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Culture Medium
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1)
LWRN Complete Medium: 50% L-WRN 24hr conditioned medium prepared as in Miyoshi to 10% FBS final; 50% 2X Human Complete Medium; 100ng/mL huEGF, 500nM A83-01; 3.0-10µM SB202190 (human only); 10mM Y27632 (at passaging or first 10 days after isolation; ±10nM Nicotinamide (first 24 hrs of isolation); 2.5µM CHIR (at passaging and first 48hrs after isolation); 2.5µg/ml amphotericin (first 48hrs after isolation).
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2)
Advanced Complete Basal Medium: 50% 2X Basal Medium in Advanced DMEM/F12; 100ng/mL huEGF.
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3)
KGMG (Lonza 195769 KGM-gold): made to 0.15mM Ca+2 with CaCl2 (PromCell); discard GA-1000 from kit; 25μg/ml gentamicin (½X); 50μg/ml Primocin (½X), ± 500nM A 83-01
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4)
LWRN Complete Medium 2: 50% L-WRN 24hr conditioned medium prepared as in Miyoshi to 10% FBS final; 50% 2X Human Complete Medium; 100ng/mL huEGF; 10µM Y27632 (at passaging and first 24hrs after isolation); 50µg/mL Primocin (first 24hrs after isolation); 4µM CHIR99021 (first 72hrs after isolation); 100nM SB431542 (first 72hrs after isolation); 2.5µM Thiazovivin (first 72hrs after isolation)
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Human 2X Basal Medium: Advanced DMEM/F-12, 4mM GlutaMax (2X), 20mM HEPES (2X), 2X N-2 Supplement, 2X B-27 Supplement, 2mM N-Acetyl-L-cysteine (2X), 20mM Nicotinamide (2x), 200 units/mL Penicillin (2X), 0.20 ng/mL streptomycin (2X)
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IDIRB REP00000105
Not Regulated
Adult or FetalAgeGenderOrganLocation (colon)Disease type or normalCell TypeCulture MediumGenomic Variants/Analysis
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28200064405adult66FColonascendingAdenoma (45mm); tubularEpithelium2, 3APC Ala759fs, APC Gln1429*, ATM Arg337His, ATM Lys926Glu, EP300 Pro1802Pro, MSH2 R909Q
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30000064405adult59MColontransverseAdenoma (10mm)Epithelium3APC Ser985fs, APC Arg1450*, BRCA1 Leu954Leu, BRAF Thr599dup, APC E1317Q
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46900064405adult86MColoncecum, ascendingAdenoma (60mm)Epithelium1APC Gln1378*, APC Glu536*, TCF7L2 Ser35fs, KRAS Gly12Asp, KRAS Gly12Ser
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56900038437adult18FColonsigmoidAdenoma (≥10mm)Epithelium3APC Ser1355fs, ATM Phe858Leu, ATM Pro1054Arg, KRAS Ala146Thr, KRAS Gly12Val.
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57400038437adult69FColon
hepatic flexure, proximal transverse
Adenoma (15mm)Epithelium3APC Arg876*, APC Glu1464*
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57500064405adult73MColonascendingAdenoma (30mm)Epithelium3APC Arg1450*, APC His864fs, DMD Lys34Asn, KRAS Gln61His
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58400038437adult61MColonascendingAdenoma (20mm)Epithelium3APC Thr1556fs, KRAS Ala146Val, MET Arg988Cys, PMS2 Gly29Ala, TP53 Arg267Trp, EP300 Asp1579Asn
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59000038437adult58FColonascending
Adenoma (35mm); tubular; matched normal below
Epithelium2, 3BUB1B Arg550*, FLCN His429fs, MLH1 Lys443fs, MSH3 Lys381fs, PALB2 Met296fs, TCERG1 Arg889fs, CTNNA1 Met826Thr, CTNNB1 Ser45Phe, MAP2K4 Val127Ala, MLH3 Pro564Ser, PIK3R1 Arg188Cys
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72600064405adult51MColonascendingAdenoma (15mm)Epithelium1APC Ser837*, APC Arg1450* and AXIN2 Phe791Cys
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73500064405adult72MColonascendingAdenoma (25mm)Epithelium3APC Leu665*, APC Arg1450*, CTNNB1 Ala126Ser, KRAS Gly12Asp
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77200064405adult79FColonrectumAdenoma (20mm)Epithelium1APC Arg216*, APC Glu225*, AKT1 Gly393Gly, PIK3R1 Ile82fs
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14­881
00030020 Not Regulated
adult46MColonrectum
Adenoma (associated with adenocarcinoma)
Epithelium3TP53 Pro151Ser, KRAS Gly12Asp, APC Pro1443fs
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23600064405adult26FColonascendingAdenoma: FAP (2 mm)Epithelium1APC Thr1556fs, APC Leu143fs, MLH3 E624Q
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66400064405adult52MColoncecumAdenoma (2-5mm)Epithelium1MSH6 A20V
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24500064405adult54FColonascendingAdenoma: Sessile serrated (20mm)Epithelium1BRAF Val600Glu, WBSCR17 Ser432Ser
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70800064405adult76FColoncecumAdenoma: Sessile serrated (23mm)Epithelium1BRAF Val600Glu, DCC Asn472fs
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78100064405adult52FColondescendingAdenocarcinomaEpithelium3PIK3CA Glu545Lys, TP53 Phe113delPhe, APC Arg232*
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81500064405adult74FColoncecumAdenocarcinomaEpithelium3KRAS Gly12Asp, APC Glu1309*, APC Glu1379*, MLH3 Asp1131Gly, EGFR Val323Ile, AKT1 Thr197Thr
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86100064405adult76FColonascendingAdenocarcinomaEpithelium3SMAD4 Arg361His, PMS2 Thr9Ser, BRAF Val600Glu, APC Thr1556fs, APC Leu749fs, SLC9A9 Ala445Thr, BRCA1 Ser1517Pro, CDC27 Ala15Thr, WBSCR17 Ala577Val, PIK3CA Asn345Lys, DMD Arg550His, SLC9A9 Ile397fs, PMS2 M622I
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2100064405adult57MColonascendingAdenocarcinoma: IBD-associatedEpithelium3APC Gly1312*, TP53 Gly266Arg, PIK3CA Glu726Lys, KRAS Ala146Thr, BRAF Gly469Ala, PIK3CA Arg38Cys
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590 N00038437adult58+3FColondescending
Histologically normal; matched adenoma above
Epithelium1Not analyzed
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Prep 78
00105750 Not Regulated
adult52FColonascendingNormalEpithelium1Not analyzed
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Prep 80
00105750 Not Regulated
adult29FColonascendingNormalEpithelium1Not analyzed
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Prep 81
00105750 Not Regulated
adult49FColonascendingNormalEpithelium1RNAseq
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Prep 83
00105750 Not Regulated
adult45FColonascendingNormalEpithelium1RNAseq
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Prep 84
00105750 Not Regulated
adult56FColonascendingNormalEpithelium1RNAseq
35
Prep 85
00105750 Not Regulated
adult62FColonascendingNormalEpithelium1RNAseq
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Prep 87
00105750 Not Regulated
adult21MColonascendingNormalEpithelium1RNAseq
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Prep 88
00105750 Not Regulated
adult33FColonascendingNormalEpithelium1RNAseq
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Prep 89
00105750 Not Regulated
adult55MColonascendingNormalEpithelium1RNAseq
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Prep 81
00105750 Not Regulated
adult49FDuodenumNormalEpithelium1Not analyzed
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Prep 83
00105750 Not Regulated
adult45FDuodenumNormalEpithelium1Not analyzed
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Prep 84
00105750 Not Regulated
adult56FDuodenumNormalEpithelium1Not analyzed
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Prep 85
00105750 Not Regulated
adult62FDuodenumNormalEpithelium1Not analyzed
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Prep 87
00105750 Not Regulated
adult21MDuodenumNormalEpithelium1Not analyzed
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Prep 88
00105750 Not Regulated
adult33FDuodenumNormalEpithelium1Not analyzed
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Prep 89
00105750 Not Regulated
adult55MDuodenumNormalEpithelium1Not analyzed
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Prep 87
00105750 Not Regulated
adult21MColonascendingNormal
Mesenchyme
1Not analyzed
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Prep 88
00105750 Not Regulated
adult33FColonascendingNormal
Mesenchyme
1Not analyzed
49
ht-098
00041845 broadly equivalent to not regulated
adult70FColonNormalEpithelium4RNAseq
50
ht-099
00041845 broadly equivalent to not regulated
adult59FColonNormalEpithelium4RNAseq
51
ht-100
00041845 broadly equivalent to not regulated
adult67MColonNormalEpithelium4RNAseq
52
ht-101
00041845 broadly equivalent to not regulated
adult59FDuodenum, ColonNormalEpithelium4RNAseq
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ht-102
00041845 broadly equivalent to not regulated
adult61FColonNormalEpithelium4RNAseq
54
ht-103
00041845 broadly equivalent to not regulated
adult63FColonNormalEpithelium4RNAseq
55
ht-104
00041845 broadly equivalent to not regulated
adult51MIleum, ColonNormalEpithelium4RNAseq
56
ht-105
00041845 broadly equivalent to not regulated
adult19MIleum, ColonNormalEpithelium4RNAseq
57
ht-114
00039121adult43MDuodenumNormalEpithelium4RNAseq
58
ht-115
00039121adult46FDuodenumNormalEpithelium4RNAseq
59
ht-116
00039121adult54FDuodenumNormalEpithelium4RNAseq
60
ht-117
00039121adult67FDuodenumNormalEpithelium4RNAseq
61
ht-118
00041845 broadly equivalent to not regulated
adult43MColonNormalEpithelium4Not analyzed
62
ht-119
00041845 broadly equivalent to not regulated
adult53FColonNormalEpithelium4Not analyzed
63
ht-127
00041845 broadly equivalent to not regulated
adult52FStomachNormalEpithelium4RNAseq
64
ht-128
00041845 broadly equivalent to not regulated
adult60FStomachNormalEpithelium4RNAseq
65
ht-129
00041845 broadly equivalent to not regulated
adult60MStomachNormalEpithelium4RNAseq
66
ht-130
00041845 broadly equivalent to not regulated
adult68MStomachNormalEpithelium4RNAseq
67
ht-131
00041845 broadly equivalent to not regulated
adult58FColonAdenomaEpithelium4RNAseq
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ht-133
00137277 Not Regulated
adult
not known
M
Ileum, sigmoid colon, cecum
sigmoidPhenotypically NormalEpithelium4RNAseq (further variant information)
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ht-134
00137277 Not Regulated
adult
not known
F
Ileum, sigmoid colon, cecum
sigmoidNormalEpithelium4RNAseq
70
ht-068
00093465 Not Regulated
fetal87dM
Duodenum, Jejunum, Ileum, Colon
NormalEpithelium4Not analyzed
71
ht-069
00093465 Not Regulated
fetal87dUnknownDuodenumNormalEpithelium4Not analyzed
72
ht-071
00093465 Not Regulated
fetal142dUnknownDuodenumNormalEpithelium4Not analyzed
73
ht-081
00093465 Not Regulated
fetal105dUnknownDuodenum, ColonNormalEpithelium4Not analyzed
74
ht-082
00093465 Not Regulated
fetal89dFDuodenumNormalEpithelium4Not analyzed
75
ht-083
00093465 Not Regulated
fetal59dFDuodenumNormalEpithelium4Not analyzed
76
ht-085
00093465 Not Regulated
fetal125dFDuodenum, ColonNormalEpithelium4Not analyzed
77
ht-086
00093465 Not Regulated
fetal130dMDuodenumNormalEpithelium4Not analyzed
78
ht-087
00093465 Not Regulated
fetal135dFDuodenumNormalEpithelium4Not analyzed
79
ht-090
00093465 Not Regulated
fetal129dUnknownColonNormalEpithelium4Not analyzed
80
ht-093
00093465 Not Regulated
fetal115dFDuodenum/JejunumNormalEpithelium4Not analyzed
81
ht-094
00093465 Not Regulated
fetal125dM
Duodenum/Jejunum, Colon
NormalEpithelium4Not analyzed
82
ht-095
00093465 Not Regulated
fetal91dMDuodenum, ColonNormalEpithelium4Not analyzed
83
ht-096
00093465 Not Regulated
fetal108dMDuodenumNormalEpithelium4Not analyzed
84
ht-097
00093465 Not Regulated
fetal108dMDuodenum, ColonNormalEpithelium4Not analyzed
85
ht-109
00093465 Not Regulated
fetal132dMDuodenumNormalEpithelium4Not analyzed
86
ht-120
00093465 Not Regulated
fetal127dFDuodenum, ColonNormalEpithelium4Not analyzed
87
ht-121
00093465 Not Regulated
fetal79dFDuodenum, ColonNormalEpithelium4Not analyzed
88
ht-122
00093465 Not Regulated
fetal91dMDuodenum, ColonNormalEpithelium4Not analyzed
89
ht-124
00093465 Not Regulated
fetal117dM
Duodenum, Jejunum, Ileum, Colon
NormalEpithelium4Not analyzed
90
ht-126
00093465 Not Regulated
fetal101dF
Duodenum, Jejunum, Ileum
NormalEpithelium4Not analyzed
91
ht-136
00093465 Not Regulated
fetal54dUnknownDuodenumNormalEpithelium4Not analyzed
92
ht-143
00093465 Not Regulated
fetal110dM
Duodenum, Jejunum, Ileum, colon
NormalEpithelium4Not analyzed
93
ht-144
00093465 Not Regulated
fetal95dF
Duodenum, Ileum, colon
NormalEpithelium4Not analyzed
94
ht-155
00093465 Not Regulated
fetal132dMDuodenumNormalEpithelium4Not analyzed
95
ht-158
00093465 Not Regulated
fetal122dFDuodenumNormalEpithelium4Not analyzed
96
ht-159
00093465 Not Regulated
fetal103dFDuodenumNormalEpithelium4Not analyzed
97
ht-160
00093465 Not Regulated
fetal101dMDuodenumNormalEpithelium4Not analyzed
98
ht-184
00093466 Not Regulated
fetal85dFDuodenum, JejunumNormalEpithelium4Not analyzed
99
ht-185
00041845 broadly equivalent to not regulated
adult54MDuodenumNormal margin to UCEpithelium 1Not analyzed
100
ht-188
00041845 broadly equivalent to not regulated
adult50FDuodenumNormal margin to UCEpithelium 1Not analyzed
101
ht-213
00041845 broadly equivalent to not regulated
adult36F
Colon (transcending, descending, ascending), Duodenum
transcending, descending, ascending
Normal margin to UCEpithelium 1
102
ht-215
00041845 broadly equivalent to not regulated
adult59F
Colon (transcending, descending), Duodenum
transcending, descending
NormalEpithelium 1
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