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Transcriptome profiles of zebrafish larvae from a caffeine-induced anxiety model and a high fat-diet induced obesity model

ABSTRACT: Transcriptome profiles of zebrafish larvae from a caffeine-induced anxiety model and a high fat-diet induced obesity model

PROVIDER: PRJNA856140 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR19996300.fastq.gz	Fastqsanger.gz
	SRR19996301.fastq.gz	Fastqsanger.gz
	SRR19996302.fastq.gz	Fastqsanger.gz
	SRR19996303.fastq.gz	Fastqsanger.gz
	SRR19996304.fastq.gz	Fastqsanger.gz

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Transcriptome profiles of zebrafish larvae from a caffeine-induced anxiety model and a high fat-diet induced obesity model [miRNA-Seq]

Project description:Obesity associates with anxiety disorders in adult humans, rodents and fish, although there is also evidence to the contrary. Moreover, it is unknown if this association is developmentally regulated, and which genes are involved. RNA-sequencing differences between caffeine-induced anxious zebrafish larvae, which exhibited greater thigmotaxis, erratic swimming and higher whole-body cortisol levels than matched controls, and high fat diet-fed obese larvae with more numerous and larger peritoneal adipocytes than standard diet controls, were revealed. There were 231 poly(A)+ genes common to both models (padj<0.05) and 75% of the transcripts upregulated (>1.5 fold) in the anxiety model were downregulated (<0.67 fold) in obese larvae. Immune system pathways were overrepresented among these inversely regulated genes.

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Transcriptome profiles of zebrafish larvae from a caffeine-induced anxiety model and a high fat-diet induced obesity model [RNA-Seq]

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Project description:Transcriptome profiles of zebrafish larvae from a caffeine-induced anxiety model and a high fat-diet induced obesity model [miRNA-Seq]

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Transcriptome profiles of zebrafish larvae from a caffeine-induced anxiety model and a high fat-diet induced obesity model [RNA-Seq]

Project description:Transcriptome profiles of zebrafish larvae from a caffeine-induced anxiety model and a high fat-diet induced obesity model [RNA-Seq]

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Transcriptome profiles of zebrafish larvae from a caffeine-induced anxiety model and a high fat-diet induced obesity model

Project description:This SuperSeries is composed of the SubSeries listed below.

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Project description:This SBML model reproduced the calcium release from SR by application of 20 mM or 2mM caffeine, described in the paper. * Ca_i_Total and Ca_SR_Total respectively represent the total calcium concentration in the sarcoplasm and in the sarcoplasmic reticulum. * Ca_i and Ca_SR respectively represent the free calcium concentration in the sarcoplasm and the sarcoplasmic reticulum. * J1 is the calcium flux due to all mechanisms (except SERCA pumps) that remove the excess of calcium from the sarcoplasm. * J2 is the calcium flux from the reticulum to the sarcoplasm via the ryanodine receptors (RyR) present in the reticulum membrane. * J3 is the calcium flux from the sarcoplasm to the reticulum by the SERCA pumps located in the reticulum membrane. *The parameters are a, b, B c, Ca_i_basal, Ca_SR_basal, caff, csq, gamma, KC, kf, KR, Ks, nf, ns and nv. * The value of KC for the model were calculated for J2=J3, after substituting Ca_i=Ca_i_basal, Ca_SR=Ca_SR_basal and caff=0. * Po represents the RyR open probability based on CICR. * Caffeine (caff)** increases the calcium affinity of smooth muscle's RyR so they open even when calcium is at basal level. ** Due to caffeine-induced calcium release, a 5 seconds pulse of caffeine (20 mM) was applied (event called Caff_ON) at 10 seconds after the simulation starts. The event called Caff_OFF starts when the pulse of caffeine finished (caff=0). * PE denotes the concentration of calcium binding sites. * Xi=Ca_SR_Total+PE+KR *In order to reproduce the dynamics of calcium following the application of 2 mM of caffeine, the value of some parameters needs to be change: b=35, Ca_i_basal=9.257e-6, gamma=7.45, caff=0.002 and the initial condition for Ca_i_Total=9.257e-6. *The unit of the calcium concentration is mol/L. * The unit of time is second. *The original SBML code was exported from COPASI 4.12 (Build 81).

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