SHOGoiN Cell ID: 3110001010000000000000-067

SHOGoiN Cell Taxonomy

Homo sapiens & Mus musculus cell

No.Germ LayerDifferentiation StateSource AgeAnatomy IdCell Type IdAnatomy:body PartAnatomy:organAnatomy:sub-organAnatomy:tissue 1Anatomy:tissue 2Anatomy:tissue 3Anatomy:tissue 4Anatomy:tissue 5-1Anatomy:tissue 5-2Anatomy:tissue 5-3Anatomy:tissue 5-4Cell TypeSynonymCL IdUBERON IdImage IdTissue Image ID
13 Endodermal4 Terminally differentiated6 Fetus state 7 Postnatal state 8 Neonatal state 9 Infant state 10 Juvenile 11 Adult3110001010000000000000067TrunkPancreasEndocrine pancreasIslet of LangerhansDelta cellCL:0000173393, 394, 395t072

SHOGoiN Cell Transcriptome

Expression Profile

GSM1901457

GSM1901462

SHOGoiN Cell Id3110001010000000000000-0673110001010000000000000-067
Project NameSequence Read ArchiveSequence Read Archive
Project IdSRP064464SRP064464
Assay IdSRP064464_T3SRP064464_T8
Project:project TitleSingle-cell transcriptomics reveals unique features of human pancreatic islet cell subtypesSingle-cell transcriptomics reveals unique features of human pancreatic islet cell subtypes
Project:project Descriptionhttp://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE73727http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE73727
Project:project Submission Date5-Oct-155-Oct-15
Project:organization NameCeMM Research Center for Molecular Medicine of the Austrian Academy of SciencesCeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
Project:stable Contact InformationChristoph Bock, cbock@cemm.oeaw.ac.atChristoph Bock, cbock@cemm.oeaw.ac.at
Project:reference Submission StatusPublishedPublished
Project:reference AuthorsLi J, Klughammer J, Farlik M, Penz T et al.Li J, Klughammer J, Farlik M, Penz T et al.
Project:reference TitleSingle-cell transcriptomes reveal characteristic features of human pancreatic islet cell types.Single-cell transcriptomes reveal characteristic features of human pancreatic islet cell types.
Project:reference Pubmed Id2669121226691212
Assay:assay TypeTranscriptomeTranscriptome
Assay:assay Factor3110001010000000000000-0673110001010000000000000-067
Source Cell:sample IdGSM1901457GSM1901462
Source Cell:SHOGoiN Cell Id3110001010000000000000-0673110001010000000000000-067
Source Cell:source Cell TypeDelta cell (Pancreatic islet)Delta cell (Pancreatic islet)
Source Cell:source OrganismHumanHuman
Source Cell:race Or StrainMaleMale
Source Cell:age Or Stage37 y/o37 y/o
Source Cell:source Tissue Or OrganPancreasPancreas
Source Cell:source Cell Karyotype
Source Cell:cell Lineage
Source Cell:organism Genetic Information
Source Cell:health StatusBMI was 22 BMI was 22
Source Cell:source Provider
Technology:assay TechnologyRNA-SeqRNA-Seq
Technology:assay Detection InstrumentationHiSeq 2000HiSeq 2000
Technology:assay Detection Instrument VendorIlluminaIllumina
Technology:assessed MaterialpolyA RNApolyA RNA
Technology:source Cell Format
Technology:source Cell Preparation MethodSingle cell, culturedSingle cell, cultured
Technology:source Cell Identidication Method
Technology:source Cell Treatment
Data:data IdSRR2558113SRR2558118
Data:data TypeSequenceSequence
Data:data Processing Method
Data:data Processing Software And Version
Data:data Normalization MethodTab-delimited text files include transcript-wise RPKM values or read counts for each sampleTab-delimited text files include transcript-wise RPKM values or read counts for each sample
Data:data Normalization Software Name And Version
Data:data Analytical Software And Version
Data:reference Sequence Sourcehg19hg19
Data:genome Annotation Ref

SHOGoiN Cell Marker

Cell Type NameDelta cellDelta cellDelta cellDelta cellDelta cellDelta cellDelta cellDelta cellDelta cellDelta cellDelta cellDelta cellDelta cellDelta cellDelta cellDelta cellDelta cellDelta cellDelta cellDelta cellDelta cell
Cell Type Subclass
SHOGoiN Cell Id3110001010000000000000-0673110001010000000000000-0673110001010000000000000-0673110001010000000000000-0673110001010000000000000-0673110001010000000000000-0673110001010000000000000-0673110001010000000000000-0673110001010000000000000-0673110001010000000000000-0673110001010000000000000-0673110001010000000000000-0673110001010000000000000-0673110001010000000000000-0673110001010000000000000-0673110001010000000000000-0673110001010000000000000-0673110001010000000000000-0673110001010000000000000-0673110001010000000000000-0673110001010000000000000-067
Anatomical LocationPancreasPancreasPancreas, islet of LangerhansPancreas, islet of LangerhansPancreas, islet of LangerhansPancreas, islet of LangerhansPancreas, islet of LangerhansPancreas, islet of LangerhansPancreas, islet of LangerhansPancreas, islet of LangerhansPancreas, islet of LangerhansPancreas, islet of LangerhansPancreas, islet of LangerhansPancreas, islet of LangerhansPancreas, islet of LangerhansPancreas, islet of LangerhansPancreas, islet of LangerhansPancreas, islet of LangerhansPancreas, islet of LangerhansPancreas, islet of LangerhansPancreas, islet of Langerhans
Marker Molecule:namesomatostatinProtein patched homolog 1Proteoglycan 4 (Lubricin, Megakaryocyte-stimulating factor, Superficial zone proteoglycan, PRG4, MSF, SZP)Leptin receptor (LEP-R, HuB219, OB receptor, OB-R, CD295, LEPR, DB, OBR)Retinol-binding protein 4 (Plasma retinol-binding protein, PRBP, RBP, RBP4)Cholinesterase (Acylcholine acylhydrolase, Butyrylcholine esterase, Choline esterase II, Pseudocholinesterase, BCHE, CHE1)Hematopoietically-expressed homeobox protein HHEX (Homeobox protein HEX, Homeobox protein PRH, HHEX, PRH, PRHX)Secreted frizzled-related protein 3 (sFRP-3, Frezzled, Fritz, Frizzled-related protein 1, FrzB-1, FRZB, FIZ, FRE, FRP, FRZB1, SFRP3)Neuroendocrine convertase 1 (NEC 1, Prohormone convertase 1, Proprotein convertase 1, PC1, PCSK1, NEC1)Regulator of G-protein signaling 2 (RGS2, Cell growth-inhibiting gene 31 protein, G0/G1 switch regulatory protein 8, RGS2, G0S8)Gamma-aminobutyric acid receptor subunit gamma-2 (GABA(A) receptor subunit gamma-2, GABRG2)Hematopoietically-expressed homeobox protein HHEX (Homeobox protein HEX, Homeobox protein PRH, HHEX, PRH, PRHX)Receptor tyrosine-protein kinase erbB-4 (Proto-oncogene-like protein c-ErbB-4, Tyrosine kinase-type cell surface receptor HER4, p180erbB4, ERBB4, HER4)POU domain, class 3, transcription factor 1 (Octamer-binding protein 6, Oct-6, Octamer-binding transcription factor 6, OTF-6, POU domain transcription factor SCIP, POU3F1, OCT6, OTF6)Insulin gene enhancer protein ISL-1 (Islet-1, ISL1)PC4 and SFRS1-interacting protein (CLL-associated antigen KW-7, Dense fine speckles 70 kDa protein, DFS 70, Lens epithelium-derived growth factor, Transcriptional coactivator p75/p52, PSIP1, DFS70, LEDGF, PSIP2)Class E basic helix-loop-helix protein 41 (bHLHe41, Class B basic helix-loop-helix protein 3, bHLHb3, Differentially expressed in chondrocytes protein 2, hDEC2, Enhancer-of-split and hairy-related protein 1, SHARP-1, BHLHE41, BHLHB3, DEC2, SHARP1)PDZ and LIM domain protein 4 (LIM protein RIL, Reversion-induced LIM protein, PDLIM4, RIL)ETS homologous factor (hEHF, ETS domain-containing transcription factor, Epithelium-specific Ets transcription factor 3, ESE-3, EHF, ESE3, ESE3B, ESEJ)Ligand-dependent nuclear receptor corepressor-like protein (LCoR-like protein, LCORL)ETS translocation variant 1 (Ets-related protein 81, ETV1, ER81)
Marker Molecule:typePeptide hormoneProteinGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGene
Marker Molecule:categorySecretedTranscription factorTranscription factorTranscription factorTranscription factorTranscription factorTranscription factorTranscription factorTranscription factorTranscription factorTranscription factor
Subcellular LocalizationEndprasmic reticulumPlasma membraneSecretedPlasma membraneSecretedSecretedNucleusSecretedCytoplasmic vesiclePlasma membranePlasma membraneNucleusPlasma membraneNucleusNucleusNucleusNucleusNucleus NucleusNucleusNucleus
Uniprot IdP61278Q13635Q92954P48357P02753P06276Q03014Q92765P29120P41220P18507Q03014Q15303Q03052P61371O75475Q9C0J9P50479Q9NZC4Q8N3X6P50549
Gene Id102163953595059030872487512259972566308720665453367011168793658572262982542512115
Source OrganismHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHuman
ReferencePMID:22069255PMID:22069255PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023

Image

SHOGoiN Cell Id3110001010000000000000-0673110001010000000000000-0673110001010000000000000-067
Image Id

393

394

395

TissuePancreasPancreasPancreas
Cell TypeDelta cellDelta cellDelta cell
OrganismHumanHumanHuman
Cell Strain
LocationPancreasPancreasPancreas
Karyotype
RaceJapaneseJapaneseJapanese
Age575757
Sexmalemalemale
Medium
Serum
Other Chemical
Feeder
Other Treatment
Culture Period
Differentiaion
Self Renewal Ability
Onocogenic Transformation
Knock Out Gene
Knock In Gene
Diseasemalignant pleural mesothelioma malignant pleural mesothelioma malignant pleural mesothelioma
Cod
Shooting Date2010.12.102010.12.102010.12.10
Shooting Conditionnormal tissue or mild fibrosingnormal tissue or mild fibrosingnormal tissue or mild fibrosing
Embeddingparaffinparaffinparaffin
Staininghematoxylinhematoxylinhematoxylin
MicroscopeOLYMPUS BX50OLYMPUS BX50OLYMPUS BX50
CameraOLYMPUS DP20OLYMPUS DP20OLYMPUS DP20
Image Size X160016001600
Image Size Y120012001200
Resolution727272
Magnification400400400
Contact PersonKoji YamanegiKoji YamanegiKoji Yamanegi
Emailyamanegi@hyo-med.ac.jp yamanegi@hyo-med.ac.jp yamanegi@hyo-med.ac.jp
Telephone0798-45-64320798-45-64320798-45-6432
Fax0798-45-64310798-45-64310798-45-6431
AffiliationDepartment of clinical pathology, Hyogo collage of medicineDepartment of clinical pathology, Hyogo collage of medicineDepartment of clinical pathology, Hyogo collage of medicine
Zip Code663-8501663-8501663-8501
Address1-1, Mukogawa, Nishinomiya, Hyogo1-1, Mukogawa, Nishinomiya, Hyogo1-1, Mukogawa, Nishinomiya, Hyogo
CountryJapanJapanJapan
Note
Nucleous Area
Nucleous Circularity
Nucleous Bending
Nucleous Convex Area
Nucleous Ellipse Long Axis
Nucleous Inertia
Cell Area
Cell Circularity
Cell Bending
Cell Convex Area
Cell Ellipse Long Axis
Cell Inertia
Cell-nucleous Area Ratio
Cell-nucleous Eccentricity1
Cell-nucleous Eccentricity2
Cell-nucleous Eccentricity3
Cell-nucleous Eccentricity4