Human Omics database for
the Generation of iPS and Normal Cells
Release notes
Statistics
Document manuals
FAQ
All Modules
Cell Taxonomy(Human cell)
Cell Taxonomy(C. Elegans cell)
Cell Taxonomy(Sea Urchin cell)
Transcriptome Sample(Single-cell)
Transcriptome Project(Single-cell)
Methylome Sample(Single-cell)
Methylome Project(Single-cell)
Cell Conversion(Differentiation)
Cell Conversion(Transdifferentiation)
Cell Marker(from literature)
Cell Image
Tissue Image
Image : Cell Image ID 457
No.
SHOGoiN cell id
Image (Image ID)
Title
Sample
Method
Contact
Morphologic Feature
Note
1
8010000000000000000000-005
457
Immune system (blood):Lymphocyte:Human
Location
Stomach
Age
68
Sex
male
Race
Japanese
Disease
gastric cancer
Cause Of Death
-
Date
2011.9.22
Condition
normal or mild epithelium hyperplasia
Embedding Mehtod
paraffin
Staining Mehtod
hematoxylin
Microscope
OLYMPUS BX50
Camera
OLYMPUS DP20
Image Size (pixels)
1200x1600
Resolution (ppi)
72
magnification
400
Person
Koji Yamanegi
E-mail
yamanegi@hyo-med.ac.jp
Telephone
0798-45-6432
Fax
0798-45-6431
Affiliation
Department of clinical pathology, Hyogo collage of medicine
Address
1-1, Mukogawa, Nishinomiya, Hyogo
Cell
Nucleus
Nucleus/Cell
Area
660
224
Area ratio
0.339394
Circularity
0.735018
0.852689
Eccentricity1
0.0534197
Convex area
255
Eccentricity2
0.0442097
Bending energy
2.22727
1.52
Eccentricity3
0.0990607
Elliptic long axis
31.9888
20.0681
Eccentricity3
0.0990607
Inertia moment
71803.6
8491.83
Eccentricity4
0.0704708
SHOGoiN Cell Taxonomy
Homo sapiens
&
Mus musculus
cell
Differentiated (1)
Stem (0)
Embryo (0)
No.
Germ Layer
Differentiation State
Source Age
Anatomy Id
Cell Type Id
Anatomy:body Part
Anatomy:organ
Anatomy:sub-organ
Anatomy:tissue 1
Anatomy:tissue 2
Anatomy:tissue 3
Anatomy:tissue 4
Anatomy:tissue 5-1
Anatomy:tissue 5-2
Anatomy:tissue 5-3
Anatomy:tissue 5-4
Cell Type
Synonym
CL Id
UBERON Id
Image Id
Tissue Image ID
1
4
Mesodermal
4
Terminally differentiated
6
Fetus
7
Postnatal
8
Neonatal
9
Infant
10
Juvenile
11
Adult
8010000000000000000000
005
Immune system class
Blood
Lymphocyte
CL:0000542
37
,
53
,
78
,
157
,
158
,
159
,
160
,
161
,
402
,
414
,
426
,
456
,
457
,
499
,
509
,
510
,
517
,
527
,
533
,
599
,
600
,
601
Image
SHOGoiN Cell Id
8010000000000000000000-005
8010000000000000000000-005
8010000000000000000000-005
8010000000000000000000-005
8010000000000000000000-005
8010000000000000000000-005
8010000000000000000000-005
8010000000000000000000-005
8010000000000000000000-005
8010000000000000000000-005
8010000000000000000000-005
8010000000000000000000-005
8010000000000000000000-005
8010000000000000000000-005
8010000000000000000000-005
8010000000000000000000-005
8010000000000000000000-005
8010000000000000000000-005
8010000000000000000000-005
8010000000000000000000-005
8010000000000000000000-005
8010000000000000000000-005
Image Id
37
53
78
157
158
159
160
161
402
414
426
456
457
499
509
510
517
527
533
599
600
601
Tissue
Immune system (blood)
Bone
Immune system (blood)
Immune system (blood)
Immune system (blood)
Immune system (blood)
Immune system (blood)
Immune system (blood)
Immune system (blood)
Immune system (blood)
Immune system (blood)
Immune system (blood)
Immune system (blood)
Immune system (blood)
Immune system (blood)
Immune system (blood)
Immune system (blood)
Immune system (blood)
Immune system (blood)
Immune system (blood)
Immune system (blood)
Immune system (blood)
Cell Type
Lymphocyte
Lymphocyte
Lymphocyte
Lymphocyte
Lymphocyte
Lymphocyte
Lymphocyte
Lymphocyte
Lymphocyte
Lymphocyte
Lymphocyte
Lymphocyte
Lymphocyte
Lymphocyte
Lymphocyte
Lymphocyte
Lymphocyte
Lymphocyte
Lymphocyte
Lymphocyte
Lymphocyte
Lymphocyte
Organism
Human
Human
Human
Human
Human
Human
Human
Human
Human
Human
Human
Human
Human
Human
Human
Human
Human
Human
Human
Human
Human
Human
Cell Strain
Location
Small intestine
Bone
Stomach
Ureter
Ureter
Ureter
Ureter
Ureter
Large intestine
Nose
Stomach
Stomach
Stomach
Mouth
Mouth
Mouth
Nose
Immune system
Immune system
Immune system
Immune system
Immune system
Karyotype
Race
Japanese
Japanese
Japanese
Japanese
Japanese
Japanese
Japanese
Japanese
Japanese
Japanese
Japanese
Japanese
Japanese
Japanese
Japanese
Japanese
Japanese
Japanese
Japanese
Japanese
Age
74
74
74
74
74
74
68
40
68
68
68
61
68
68
31
79
79
79
79
79
Sex
Male
female
female
female
female
female
male
female
male
male
male
male
female
female
female
Female
Female
Female
Female
Female
Medium
Serum
Other Chemical
Feeder
Other Treatment
Culture Period
Differentiaion
Self Renewal Ability
Onocogenic Transformation
Knock Out Gene
Knock In Gene
Disease
stomach cancer colitis or Crohn's disease
bladder cancer
bladder cancer
bladder cancer
bladder cancer
bladder cancer
appendicitis
granuloma teleangiectaticum
gastric cancer
gastric cancer
gastric cancer
Mild epithelial hyperplasia with parakeratosis
Pleomorphic adenoma
Pleomorphic adenoma
Jaw deformity
Ascending colon cancer
Ascending colon cancer
Ascending colon cancer
Ascending colon cancer
Ascending colon cancer
Cod
Shooting Date
2008.1.5
2005.8.12
2008.9.6
2008.9.6
2008.9.6
2008.9.6
2008.9.6
2011.4.8
2011.9.22
2011.9.22
2011.9.22
2011.9.22
2011.9.22
2011.9.22
2011.9.22
2011.9.22
2013.08.01
2013.08.01
2013.08.01
2013.08.01
2013.08.01
Shooting Condition
tissue from normal or mild esophagitis
normal tissue or mild epithelial hyperplasia
normal tissue or mild epithelial hyperplasia
normal tissue or mild epithelial hyperplasia
normal tissue or mild epithelial hyperplasia
normal tissue or mild epithelial hyperplasia
normal or mild epithelium hyperplasia
normal or mild columnar epithelium hyperplasia
normal or mild epithelium hyperplasia
normal or mild epithelium hyperplasia
normal or mild epithelium hyperplasia
normal or mild epithelium hyperplasia
normal
normal
normal or mild epithelium hyperplasia
Embedding
Paraffin
Paraffin
Paraffin
Paraffin
Paraffin
Paraffin
Paraffin
paraffin
paraffin
paraffin
paraffin
paraffin
paraffin
paraffin
paraffin
paraffin
Paraffin
Paraffin
Paraffin
Paraffin
Paraffin
Staining
Hematoxylin
Hematoxylin
Hematoxylin
Hematoxylin
Hematoxylin
Hematoxylin
Hematoxylin
hematoxylin
hematoxylin
hematoxylin
hematoxylin
hematoxylin
hematoxylin
hematoxylin
hematoxylin
hematoxylin
Hematoxylin
Hematoxylin
Hematoxylin
Hematoxylin
Hematoxylin
Microscope
OLYMPUS DX50
OLYMPUS DX51
OLYMPUS DX50
OLYMPUS DX50
OLYMPUS DX50
OLYMPUS DX50
OLYMPUS DX50
OLYMPUS BX50
OLYMPUS BX50
OLYMPUS BX50
OLYMPUS BX50
OLYMPUS BX50
OLYMPUS BX50
OLYMPUS BX50
OLYMPUS BX50
OLYMPUS BX50
OLYMPUS DX50
OLYMPUS DX50
OLYMPUS DX50
OLYMPUS DX50
OLYMPUS DX50
Camera
OLYMPUS DP20
OLYMPUS DP21
OLYMPUS DP20
OLYMPUS DP20
OLYMPUS DP20
OLYMPUS DP20
OLYMPUS DP20
OLYMPUS DP20
OLYMPUS DP20
OLYMPUS DP20
OLYMPUS DP20
OLYMPUS DP20
OLYMPUS DP20
OLYMPUS DP20
OLYMPUS DP20
OLYMPUS DP20
OLYMPUS DP20
OLYMPUS DP20
OLYMPUS DP20
OLYMPUS DP20
OLYMPUS DP20
Image Size X
1600
1600
1600
1600
1600
1600
1600
1600
1600
1600
1600
1600
1600
1600
1600
1600
1600
1600
1600
1600
1600
Image Size Y
1200
1392
1200
1200
1200
1200
1200
1200
1200
1200
1200
1200
1200
1200
1200
1200
1200
1200
1200
1200
1200
1200
Resolution
72
1040
72
72
72
72
72
72
72
72
72
72
72
72
72
72
72
72
72
72
72
72
Magnification
400
400
400
400
400
400
400
400
400
400
400
400
400
400
400
400
400
400
400
400
400
Contact Person
Koji Yamanegi
Takayuki Masuda
Koji Yamanegi
Koji Yamanegi
Koji Yamanegi
Koji Yamanegi
Koji Yamanegi
Koji Yamanegi
Koji Yamanegi
Koji Yamanegi
Koji Yamanegi
Koji Yamanegi
Koji Yamanegi
Koji Yamanegi
Koji Yamanegi
Koji Yamanegi
Koji Yamanegi
Koji Yamanegi
Koji Yamanegi
Koji Yamanegi
Koji Yamanegi
Koji Yamanegi
Email
yamanegi@hyo-med.ac.jp
masudat@mail.tains.tohoku.ac.jp
yamanegi@hyo-med.ac.jp
yamanegi@hyo-med.ac.jp
yamanegi@hyo-med.ac.jp
yamanegi@hyo-med.ac.jp
yamanegi@hyo-med.ac.jp
yamanegi@hyo-med.ac.jp
yamanegi@hyo-med.ac.jp
yamanegi@hyo-med.ac.jp
yamanegi@hyo-med.ac.jp
yamanegi@hyo-med.ac.jp
yamanegi@hyo-med.ac.jp
yamanegi@hyo-med.ac.jp
yamanegi@hyo-med.ac.jp
yamanegi@hyo-med.ac.jp
yamanegi@hyo-med.ac.jp
yamanegi@hyo-med.ac.jp
yamanegi@hyo-med.ac.jp
yamanegi@hyo-med.ac.jp
yamanegi@hyo-med.ac.jp
yamanegi@hyo-med.ac.jp
Telephone
0798-45-6432
0798-45-6432
0798-45-6432
0798-45-6432
0798-45-6432
0798-45-6432
0798-45-6432
0798-45-6432
0798-45-6432
0798-45-6432
0798-45-6432
0798-45-6432
0798-45-6432
0798-45-6432
0798-45-6432
0798-45-6432
0798-45-6432
0798-45-6432
0798-45-6432
0798-45-6432
0798-45-6432
Fax
0798-45-6431
0798-45-6431
0798-45-6431
0798-45-6431
0798-45-6431
0798-45-6431
0798-45-6431
0798-45-6431
0798-45-6431
0798-45-6431
0798-45-6431
0798-45-6431
0798-45-6431
0798-45-6431
0798-45-6431
0798-45-6431
0798-45-6431
0798-45-6431
0798-45-6431
0798-45-6431
0798-45-6431
Affiliation
Department of clinical pathology, Hyogo collage of medicine
Microbiology and Immunology, Department. of Medical Technology, School of Medicine, Tohoku University
Department of clinical pathology, Hyogo collage of medicine
Department of clinical pathology, Hyogo collage of medicine
Department of clinical pathology, Hyogo collage of medicine
Department of clinical pathology, Hyogo collage of medicine
Department of clinical pathology, Hyogo collage of medicine
Department of clinical pathology, Hyogo collage of medicine
Department of clinical pathology, Hyogo collage of medicine
Department of clinical pathology, Hyogo collage of medicine
Department of clinical pathology, Hyogo collage of medicine
Department of clinical pathology, Hyogo collage of medicine
Department of clinical pathology, Hyogo collage of medicine
Department of clinical pathology, Hyogo collage of medicine
Department of clinical pathology, Hyogo collage of medicine
Department of clinical pathology, Hyogo collage of medicine
Department of clinical pathology, Hyogo collage of medicine
Department of clinical pathology, Hyogo collage of medicine
Department of clinical pathology, Hyogo collage of medicine
Department of clinical pathology, Hyogo collage of medicine
Department of clinical pathology, Hyogo collage of medicine
Department of clinical pathology, Hyogo collage of medicine
Zip Code
663-8501
980-8575
663-8501
663-8501
663-8501
663-8501
663-8501
663-8501
663-8501
663-8501
663-8501
663-8501
663-8501
663-8501
663-8501
663-8501
663-8501
663-8501
663-8501
663-8501
663-8501
663-8501
Address
1-1, Mukogawa, Nishinomiya, Hyogo
2-1, Seiryo-machi, Aoba-ku, Sendai, Miyagi
1-1, Mukogawa, Nishinomiya, Hyogo
1-1, Mukogawa, Nishinomiya, Hyogo
1-1, Mukogawa, Nishinomiya, Hyogo
1-1, Mukogawa, Nishinomiya, Hyogo
1-1, Mukogawa, Nishinomiya, Hyogo
1-1, Mukogawa, Nishinomiya, Hyogo
1-1, Mukogawa, Nishinomiya, Hyogo
1-1, Mukogawa, Nishinomiya, Hyogo
1-1, Mukogawa, Nishinomiya, Hyogo
1-1, Mukogawa, Nishinomiya, Hyogo
1-1, Mukogawa, Nishinomiya, Hyogo
1-1, Mukogawa, Nishinomiya, Hyogo
1-1, Mukogawa, Nishinomiya, Hyogo
1-1, Mukogawa, Nishinomiya, Hyogo
1-1, Mukogawa, Nishinomiya, Hyogo
1-1, Mukogawa, Nishinomiya, Hyogo
1-1, Mukogawa, Nishinomiya, Hyogo
1-1, Mukogawa, Nishinomiya, Hyogo
1-1, Mukogawa, Nishinomiya, Hyogo
1-1, Mukogawa, Nishinomiya, Hyogo
Country
Japan
Japan
Japan
Japan
Japan
Japan
Japan
Japan
Japan
Japan
Japan
Japan
Japan
Japan
Japan
Japan
Japan
Japan
Japan
Japan
Japan
Japan
Note
Nucleous Area
373
365.5
433
270.5
468
507
591
376.5
214.5
258.5
260
418
224
273.5
374.5
290.5
252
854.5
806
918.5
442
870.5
Nucleous Circularity
0.87
0.81
0.88
0.892954
0.875897
0.521142
0.74355
0.87925
0.868863
0.862912
0.884733
0.632746
0.852689
0.847052
0.776694
0.710129
0.881377
0.572503
0.325836
0.636992
0.411179
0.444057
Nucleous Bending
415
410
478
2.22642
0.388889
2.38298
1.08889
2.79365
1.61702
2.54902
1.52
1.60976
1.52
2.47273
2.73846
1.26984
1.52
2.48696
1.375
2.1982
4.18367
3.03704
Nucleous Convex Area
22624.1
22916.4
30589.3
300
509
635
651
413
244
293
292
474
255
309
419
336
284
999
1181
1042
589
1091
Nucleous Ellipse Long Axis
23.78
25.74
26.05
20.6788
27.6531
28.4076
38.4505
23.2979
19.3364
19.6253
19.0659
38.2463
20.0681
19.2729
28.4128
27.8815
19.6162
36.1317
56.1729
44.0009
26.1236
36.9552
Nucleous Inertia
1.26
0.62
1.21
11979.4
36398.3
42791.5
68345.3
22948.9
7688.87
10797.1
10895.4
43401.5
8491.83
12023.4
26290.6
17645.4
10342.9
118673
230594
153074
33823.1
126970
Cell Area
872
1322.5
757
496
782.5
507
1566.5
691.5
214.5
365
403
1077.5
660
592
1403
1416.5
476.5
228.5
343
183.5
203
410.5
Cell Circularity
0.61
0.52
0.41
0.42195
0.657141
0.521142
0.560303
0.678673
0.868863
0.626003
0.582335
0.549651
0.735018
0.478327
0.635901
0.523435
0.351775
0.914272
0.513728
0.862763
0.854841
0.826296
Cell Bending
3.79
2.08
2.92
4.72
3.25234
2.38298
2.83436
3.46392
1.61702
3
4.35
3.74815
2.22727
2.01923
3.34286
2.52903
4.55856
0.285714
0.55
1.72093
1.5
1.37313
Cell Convex Area
1014
1540
999
645
916
635
1803
790
256
403
209
229
458
Cell Ellipse Long Axis
40.81
51.38
39.24
29.7407
35.2814
28.4076
52.1175
30.4182
19.3364
22.2554
24.4413
55.8904
31.9888
29.5902
47.0745
50.0291
27.5666
18.9525
38.6207
15.9789
18.9851
26.351
Cell Inertia
133146
311737
103158
42611.4
102388
42791.5
412236
77347.9
7688.87
21703.1
26759.8
257750
71803.6
57524.6
325012
345844
38700
8529.07
35696.4
5465.35
6952.02
28227.4
Cell-nucleous Area Ratio
0.43
0.28
0.57
0.545363
0.598083
0.686391
0.377274
0.544469
1
0.708219
0.645161
0.387935
0.339394
0.461993
0.266928
0.205083
0.528856
3.73961
2.34985
5.00545
2.17734
2.12058
Cell-nucleous Eccentricity1
0.15
0.03
0.04
0.0445715
0.0701972
0
0.0773152
0.0687825
0
0
0
0.0904936
0.0534197
0.0860518
0.073569
0.246546
0.096392
0.268229
0.269857
0.213025
0.163494
0.100176
Cell-nucleous Eccentricity2
0.1
0.02
0.03
0.033624
0.0566871
0
0.0575622
0.06575
0
0
0
0.0400081
0.0442097
0.075568
0.0600841
0.181002
0.081115
0.217549
0.0818803
0.197904
0.11778
0.0758984
Cell-nucleous Eccentricity3
0.21
0.05
0.05
0.0597851
0.0925772
0
0.151588
0.0965456
0
0
0
0.157408
0.0990607
0.123006
0.166358
0.675073
0.135309
0.133921
0.146849
0.118068
0.099341
0.0648008
Cell-nucleous Eccentricity4
0.17
0.04
0.04
0.0483587
0.0723247
0
0.0780223
0.0858445
0
0
0
0.058465
0.0704708
0.116021
0.0995477
0.324782
0.113991
0.114113
0.0562954
0.0718685
0.0855957
0.0541196