / 7165555
bone marrow0 / 488010 
brain111 / 1100989100
cervix6 / 48171124
connective tissue10 / 14925566
ear5 / 16212308
embryonic tissue11 / 21572250
esophagus0 / 202090 
eye32 / 211054151
heart7 / 8962678
intestine2 / 2344728
kidney10 / 21177747
larynx0 / 241450 
liver17 / 20774381
lung23 / 33697468
lymph0 / 442700 
lymph node1 / 9161010
mammary gland11 / 15327171
mouth0 / 670520 
muscle10 / 10771592
nerve0 / 157680 
ovary2 / 10205119
pancreas13 / 21481260
parathyroid5 / 20539243
pharynx4 / 4132896
pituitary gland1 / 1658560
placenta20 / 28082571
prostate21 / 189345110
salivary gland0 / 201550 
skin4 / 21057418
spleen4 / 5395274
stomach2 / 9661920
testis16 / 33044248
thymus2 / 8113124
thyroid1 / 4747321
tonsil0 / 169990 
trachea4 / 5241376
umbilical cord2 / 13680146
uterus2 / 2328788
vascular4 / 5178077
Microarray in BioGPS Top
Select probe  
  • Microarray Platform: GeneAtlas U133A, gcrma
  • Affymatrix Probe ID: 212325_at
Cell line Expression level Expression bar
721_B_lymphoblasts5.75
Adipocyte5.65
AdrenalCortex6.05
Adrenalgland4.6
Amygdala10.65
Appendix11.05
AtrioventricularNode6.7
BDCA4+_DentriticCells4.95
Bonemarrow5.3
BronchialEpithelialCells4.8
CD105+_Endothelial5
CD14+_Monocytes5.3
CD19+_BCells(neg._sel.)5.15
CD33+_Myeloid6.25
CD34+6.5
CD4+_Tcells5.2
CD56+_NKCells6.15
CD71+_EarlyErythroid5
CD8+_Tcells4.55
CardiacMyocytes7.25
Caudatenucleus5.15
Cerebellum4.45
CerebellumPeduncles9.55
CiliaryGanglion4.55
CingulateCortex29.2
Colorectaladenocarcinoma5.2
DorsalRootGanglion4.7
FetalThyroid5.35
Fetalbrain10.35
Fetalliver4.5
Fetallung19.85
GlobusPallidus4.8
Heart7.3
Hypothalamus23.35
Kidney4.55
Leukemia_chronicMyelogenousK-5624.5
Leukemia_promyelocytic-HL-604.45
Leukemialymphoblastic(MOLT-4)3.8
Liver7.3
Lung6.1
Lymphnode4.05
Lymphoma_burkitts(Daudi)6.8
Lymphoma_burkitts(Raji)7.75
MedullaOblongata23.8
OccipitalLobe47.7
OlfactoryBulb73.35
Ovary3.65
Pancreas4.4
PancreaticIslet13.9
ParietalLobe13.2
Pituitary6.45
Placenta36.25
Pons6.05
PrefrontalCortex46.95
Prostate7.2
Salivarygland13.25
SkeletalMuscle6.85
Skin4.65
SmoothMuscle6.3
Spinalcord20.75
SubthalamicNucleus6.8
SuperiorCervicalGanglion7.85
TemporalLobe12
Testis4.45
TestisGermCell4.35
TestisIntersitial4.85
TestisLeydigCell5.45
TestisSeminiferousTubule4.6
Thalamus19.7
Thymus3.75
Thyroid8.75
Tongue5.95
Tonsil5.15
Trachea4.65
TrigeminalGanglion5.6
Uterus4.15
UterusCorpus4.9
WholeBlood5.7
Wholebrain7.9
colon5.5
pineal_day6.46
pineal_night6.2
retina25.875
small_intestine5.2
Allen Brain Atlas Top
Human Whole Brain Microarrayview in Allen Brain Atlas
  • Probe id     Donor id      
  • Probe name: A_23_P83403
  • Donor H0351.2001
  • Sex: Male     Age: 24 years     Race/Ethnicity: African American     Handedness: Left
  • Tissue Receipt Date: 7/29/2009     Serology: Pass      Tissue pH :6.72     Additional Medical Information :History of asthma
  • Postmortem Interval: 23 hours (estimated time of death to time that tissue is frozen)
  • Toxicology: Positive for atropine and caffeine, at levels usually not toxicologically significant
Tissue Expression(mean ± stddev) Expression Bar
Amygdala7.63 ± 0.3
Basal Forebrain7.99 ± 0.28
Basal Part of Pons7.49 ± 0.3
Cerebellar Cortex7.65 ± 0.19
Cerebellar Nuclei8.13 ± 0.41
Claustrum7.82 ± 0.19
Epithalamus7.83 ± 0.35
Frontal Lobe7.87 ± 0.35
Globus Pallidus8.91 ± 0.32
Hypothalamus7.73 ± 0.25
Insula7.78 ± 0.28
Limbic Lobe7.95 ± 0.4
Mesencephalon8.18 ± 0.26
Myelencephalon7.96 ± 0.42
Occipital Lobe8.04 ± 0.3
Parietal Lobe7.91 ± 0.33
Pontine Tegmentum8.05 ± 0.24
Striatum7.72 ± 0.44
Subthalamus7.71 ± 0.17
Temporal Lobe7.96 ± 0.28
Thalamus8.08 ± 0.25
White Matter9.41 ± 0.25
Mouse Brain ISH
Gene Symbol Brain Structure ID Brain Structure Name Express Desity/Level (Meatured by ISH) Express Bar
3732412D22RikCBCerebellum11.93
14.1
3732412D22RikCTXCerebral cortex85.22
89.32
3732412D22RikHIPHippocampal region55.52
78.36
3732412D22RikHPFHippocampal formation64.62
79.57
3732412D22RikHYHypothalamus4.85
3.88
3732412D22RikLSXLateral septal complex19.41
16.32
3732412D22RikMBMidbrain17.3
15.66
3732412D22RikMYMedulla20.93
23.38
3732412D22RikOLFOlfactory bulb64.9
68.81
3732412D22RikPPons16.65
17.98
3732412D22RikPALPallidum7.47
6.43
3732412D22RikRHPRetrohippocampal region71.57
80.34
3732412D22RiksAMYStriatum-like amygdalar nuclei10.34
9.46
3732412D22RikSTRStriatum22
18.29
3732412D22RikSTRdStriatum dorsal region24.28
20.35
3732412D22RikSTRvStriatum ventral region22.14
16.62
3732412D22RikTHThalamus7.12
6.59
Peptide Top
Peptide Name Peptide Lengh Peptide Start Peptide End Peptide Sequence Source
PAp00001938 13 576 588 ECPTVAPAHSLTK Peptide Atlas

Simple Query:


  (e.g. CHD8)

Syndromic Genes

Non-syndromic Genes

AutismKB Statistics

  • Studies: 1,036
  • Genes: 1,379
  • CNVs/SVs: 5,420
  • SNVs/Indels: 11,669
  • de novo Mutations: 5,669
  • Mosaics: 789
  • Linkage Regions: 172
  • Paper Collected: 6/30/2018
  • Last Update: 8/26/2018


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