README:  GTD 1.0 download             Last modified:  June 30, 2024

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Clinical Detail Data: 
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           This file is a detail information of the GTD clinical datasets.

           More notes about this file:

           Each study has different groups; 
           One line per group; 
           Column header line is the first line in the file.
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GTC_ID: 
           The unique identification code given to each clinical study in GTD.

Year: 
           First submitted study record dates.

Trial_ID: 
           The clinical trial ID in corresponding clinical trial registration platforms.

Link: 
           The URL link to the clinical trial on the corresponding registration platforms.

Country: 
           Countries participating in the clinical trial, if there are multiple, separated by  '|'.

Phase:
           Phase of the clinical trial, if there are multiple, separated by  '|'.

Status:
           Recruitment status of the clinical trial.

Title: 
           A brief overview of the gene therapy clinical trials.

Therapy_Type:
           Therapy type of the clinical trial, if there are multiple, separated by '|'.

Treatment:
           Gene therapy products for treatment, if there are multiple, separated by '|'.

Co_Treatment:
           Combination drugs other than gene therapy.

Therapeutic_Gene:
           The therapeutic gene in gene therapy, if there are multiple, separated by '|'.
           For gene transfer, it is the gene delivered into the body; 
           For CAR-T/TCR-T, it is the targeted tumor antigen; 
           For RNA therapy, It refers to the name of the gene that acts as a drug, or the genetic site where the drug acts.

Generation:
           Generation of Chimeric Antigen Receptor (CAR) in CAR-T Therapy.

CAR_Construct:
           Construct of Chimeric Antigen Receptor (CAR) in CAR-T Therapy.

Safety_Module:
           Safety module of Chimeric Antigen Receptor (CAR) in CAR-T Therapy.

Vector_Type:
           Vector Type that carry genes into the body/cells, if there are multiple, separated by '|'.

Administration_Route:
           The route for gene therapy products to enter participants’ bodies. 

Dose:
           Dose levels for gene therapy products.

Remark:
           The basis for the different Cohort in each clinical trial, if there are multiple, connected by '_'. 

Disease:
           Diseases suffered by participants receiving gene therapy, if there are multiple, separated by '|'.

HLA:
           Human leukocyte antigen (HLA) types of participants in TCR-T therapy.

Donor_Type:
           Donor type of engineered cells in CAR-T/TCR-T therapy, if there are multiple, separated by '|'.

Pts:
           The number of participants entering clinical trials.

Age:
           A type of eligibility criteria that indicates the age a person must be to participate in a clinical study.

Activation:
           The use of interleukins in CAR-T/TCR-T therapy.

Lymph_Depletion:
           The case for lymphodepletion in CAR-T/TCR-T therapies.

Adverse_Reactions:
           Serious adverse events caused by gene therapy in participants (greater than or equal to grade 3)

Outcome:
           Clinical outcomes of participants after gene therapy.

Company-Sponsor/Collab:
           The organization or person who initiates the study and who has authority and control over the study.

Other_ID:
           Identifiers or ID numbers other than the Trial ID, if there are multiple, separated by '|'.

Reference:
           The PMID or DOI of publications related to this clinical study, if there are multiple, separated by '|'.

Ref_Link:
           Reference publications' online URL, if there are multiple, separated by '|'.


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Clinical Basic Data: 
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           This file is a basic information of the GTD clinical datasets.

           More notes about this file:
           One line per study; 
           Column header line is the first line in the file.
---------------------------------------------------------------------------
GTC_ID: 
           The unique identification code given to each clinical study in GTD.

Year: 
           First submitted study record dates.

Trial_ID: 
           The clinical trial ID in corresponding clinical trial registration platforms.

Link: 
           The URL link to the clinical trial on the corresponding registration platforms.

Country: 
           Countries participating in the clinical trial, if there are multiple, separated by  '|'.

Phase:
           Phase of the clinical trial, if there are multiple, separated by  '|'.

Status:
           Recruitment status of the clinical trial.

Title: 
           A brief overview of the gene therapy clinical trial.

Therapy_Type:
           Therapy type of the clinical trial, if there are multiple, separated by '|'.

Treatment:
           Gene therapy products for treatment, if there are multiple, separated by '|'.

Therapeutic_Gene:
           The therapeutic gene in gene therapy, if there are multiple, separated by '|'.
           For gene transfer, it is the gene delivered into the body; 
           For CAR-T/TCR-T, it is the targeted tumor antigen; 
           For RNA therapy, It refers to the name of the gene that acts as a drug, or the genetic site where the drug acts.


Vector_Type:
           Vector Type that carry genes into the body/cells, if there are multiple, separated by '|'.

Disease:
           Diseases suffered by participants receiving gene therapy, if there are multiple, separated by '|'.

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Omics Data                                  
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           This file reports the basic information of transcriptomic data of the GDT datasets.

           More notes about this file:

           Before and after gene therapy as a control;
           One line per omics dataset;
           Column header line is the first line in the file.
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GTD_ID:
           The unique omics dataset ID in GTD.

accession:
           Accession from GEO.

Control:
           Control sample, separated by ';'.

Case:
           Case sample, separated by ';'

Disease:
           Diseases suffered by participants receiving gene therapy, if there are multiple, separated by '|'.

Therapeutic_Gene:
           The therapeutic gene in gene therapy, if there are multiple, separated by '|'.

Treatment:
           Gene therapy products for treatment, if there are multiple, separated by '|'.

Therapy_Type:
           Therapy type of the gene therapy, if there are multiple, separated by '|'.

Vector_Type:
           Vector Type that carry genes into the body/cells, if there are multiple, separated by '|'.

Organism:
           values are:  Homo sapiens, Mus musculus, Rattus norvegicus, Sus scrofa, Macaca mulatta, Canis lupus

Tissue/Cell_Type:
           Sequencing sample source

Remark:
           The basis for grouping different group; if there are multiple, connected by '_'. 

Strategy:
           Data type of each dataset.
           Values are: Microarray, RNA-Seq, scRNA-Seq.

Platform:
           Platform ID of array or sequencer

Library:
           Sequencing platform information for scRNA-Seq.
           Values are: 10x Chromium platform

Reference:
           The PMID of publications related to this gene therapy omics datasets, if there are multiple, separated by '|'.

Clinical_Trial:
           Clinical trial number corresponding to the omisc datasets.

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Differentially Gene Expression Analysis Result of Each Gene Therapy Datasets                                  
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           This file reports differentially expressed genes caused
           by gene therapy of all GTD datasets.

           ZIP format
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The file contains the results of differential analysis for each of the two sequencing modalities, bulk-seq and scRNA-seq. 

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Gene Expression Profiles of Each GTD dataset
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　　　This file reports gene expression profiles of each 
　　　GTD dataset.

          ZIP format
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.csv file:
           Expression profile of RNA-Seq or Microarray
The first row:
           GeneID, GSM dataset grouped as 'control' in this GTD dataset, GSM dataset grouped as 'case' in this GTD dataset
           
           values: count

.Rds file:
           Seurat object of scRNA-Seq

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## Usage and Terms of Use

Please note that these datasets are provided for academic and research purposes only. If you use any of the datasets in your work, kindly acknowledge the original source and provide appropriate citations as applicable.

For further details on the datasets, please refer to the individual dataset files and accompanying documentation.

For any inquiries or feedback, please contact us at panjianbo@cqmu.edu.cn.

Thank you for your interest in our Gene Therapy Database!