SHOGoiN Cell ID: 3110001010000000000000-212

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 Adult3110001010000000000000212TrunkPancreasEndocrine pancreasIslet of LangerhansPP cellCL:0002275399, 400, 401t072

SHOGoiN Cell Transcriptome

Expression Profile

GSM1901458

GSM1901460

GSM1901467

GSM1901468

GSM1901474

GSM1901479

GSM1901492

GSM1901499

GSM1901504

SHOGoiN Cell Id3110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-212
Project NameSequence Read ArchiveSequence Read ArchiveSequence Read ArchiveSequence Read ArchiveSequence Read ArchiveSequence Read ArchiveSequence Read ArchiveSequence Read ArchiveSequence Read Archive
Project IdSRP064464SRP064464SRP064464SRP064464SRP064464SRP064464SRP064464SRP064464SRP064464
Assay IdSRP064464_T4SRP064464_T6SRP064464_T13SRP064464_T14SRP064464_T19SRP064464_T23SRP064464_T36SRP064464_T43SRP064464_T45
Project:project TitleSingle-cell transcriptomics reveals unique features of human pancreatic islet cell subtypesSingle-cell transcriptomics reveals unique features of human pancreatic islet cell subtypesSingle-cell transcriptomics reveals unique features of human pancreatic islet cell subtypesSingle-cell transcriptomics reveals unique features of human pancreatic islet cell subtypesSingle-cell transcriptomics reveals unique features of human pancreatic islet cell subtypesSingle-cell transcriptomics reveals unique features of human pancreatic islet cell subtypesSingle-cell transcriptomics reveals unique features of human pancreatic islet cell subtypesSingle-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=GSE73727http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE73727http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE73727http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE73727http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE73727http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE73727http://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-155-Oct-155-Oct-155-Oct-155-Oct-155-Oct-155-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 SciencesCeMM Research Center for Molecular Medicine of the Austrian Academy of SciencesCeMM Research Center for Molecular Medicine of the Austrian Academy of SciencesCeMM Research Center for Molecular Medicine of the Austrian Academy of SciencesCeMM Research Center for Molecular Medicine of the Austrian Academy of SciencesCeMM Research Center for Molecular Medicine of the Austrian Academy of SciencesCeMM 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.atChristoph Bock, cbock@cemm.oeaw.ac.atChristoph Bock, cbock@cemm.oeaw.ac.atChristoph Bock, cbock@cemm.oeaw.ac.atChristoph Bock, cbock@cemm.oeaw.ac.atChristoph Bock, cbock@cemm.oeaw.ac.atChristoph Bock, cbock@cemm.oeaw.ac.atChristoph Bock, cbock@cemm.oeaw.ac.at
Project:reference Submission StatusPublishedPublishedPublishedPublishedPublishedPublishedPublishedPublishedPublished
Project:reference AuthorsLi J, Klughammer J, Farlik M, Penz T et al.Li J, Klughammer J, Farlik M, Penz T et al.Li J, Klughammer J, Farlik M, Penz T et al.Li J, Klughammer J, Farlik M, Penz T et al.Li J, Klughammer J, Farlik M, Penz T et al.Li J, Klughammer J, Farlik M, Penz T et al.Li J, Klughammer J, Farlik M, Penz T et al.Li 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.Single-cell transcriptomes reveal characteristic features of human pancreatic islet cell types.Single-cell transcriptomes reveal characteristic features of human pancreatic islet cell types.Single-cell transcriptomes reveal characteristic features of human pancreatic islet cell types.Single-cell transcriptomes reveal characteristic features of human pancreatic islet cell types.Single-cell transcriptomes reveal characteristic features of human pancreatic islet cell types.Single-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 Id266912122669121226691212266912122669121226691212266912122669121226691212
Assay:assay TypeTranscriptomeTranscriptomeTranscriptomeTranscriptomeTranscriptomeTranscriptomeTranscriptomeTranscriptomeTranscriptome
Assay:assay Factor3110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-212
Source Cell:sample IdGSM1901458GSM1901460GSM1901467GSM1901468GSM1901474GSM1901479GSM1901492GSM1901499GSM1901504
Source Cell:SHOGoiN Cell Id3110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-212
Source Cell:source Cell TypePP cell (Pancreatic islet)PP cell (Pancreatic islet)PP cell (Pancreatic islet)PP cell (Pancreatic islet)PP cell (Pancreatic islet)PP cell (Pancreatic islet)PP cell (Pancreatic islet)PP cell (Pancreatic islet)PP cell (Pancreatic islet)
Source Cell:source OrganismHumanHumanHumanHumanHumanHumanHumanHumanHuman
Source Cell:race Or StrainMaleMaleMaleMaleMaleMaleMaleMaleMale
Source Cell:age Or Stage37 y/o37 y/o37 y/o37 y/o37 y/o37 y/o37 y/o37 y/o37 y/o
Source Cell:source Tissue Or OrganPancreasPancreasPancreasPancreasPancreasPancreasPancreasPancreasPancreas
Source Cell:source Cell Karyotype
Source Cell:cell Lineage
Source Cell:organism Genetic Information
Source Cell:health StatusBMI was 22 BMI was 22 BMI was 22 BMI was 22 BMI was 22 BMI was 22 BMI was 22 BMI was 22 BMI was 22
Source Cell:source Provider
Technology:assay TechnologyRNA-SeqRNA-SeqRNA-SeqRNA-SeqRNA-SeqRNA-SeqRNA-SeqRNA-SeqRNA-Seq
Technology:assay Detection InstrumentationHiSeq 2000HiSeq 2000HiSeq 2000HiSeq 2000HiSeq 2000HiSeq 2000HiSeq 2000HiSeq 2000HiSeq 2000
Technology:assay Detection Instrument VendorIlluminaIlluminaIlluminaIlluminaIlluminaIlluminaIlluminaIlluminaIllumina
Technology:assessed MaterialpolyA RNApolyA RNApolyA RNApolyA RNApolyA RNApolyA RNApolyA RNApolyA RNApolyA RNA
Technology:source Cell Format
Technology:source Cell Preparation MethodSingle cell, culturedSingle cell, culturedSingle cell, culturedSingle cell, culturedSingle cell, culturedSingle cell, culturedSingle cell, culturedSingle cell, culturedSingle cell, cultured
Technology:source Cell Identidication Method
Technology:source Cell Treatment
Data:data IdSRR2558114SRR2558116SRR2558123SRR2558124SRR2558130SRR2558135SRR2558148SRR2558155SRR2558160
Data:data TypeSequenceSequenceSequenceSequenceSequenceSequenceSequenceSequenceSequence
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 sampleTab-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 sampleTab-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 sampleTab-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 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 Sourcehg19hg19hg19hg19hg19hg19hg19hg19hg19
Data:genome Annotation Ref

SHOGoiN Cell Marker

Cell Type NamePP cellPP cellPP cellPP cellPP cellPP cellPP cellPP cellPP cellPP cellPP cellPP cellPP cellPP cellPP cellPP cellPP cellPP cellPP cellPP cellPP cell
Cell Type Subclass
SHOGoiN Cell Id3110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-2123110001010000000000000-212
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:namePancreatic polypeptidePancreatic prohormone (Pancreatic polypeptide, PP, INN: Obinepitide, PPY, PNP)Serine-rich and transmembrane domain-containing protein 1 (SERTM1, C13orf36)Cocaine-and amphetamine-regulated transcript protein (CARTPT, CART)SLIT and NTRK-like protein 6 (SLITRK6)ETS translocation variant 1 (Ets-related protein 81, ETV1, ER81)Thrombospondin type-1 domain-containing protein 7A (THSD7A, KIAA0960)Aquaporin-3 (AQP-3, Aquaglyceroporin-3, AQP3)Ectonucleoside triphosphate diphosphohydrolase 2 (NTPDase 2, CD39 antigen-like 1, Ecto-ATP diphosphohydrolase 2, Ecto-ATPDase 2, Ecto-ATPase 2, ENTPD2, CD39L1)Prostaglandin F2-alpha receptor (PGF receptor, PGF2-alpha receptor, Prostanoid FP receptor, PTGFR)Beta-chimaerin (Beta-chimerin, Rho GTPase-activating protein 3, CHN2, ARHGAP3, BCH)ETS translocation variant 1 (Ets-related protein 81, ETV1, ER81)Homeobox protein Meis2 (Meis1-related protein 1, MEIS2, MRG1)DNA-binding protein inhibitor ID-2 (Class B basic helix-loop-helix protein 26, bHLHb26, Inhibitor of DNA binding 2, Inhibitor of differentiation 2, ID2, BHLHB26)Early growth response protein 3 (EGR-3, Zinc finger protein pilot, EGR3, PILOT)LIM domain only protein 3 (LMO-3, Neuronal-specific transcription factor DAT1, Rhombotin-3, LMO3, RBTN3, RBTNL2, RHOM3)Homeobox protein Meis1 (MEIS1)DNA-binding protein inhibitor ID-4 (Class B basic helix-loop-helix protein 27, bHLHb27, Inhibitor of DNA binding 4, Inhibitor of differentiation 4, ID4, BHLHB27)Homeobox protein ARX (Aristaless-related homeobox, ARX)Paired box protein Pax-6 (Aniridia type II protein, Oculorhombin, PAX6, AN2)Zinc finger protein 506 (ZNF506)
Marker Molecule:typeProteinProteinGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGene
Marker Molecule:categoryTranscription factorTranscription factorTranscription factorTranscription factorTranscription factorTranscription factorTranscription factorTranscription factorTranscription factorTranscription factor
Subcellular LocalizationSecretedPlasma membraneSecretedPlasma membraneNucleusPlasma membranePlasma membranePlasma membranePlasma membranePlasma membraneNucleusNucleus, CytosolCytosol, NucleusNucleus NucleusNucleusNucleusNucleusNucleus
Uniprot Id P01298A2A2V5Q16568Q9H5Y7P50549Q9UPZ6Q92482Q9Y5L3P43088P52757P50549O14770Q02363Q06889Q8TAP4O00470P47928Q96QS3P26367Q5JVG8
Gene Id5539400120960784189211522198136095457371124211542123398196055885421134001703025080440515
Source OrganismHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHuman
ReferencePMID:7025798PMID:26691212PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023

Image

SHOGoiN Cell Id3110001010000000000000-2123110001010000000000000-2123110001010000000000000-212
Image Id

399

400

401

TissuePancreasPancreasPancreas
Cell TypePP cellPP cellPP 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