SHOGoiN Cell ID: 3110001010000000000000-026

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 Adult3110001010000000000000026TrunkPancreasEndocrine pancreasIslet of LangerhansBeta cellCL:0000169387, 388, 389t072

SHOGoiN Cell Transcriptome

Expression Profile

GSM1901465

GSM1901469

GSM1901482

GSM1901490

GSM1901496

GSM1901506

GSM1901509

GSM1901517

GSM1901518

GSM1901519

GSM1901520

GSM1901523

SHOGoiN Cell Id3110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-026
Project NameSequence Read ArchiveSequence Read ArchiveSequence Read ArchiveSequence Read ArchiveSequence Read ArchiveSequence Read ArchiveSequence Read ArchiveSequence Read ArchiveSequence Read ArchiveSequence Read ArchiveSequence Read ArchiveSequence Read Archive
Project IdSRP064464SRP064464SRP064464SRP064464SRP064464SRP064464SRP064464SRP064464SRP064464SRP064464SRP064464SRP064464
Assay IdSRP064464_T11SRP064464_T15SRP064464_T26SRP064464_T34SRP064464_T40SRP064464_T47SRP064464_T50SRP064464_T57SRP064464_T58SRP064464_T59SRP064464_T60SRP064464_T63
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 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=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-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 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.atChristoph Bock, cbock@cemm.oeaw.ac.atChristoph Bock, cbock@cemm.oeaw.ac.atChristoph Bock, cbock@cemm.oeaw.ac.at
Project:reference Submission StatusPublishedPublishedPublishedPublishedPublishedPublishedPublishedPublishedPublishedPublishedPublishedPublished
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.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.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 Id266912122669121226691212266912122669121226691212266912122669121226691212266912122669121226691212
Assay:assay TypeTranscriptomeTranscriptomeTranscriptomeTranscriptomeTranscriptomeTranscriptomeTranscriptomeTranscriptomeTranscriptomeTranscriptomeTranscriptomeTranscriptome
Assay:assay Factor3110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-026
Source Cell:sample IdGSM1901465GSM1901469GSM1901482GSM1901490GSM1901496GSM1901506GSM1901509GSM1901517GSM1901518GSM1901519GSM1901520GSM1901523
Source Cell:SHOGoiN Cell Id3110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-026
Source Cell:source Cell TypeBeta cell (Pancreatic islet)Beta cell (Pancreatic islet)Beta cell (Pancreatic islet)Beta cell (Pancreatic islet)Beta cell (Pancreatic islet)Beta cell (Pancreatic islet)Beta cell (Pancreatic islet)Beta cell (Pancreatic islet)Beta cell (Pancreatic islet)Beta cell (Pancreatic islet)Beta cell (Pancreatic islet)Beta cell (Pancreatic islet)
Source Cell:source OrganismHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHuman
Source Cell:race Or StrainMaleMaleMaleMaleMaleMaleMaleMaleMaleMaleMaleMale
Source Cell:age Or Stage37 y/o37 y/o37 y/o37 y/o37 y/o37 y/o37 y/o37 y/o37 y/o37 y/o37 y/o37 y/o
Source Cell:source Tissue Or OrganPancreasPancreasPancreasPancreasPancreasPancreasPancreasPancreasPancreasPancreasPancreasPancreas
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 BMI was 22 BMI was 22 BMI was 22
Source Cell:source Provider
Technology:assay TechnologyRNA-SeqRNA-SeqRNA-SeqRNA-SeqRNA-SeqRNA-SeqRNA-SeqRNA-SeqRNA-SeqRNA-SeqRNA-SeqRNA-Seq
Technology:assay Detection InstrumentationHiSeq 2000HiSeq 2000HiSeq 2000HiSeq 2000HiSeq 2000HiSeq 2000HiSeq 2000HiSeq 2000HiSeq 2000HiSeq 2000HiSeq 2000HiSeq 2000
Technology:assay Detection Instrument VendorIlluminaIlluminaIlluminaIlluminaIlluminaIlluminaIlluminaIlluminaIlluminaIlluminaIlluminaIllumina
Technology:assessed MaterialpolyA RNApolyA RNApolyA RNApolyA 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, culturedSingle cell, culturedSingle cell, culturedSingle cell, cultured
Technology:source Cell Identidication Method
Technology:source Cell Treatment
Data:data IdSRR2558121SRR2558125SRR2558138SRR2558146SRR2558152SRR2558162SRR2558165SRR2558173SRR2558174SRR2558175SRR2558176SRR2558179
Data:data TypeSequenceSequenceSequenceSequenceSequenceSequenceSequenceSequenceSequenceSequenceSequenceSequence
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 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 Sourcehg19hg19hg19hg19hg19hg19hg19hg19hg19hg19hg19hg19
Data:genome Annotation Ref

SHOGoiN Cell Marker

Cell Type NameBeta cellBeta cellBeta cellBeta cellBeta cellBeta cellBeta cell Bata cellBata cellBata cellBata cellBata cellBata cellBata cellBata cellBata cellBata cellBata cellBata cellBata cellBata cellBata cellBata cell
Cell Type Subclass
SHOGoiN Cell Id3110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-0263110001010000000000000-026
Anatomical LocationPancreasPancreasPancreasPancreasPancreasPancreasPancreasPancreas, 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:nameInsulin Motor neuron and pancreas homeobox protein 1 (Hlxb9)Transcription factor MafAHomeobox protein CDX-2 (Cdx2/3)Solute carrier family 2, facilitated glucose transporter member 2 (Glucose transporter 2, GLUT2)Homeobox protein Nkx-6.1 (Homeobox protein NK-6 homolog A)insulin (INS)Islet amyloid polypeptide (Amylin, Diabetes-associated peptide, DAP, Insulinoma amyloid peptide, IAPP)Neuronal pentraxin-2 (NP2, Neuronal pentraxin II, NP-II, NPTX2)Protein delta homolog 1 (DLK-1, pG2, DLK1, DLK)Pituitary adenylate cyclase-activating polypeptide (PACAP, ADCYAP1)6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase 2 (6PF-2-K/Fru-2,6-P2ase 2, PFK/FBPase 2, 6PF-2-K/Fru-2,6-P2ase heart-type isozyme, PFKFB2)Pancreas/duodenum homeobox protein 1 (PDX-1, Glucose-sensitive factor, GSF, Insulin promoter factor 1, IPF-1, Insulin upstream factor 1, IUF-1, Islet/duodenum homeobox-1, IDX-1, Somatostatin-transactivating factor 1, STF-1, PDX1, IPF1, STF1)Transforming growth factor beta receptor type 3 (TGF-beta receptor type 3, TGFR-3, Betaglycan, Transforming growth factor beta receptor III, TGF-beta receptor type III, TGFBR3)Synaptotagmin-13 (Synaptotagmin XIII, SytXIII, SYT13, KIAA1427)Pancreas/duodenum homeobox protein 1 (PDX-1, Glucose-sensitive factor, GSF, Insulin promoter factor 1, IPF-1, Insulin upstream factor 1, IUF-1, Islet/duodenum homeobox-1, IDX-1, Somatostatin-transactivating factor 1, STF-1, PDX1, IPF1, STF1)Mothers against decapentaplegic homolog 9 (MAD homolog 9, Mothers against DPP homolog 9, Madh6, SMAD family member 9, SMAD 9, Smad9, SMAD9, MADH6, MADH9)Cyclin-dependent kinase inhibitor 1C (Cyclin-dependent kinase inhibitor p57, p57Kip2, CDKN1C, KIP2)Transcription factor CP2-like protein 1 (CP2-related transcriptional repressor 1, CRTR-1, Transcription factor LBP-9, TFCP2L1, CRTR1, LBP9)Homeobox protein SIX3 (Sine oculis homeobox homolog 3, SIX3)Homeobox protein SIX2 (Sine oculis homeobox homolog 2, SIX2)Bone morphogenetic protein 5 (BMP-5)Pirin (Probable quercetin 2,3-dioxygenase PIR, Probable quercetinase, PIR)
Marker Molecule:typePeptide hormoneProteinProteinProteinProteinProteinProteinGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGeneGene
Marker Molecule:categorySecretedTranscription factorTranscription factorTranscription factorTranscription factorTranscription factorTranscription factorTranscription factorTranscription factorTranscription factorTranscription factorTranscription factorTranscription factor
Subcellular LocalizationEndprasmic reticulumNucleusNucleusNucleusPlasma membraneNucleusSecretedSecretedSecretedPlasma membraneSecretedNucleus, CytosolSecreted, Plasma membranePlasma membraneNucleus, CytosolNucleus, CytosolNucleusNucleusNucleusNucleusSecretedNucleus, Cytosol
Uniprot IdP01308P50219Q8NHW3Q99626P11168P78426P01308P10997P47972P80370P18509O60825P52945Q03167Q7L8C5P52945O15198P49918Q9NZI6O95343Q9NPC8P22003O00625
Gene Id363033754885878811652083651704957586365140931028298426496107366538544
Source OrganismHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHumanHuman
ReferencePMID:22974359PMID:10471501PMID:22974359PMID:22974359PMID:22974359PMID:24035389PMID:26691212PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023PMID:27693023

Image

SHOGoiN Cell Id3110001010000000000000-0263110001010000000000000-0263110001010000000000000-026
Image Id

387

388

389

TissuePancreasPancreasPancreas
Cell TypeBeta cellBeta cellBeta 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