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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Mar 05, 2020 |
| Title |
Nutrient regulation of liver gene expression |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
We have obtained RNAseq data from the livers of male C57BL/6J and BALB/c that were maintained on a low-fat (10 kcal%fat) diet (PicoLab Mouse Diet 5053) and then fasted overnight or following fasting fed with low-fat diet supplemented with or without 20% glucose, fructose or sucrose in their drinking water for 3, 6 and 12 h. Out of 130 mice, we have successfully obtained 128 liver mRNAseq datasets that are currently being analyzed for differences in specific gene expression, the extent of gene expression and the inter-strain variability among replicates for each gene in each strain and under each dietary condition. We have observed distinct expression differences in terms of the time course and magnitude of gene expression changes between these two strains of mice. These differences also are dependent upon the specific carbohydrate present in each diet.
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| Overall design |
Male mice at 8 weeks of age were purchased from the Jackson Laboratory and trained for 1 week for a well timed fasting and feeding protocol. On the last day of training, after fasting for 21 h, mice were sacrificed at 0, 3, 6 and 12 h following feeding and their livers were isolated and snap frozen in liquid N2. Total RNA was extracted. RNAseq ~ 30 million reads, 150 bp pair-ended were obtained.
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| Contributor(s) |
Chi Y, Liu L, Pessin JE |
| Citation(s) |
32075912, 34643091 |
| Submission date |
Sep 13, 2019 |
| Last update date |
Oct 21, 2021 |
| Contact name |
Jeffrey E Pessin |
| E-mail(s) |
Jeffrey.Pessin@einsteinmed.edu
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| Organization name |
Albert Einstein College of Medicine
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| Department |
Medicine and Molecular Pharmacology
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| Lab |
Diabetes Research Center
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| Street address |
1301 Morris Park Avenue
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| City |
Bronx |
| State/province |
NY |
| ZIP/Postal code |
10461 |
| Country |
USA |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (128)
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| GSM4077953 |
Liver, C57BL6/J, Control Water, 0h (JC001) |
| GSM4077954 |
Liver, BALB/c, Control Water, 0h (JC002) |
| GSM4077955 |
Liver, C57BL6/J, Control Water, 3h (JC003) |
| GSM4077956 |
Liver, C57BL6/J, Control Water + 20% Glucose, 3h (JC004) |
| GSM4077957 |
Liver, C57BL6/J, Control Water + 20% Sucrose, 3h (JC005) |
| GSM4077958 |
Liver, C57BL6/J, Control Water + 20% Fructose, 3h (JC006) |
| GSM4077959 |
Liver, BALB/c, Control Water, 3h (JC007) |
| GSM4077960 |
Liver, BALB/c, Control Water + 20% Glucose, 3h (JC008) |
| GSM4077961 |
Liver, BALB/c, Control Water + 20% Sucrose, 3h (JC009) |
| GSM4077962 |
Liver, BALB/c, Control Water + 20% Fructose, 3h (JC010) |
| GSM4077963 |
Liver, C57BL6/J, Control Water, 6h (JC011) |
| GSM4077964 |
Liver, C57BL6/J, Control Water + 20% Glucose, 6h (JC012) |
| GSM4077965 |
Liver, C57BL6/J, Control Water + 20% Sucrose, 6h (JC013) |
| GSM4077966 |
Liver, C57BL6/J, Control Water + 20% Fructose, 6h (JC014) |
| GSM4077967 |
Liver, BALB/c, Control Water, 6h (JC015) |
| GSM4077968 |
Liver, BALB/c, Control Water + 20% Glucose, 6h (JC016) |
| GSM4077969 |
Liver, BALB/c, Control Water + 20% Sucrose, 6h (JC017) |
| GSM4077970 |
Liver, BALB/c, Control Water + 20% Fructose, 6h (JC018) |
| GSM4077971 |
Liver, C57BL6/J, Control Water, 12h (JC019) |
| GSM4077972 |
Liver, C57BL6/J, Control Water + 20% Glucose, 12h (JC020) |
| GSM4077973 |
Liver, C57BL6/J, Control Water + 20% Sucrose, 12h (JC021) |
| GSM4077974 |
Liver, C57BL6/J, Control Water + 20% Fructose, 12h (JC022) |
| GSM4077975 |
Liver, BALB/c, Control Water, 12h (JC023) |
| GSM4077976 |
Liver, BALB/c, Control Water + 20% Glucose, 12h (JC024) |
| GSM4077977 |
Liver, BALB/c, Control Water + 20% Sucrose, 12h (JC025) |
| GSM4077978 |
Liver, BALB/c, Control Water + 20% Fructose, 12h (JC026) |
| GSM4077979 |
Liver, C57BL6/J, Control Water, 0h (JC027) |
| GSM4077980 |
Liver, BALB/c, Control Water, 0h (JC028) |
| GSM4077981 |
Liver, C57BL6/J, Control Water, 3h (JC029) |
| GSM4077982 |
Liver, C57BL6/J, Control Water + 20% Glucose, 3h (JC030) |
| GSM4077983 |
Liver, C57BL6/J, Control Water + 20% Sucrose, 3h (JC031) |
| GSM4077984 |
Liver, C57BL6/J, Control Water + 20% Fructose, 3h (JC032) |
| GSM4077985 |
Liver, BALB/c, Control Water, 3h (JC033) |
| GSM4077986 |
Liver, BALB/c, Control Water + 20% Glucose, 3h (JC034) |
| GSM4077987 |
Liver, BALB/c, Control Water + 20% Sucrose, 3h (JC035) |
| GSM4077988 |
Liver, BALB/c, Control Water + 20% Fructose, 3h (JC036) |
| GSM4077989 |
Liver, C57BL6/J, Control Water, 6h (JC037) |
| GSM4077990 |
Liver, C57BL6/J, Control Water + 20% Glucose, 6h (JC038) |
| GSM4077991 |
Liver, C57BL6/J, Control Water + 20% Sucrose, 6h (JC039) |
| GSM4077992 |
Liver, C57BL6/J, Control Water + 20% Fructose, 6h (JC040) |
| GSM4077993 |
Liver, BALB/c, Control Water, 6h (JC041) |
| GSM4077994 |
Liver, BALB/c, Control Water + 20% Glucose, 6h (JC042) |
| GSM4077995 |
Liver, BALB/c, Control Water + 20% Sucrose, 6h (JC043) |
| GSM4077996 |
Liver, BALB/c, Control Water + 20% Fructose, 6h (JC044) |
| GSM4077997 |
Liver, C57BL6/J, Control Water, 12h (JC045) |
| GSM4077998 |
Liver, C57BL6/J, Control Water + 20% Glucose, 12h (JC046) |
| GSM4077999 |
Liver, C57BL6/J, Control Water + 20% Sucrose, 12h (JC047) |
| GSM4078000 |
Liver, C57BL6/J, Control Water + 20% Fructose, 12h (JC048) |
| GSM4078001 |
Liver, BALB/c, Control Water, 12h (JC049) |
| GSM4078002 |
Liver, BALB/c, Control Water + 20% Glucose, 12h (JC050) |
| GSM4078003 |
Liver, BALB/c, Control Water + 20% Sucrose, 12h (JC051) |
| GSM4078004 |
Liver, BALB/c, Control Water + 20% Fructose, 12h (JC052) |
| GSM4078005 |
Liver, C57BL6/J, Control Water, 0h (JC053) |
| GSM4078006 |
Liver, BALB/c, Control Water, 0h (JC054) |
| GSM4078007 |
Liver, C57BL6/J, Control Water, 3h (JC055) |
| GSM4078008 |
Liver, C57BL6/J, Control Water + 20% Glucose, 3h (JC056) |
| GSM4078009 |
Liver, C57BL6/J, Control Water + 20% Sucrose, 3h (JC057) |
| GSM4078010 |
Liver, C57BL6/J, Control Water + 20% Fructose, 3h (JC058) |
| GSM4078011 |
Liver, BALB/c, Control Water, 3h (JC059) |
| GSM4078012 |
Liver, BALB/c, Control Water + 20% Glucose, 3h (JC060) |
| GSM4078013 |
Liver, BALB/c, Control Water + 20% Sucrose, 3h (JC061) |
| GSM4078014 |
Liver, BALB/c, Control Water + 20% Fructose, 3h (JC062) |
| GSM4078015 |
Liver, C57BL6/J, Control Water, 6h (JC063) |
| GSM4078016 |
Liver, C57BL6/J, Control Water + 20% Glucose, 6h (JC064) |
| GSM4078017 |
Liver, C57BL6/J, Control Water + 20% Sucrose, 6h (JC065) |
| GSM4078018 |
Liver, C57BL6/J, Control Water + 20% Fructose, 6h (JC066) |
| GSM4078019 |
Liver, BALB/c, Control Water, 6h (JC067) |
| GSM4078020 |
Liver, BALB/c, Control Water + 20% Glucose, 6h (JC068) |
| GSM4078021 |
Liver, BALB/c, Control Water + 20% Sucrose, 6h (JC069) |
| GSM4078022 |
Liver, BALB/c, Control Water + 20% Fructose, 6h (JC070) |
| GSM4078023 |
Liver, C57BL6/J, Control Water, 12h (JC071) |
| GSM4078024 |
Liver, C57BL6/J, Control Water + 20% Glucose, 12h (JC072) |
| GSM4078025 |
Liver, C57BL6/J, Control Water + 20% Sucrose, 12h (JC073) |
| GSM4078026 |
Liver, C57BL6/J, Control Water + 20% Fructose, 12h (JC074) |
| GSM4078027 |
Liver, BALB/c, Control Water, 12h (JC075) |
| GSM4078028 |
Liver, BALB/c, Control Water + 20% Glucose, 12h (JC076) |
| GSM4078029 |
Liver, BALB/c, Control Water + 20% Sucrose, 12h (JC077) |
| GSM4078030 |
Liver, BALB/c, Control Water + 20% Fructose, 12h (JC078) |
| GSM4078031 |
Liver, C57BL6/J, Control Water, 0h (JC079) |
| GSM4078032 |
Liver, BALB/c, Control Water, 0h (JC080) |
| GSM4078033 |
Liver, C57BL6/J, Control Water, 3h (JC081) |
| GSM4078034 |
Liver, C57BL6/J, Control Water + 20% Glucose, 3h (JC082) |
| GSM4078035 |
Liver, C57BL6/J, Control Water + 20% Sucrose, 3h (JC083) |
| GSM4078036 |
Liver, C57BL6/J, Control Water + 20% Fructose, 3h (JC084) |
| GSM4078037 |
Liver, BALB/c, Control Water, 3h (JC085) |
| GSM4078038 |
Liver, BALB/c, Control Water + 20% Glucose, 3h (JC086) |
| GSM4078039 |
Liver, BALB/c, Control Water + 20% Sucrose, 3h (JC087) |
| GSM4078040 |
Liver, BALB/c, Control Water + 20% Fructose, 3h (JC088) |
| GSM4078041 |
Liver, C57BL6/J, Control Water, 6h (JC089) |
| GSM4078042 |
Liver, C57BL6/J, Control Water + 20% Glucose, 6h (JC090) |
| GSM4078043 |
Liver, C57BL6/J, Control Water + 20% Sucrose, 6h (JC091) |
| GSM4078044 |
Liver, C57BL6/J, Control Water + 20% Fructose, 6h (JC092) |
| GSM4078045 |
Liver, BALB/c, Control Water, 6h (JC093) |
| GSM4078046 |
Liver, BALB/c, Control Water + 20% Glucose, 6h (JC094) |
| GSM4078047 |
Liver, BALB/c, Control Water + 20% Sucrose, 6h (JC095) |
| GSM4078048 |
Liver, BALB/c, Control Water + 20% Fructose, 6h (JC096) |
| GSM4078049 |
Liver, C57BL6/J, Control Water, 12h (JC097) |
| GSM4078050 |
Liver, C57BL6/J, Control Water + 20% Glucose, 12h (JC098) |
| GSM4078051 |
Liver, C57BL6/J, Control Water + 20% Sucrose, 12h (JC099) |
| GSM4078052 |
Liver, C57BL6/J, Control Water + 20% Fructose, 12h (JC100) |
| GSM4078053 |
Liver, BALB/c, Control Water, 12h (JC101) |
| GSM4078054 |
Liver, BALB/c, Control Water + 20% Sucrose, 12h (JC103) |
| GSM4078055 |
Liver, C57BL6/J, Control Water, 0h (JC105) |
| GSM4078056 |
Liver, BALB/c, Control Water, 0h (JC106) |
| GSM4078057 |
Liver, C57BL6/J, Control Water, 3h (JC107) |
| GSM4078058 |
Liver, C57BL6/J, Control Water + 20% Glucose, 3h (JC108) |
| GSM4078059 |
Liver, C57BL6/J, Control Water + 20% Sucrose, 3h (JC109) |
| GSM4078060 |
Liver, C57BL6/J, Control Water + 20% Fructose, 3h (JC110) |
| GSM4078061 |
Liver, BALB/c, Control Water, 3h (JC111) |
| GSM4078062 |
Liver, BALB/c, Control Water + 20% Glucose, 3h (JC112) |
| GSM4078063 |
Liver, BALB/c, Control Water + 20% Sucrose, 3h (JC113) |
| GSM4078064 |
Liver, BALB/c, Control Water + 20% Fructose, 3h (JC114) |
| GSM4078065 |
Liver, C57BL6/J, Control Water, 6h (JC115) |
| GSM4078066 |
Liver, C57BL6/J, Control Water + 20% Glucose, 6h (JC116) |
| GSM4078067 |
Liver, C57BL6/J, Control Water + 20% Sucrose, 6h (JC117) |
| GSM4078068 |
Liver, C57BL6/J, Control Water + 20% Fructose, 6h (JC118) |
| GSM4078069 |
Liver, BALB/c, Control Water, 6h (JC119) |
| GSM4078070 |
Liver, BALB/c, Control Water + 20% Glucose, 6h (JC120) |
| GSM4078071 |
Liver, BALB/c, Control Water + 20% Sucrose, 6h (JC121) |
| GSM4078072 |
Liver, BALB/c, Control Water + 20% Fructose, 6h (JC122) |
| GSM4078073 |
Liver, C57BL6/J, Control Water, 12h (JC123) |
| GSM4078074 |
Liver, C57BL6/J, Control Water + 20% Glucose, 12h (JC124) |
| GSM4078075 |
Liver, C57BL6/J, Control Water + 20% Sucrose, 12h (JC125) |
| GSM4078076 |
Liver, C57BL6/J, Control Water + 20% Fructose, 12h (JC126) |
| GSM4078077 |
Liver, BALB/c, Control Water, 12h (JC127) |
| GSM4078078 |
Liver, BALB/c, Control Water + 20% Glucose, 12h (JC128) |
| GSM4078079 |
Liver, BALB/c, Control Water + 20% Sucrose, 12h (JC129) |
| GSM4078080 |
Liver, BALB/c, Control Water + 20% Fructose, 12h (JC130) |
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| Relations |
| BioProject |
PRJNA565352 |
| SRA |
SRP221546 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE137385_fpkm_group.csv.gz |
3.9 Mb |
(ftp)(http) |
CSV |
| GSE137385_fpkm_sample.csv.gz |
15.8 Mb |
(ftp)(http) |
CSV |
| GSE137385_readcount_genename.csv.gz |
4.8 Mb |
(ftp)(http) |
CSV |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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