AutismKB 2.0

Annotation Detail for PCDH9


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Basic Information Top
Gene Symbol:PCDH9 ( - )
Gene Full Name: protocadherin 9
Band: 13q21.32
Quick LinksEntrez ID:5101; OMIM: 603581; Uniprot ID:PCDH9_HUMAN; ENSEMBL ID: ENSG00000184226; HGNC ID: 8661
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 body0 / 707610 
blastocyst0 / 623190 
fetus11 / 56401219
neonate0 / 310970 
infant0 / 236200 
juvenile3 / 5555653
adult36 / 193912118
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
adrenal tumor0 / 127940 
bladder carcinoma0 / 174750 
breast (mammary gland) tumor0 / 941780 
cervical tumor0 / 343660 
chondrosarcoma0 / 828230 
colorectal tumor0 / 1142460 
esophageal tumor0 / 172900 
gastrointestinal tumor15 / 119369125
germ cell tumor2 / 2638457
glioma4 / 10688337
head and neck tumor1 / 1363027
kidney tumor0 / 689590 
leukemia5 / 9584252
liver tumor2 / 9635920
lung tumor3 / 10312729
lymphoma3 / 7175541
non-neoplasia4 / 9725041
normal88 / 336030726
ovarian tumor0 / 766820 
pancreatic tumor0 / 1046160 
primitive neuroectodermal tumor of the CNS0 / 1256800 
prostate cancer0 / 1026800 
retinoblastoma0 / 463560 
skin tumor0 / 1249490 
soft tissue/muscle tissue tumor0 / 1251910 
uterine tumor0 / 902570 
Pool Name Gene EST/Total EST in pool Transcripts per million(TPM) Bar based on TPM
adipose tissue0 / 131060 
adrenal gland0 / 331970 
ascites0 / 400150 
bladder0 / 297570 
blood1 / 1234788
bone1 / 7165513
bone marrow0 / 488010 
brain81 / 110098973
cervix0 / 481710 
connective tissue0 / 1492550 
ear2 / 16212123
embryonic tissue1 / 2157224
esophagus0 / 202090 
eye4 / 21105418
heart0 / 896260 
intestine14 / 23447259
kidney2 / 2117779
larynx0 / 241450 
liver2 / 2077439
lung3 / 3369748
lymph0 / 442700 
lymph node0 / 916100 
mammary gland0 / 1532710 
mouth0 / 670520 
muscle0 / 1077150 
nerve0 / 157680 
ovary0 / 1020510 
pancreas0 / 2148120 
parathyroid0 / 205390 
pharynx0 / 413280 
pituitary gland0 / 165850 
placenta1 / 2808253
prostate0 / 1893450 
salivary gland0 / 201550 
skin1 / 2105744
spleen0 / 539520 
stomach1 / 9661910
testis2 / 3304426
thymus3 / 8113136
thyroid1 / 4747321
tonsil0 / 169990 
trachea1 / 5241319
umbilical cord0 / 136800 
uterus0 / 2328780 
vascular2 / 5178038
Microarray in BioGPS Top
Select probe  
  • Microarray Platform: GeneAtlas U133A, gcrma
  • Affymatrix Probe ID: 219738_s_at
Cell line Expression level Expression bar
721_B_lymphoblasts10.25
Adipocyte8.75
AdrenalCortex12.95
Adrenalgland8.1
Amygdala470.25
Appendix12.7
AtrioventricularNode9.85
BDCA4+_DentriticCells8.2
Bonemarrow9.3
BronchialEpithelialCells8.3
CD105+_Endothelial8.65
CD14+_Monocytes9.4
CD19+_BCells(neg._sel.)9.15
CD33+_Myeloid10.65
CD34+11.05
CD4+_Tcells9.15
CD56+_NKCells9.7
CD71+_EarlyErythroid8.7
CD8+_Tcells7.95
CardiacMyocytes15.65
Caudatenucleus38.95
Cerebellum8.95
CerebellumPeduncles31.4
CiliaryGanglion9.9
CingulateCortex193.7
Colorectaladenocarcinoma8.65
DorsalRootGanglion10.2
FetalThyroid8.9
Fetalbrain36.95
Fetalliver7.8
Fetallung6.65
GlobusPallidus84.15
Heart13.9
Hypothalamus153.8
Kidney8.9
Leukemia_chronicMyelogenousK-5627.8
Leukemia_promyelocytic-HL-607.8
Leukemialymphoblastic(MOLT-4)6.7
Liver14.2
Lung9.55
Lymphnode7.1
Lymphoma_burkitts(Daudi)12.95
Lymphoma_burkitts(Raji)13.45
MedullaOblongata89.9
OccipitalLobe182.2
OlfactoryBulb23.4
Ovary7.4
Pancreas7.55
PancreaticIslet9.5
ParietalLobe211.3
Pituitary10.5
Placenta8.5
Pons79.85
PrefrontalCortex274.45
Prostate9.9
Salivarygland7.75
SkeletalMuscle12.85
Skin9.1
SmoothMuscle9.95
Spinalcord73.85
SubthalamicNucleus102.6
SuperiorCervicalGanglion15.45
TemporalLobe57.6
Testis7.45
TestisGermCell6.85
TestisIntersitial7.4
TestisLeydigCell9.2
TestisSeminiferousTubule7.55
Thalamus103.7
Thymus6.5
Thyroid10.3
Tongue10.65
Tonsil9.15
Trachea7.2
TrigeminalGanglion10.65
Uterus6.85
UterusCorpus8.5
WholeBlood9.35
Wholebrain97.45
colon8.65
pineal_day11.96
pineal_night10.74
retina55.675
small_intestine8.2
Allen Brain Atlas Top
Human Whole Brain Microarrayview in Allen Brain Atlas
  • Probe id     Donor id      
  • Probe name: A_24_P187218
  • 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
Amygdala9.9 ± 0.4
Basal Forebrain10.35 ± 0.22
Basal Part of Pons10.33 ± 0.34
Cerebellar Cortex9.83 ± 0.24
Cerebellar Nuclei10.3 ± 0.24
Claustrum10.14 ± 0.53
Epithalamus9.83 ± 0.61
Frontal Lobe10.33 ± 0.38
Globus Pallidus10.7 ± 0.35
Hypothalamus10.03 ± 0.37
Insula10.11 ± 0.24
Limbic Lobe10.01 ± 0.4
Mesencephalon10.15 ± 0.48
Myelencephalon10.18 ± 0.46
Occipital Lobe10.42 ± 0.4
Parietal Lobe10.19 ± 0.42
Pontine Tegmentum10.39 ± 0.35
Striatum10 ± 0.46
Subthalamus9.87 ± 0.07
Temporal Lobe10.26 ± 0.43
Thalamus10.52 ± 0.3
White Matter11.5 ± 0.2
Mouse Brain ISH
Gene Symbol Brain Structure ID Brain Structure Name Express Desity/Level (Meatured by ISH) Express Bar
Pcdh9CBCerebellum6.41
6.77
Pcdh9CTXCerebral cortex3.06
2.09
Pcdh9HIPHippocampal region8.38
5.8
Pcdh9HPFHippocampal formation8.91
6.35
Pcdh9HYHypothalamus3.16
2.29
Pcdh9LSXLateral septal complex0.69
0.51
Pcdh9MBMidbrain4.36
3.91
Pcdh9MYMedulla8.04
8.06
Pcdh9OLFOlfactory bulb5.77
4.2
Pcdh9PPons4.71
5.13
Pcdh9PALPallidum2.24
2.13
Pcdh9RHPRetrohippocampal region9.68
6.69
Pcdh9sAMYStriatum-like amygdalar nuclei2.93
1.73
Pcdh9STRStriatum1.2
0.89
Pcdh9STRdStriatum dorsal region0.74
0.65
Pcdh9STRvStriatum ventral region2.18
1.37
Pcdh9THThalamus8.89
6.81
Peptide Top

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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