General Information
- Experiment ID
- OEX024597
- Experiment Name
- H3K4me3 ChIP-seq for of CD4+T cells form SLE patient and healthy control
- Experiment Type
- Genomic
- Protocol
- ChIP-seq was performed as previously described. Briefly, 2-5 million CD4+ T cells were lysed in cell lysis buffer for 5 min on ice. Cell were pelleted and resuspened with 200 μl of digestion buffer. Digestion was then performed by adding micrococcal nuclease and incubation for 5 min at 37 °C. The reaction was stopped by EDTA-EGTA buffer . After centrifuge for 15 min at 13000rpm, 1/10 of the supernatant were taken as Input sample, others supernatant was dilute into a CHIP-IP buffer. Chromatin was then incubated overnight at 4 °C with anti-trimethylated H3K4 antibody . Protein G magnetic beads were added for an additional 4 h of incubation. Immunoprecipitates were washed vigorously and DNA was purified with PCR purification kit. 1ng-50ng H3K4me3 ChIP'ed DNA or input DNA was used for ChIP-seq library construction via TruePrep DNA Library Prep Kit V2 for Illumina. After PCR step, the DNA libraries were purified and size selection by 0.5× and 0.25× DNA beads. ChIP-seq libraries were sequenced via paired-end 150 bp reads on an Illumina platform.
Experiment information
- Attributes
-
library_layout Paired mate_pair No insertion_size n/a number_of_reads_sequenced n/a library_name n/a library_selection ChIP library_strategy ChIP-Seq platform Illumina NovaSeq 6000 - Project
-
1
Project ID Project name Create Date OEP004403 H3K4me3 ChIP-seq of CD4+T cell from SLE patients and HC 2023-08-11 - Samples
-
15
Sample ID Sample Name Organism Tissue Create Date OES319152 HC1-H3K4me3_CHIP-seq Homo sapiens PBMC 2023-08-12 OES319153 HC2-H3K4me3_CHIP-seq Homo sapiens PBMC 2023-08-12 OES319154 HC3-H3K4me3_CHIP-seq Homo sapiens PBMC 2023-08-12 OES319155 HC4-H3K4me3_CHIP-seq Homo sapiens PBMC 2023-08-12 OES319156 SLE1-H3K4me3_CHIP-seq Homo sapiens PBMC 2023-08-12 OES319157 SLE2-H3K4me3_CHIP-seq Homo sapiens PBMC 2023-08-12 OES319158 SLE3-H3K4me3_CHIP-seq Homo sapiens PBMC 2023-08-12 OES319159 SLE4-H3K4me3_CHIP-seq Homo sapiens PBMC 2023-08-12 OES319160 HC1-Input Homo sapiens PBMC 2023-08-12 OES319161 HC2-Input Homo sapiens PBMC 2023-08-12 OES319162 HC3-Input Homo sapiens PBMC 2023-08-12 OES319163 SLE1-Input Homo sapiens PBMC 2023-08-12 OES319164 SLE2-Input Homo sapiens PBMC 2023-08-12 OES319165 SLE3-Input Homo sapiens PBMC 2023-08-12 OES319166 SLE4-Input Homo sapiens PBMC 2023-08-12 - Runs
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15
Run ID Run Name Sample Data Num Create Date OER427260 HC1_H3K4me3_fq HC1-H3K4me3_CHIP-seq 2 2023-08-12 OER427261 HC2_H3K4me3_fq HC2-H3K4me3_CHIP-seq 2 2023-08-12 OER427262 HC3_H3K4me3_fq HC3-H3K4me3_CHIP-seq 2 2023-08-12 OER427263 HC4_H3K4me3_fq HC4-H3K4me3_CHIP-seq 2 2023-08-12 OER427264 SLE1_H3K4me3_fq SLE1-H3K4me3_CHIP-seq 2 2023-08-12 OER427265 SLE2_H3K4me3_fq SLE2-H3K4me3_CHIP-seq 2 2023-08-12 OER427266 SLE3_H3K4me3_fq SLE3-H3K4me3_CHIP-seq 2 2023-08-12 OER427267 SLE4_H3K4me3_fq SLE4-H3K4me3_CHIP-seq 2 2023-08-12 OER427268 HC1_Input_fq HC1-Input 2 2023-08-12 OER427269 HC2_Input_fq HC2-Input 2 2023-08-12 OER427270 HC3_Input_fq HC3-Input 2 2023-08-12 OER427271 SLE1_Input_fq SLE1-Input 2 2023-08-12 OER427272 SLE2_Input_fq SLE2-Input 2 2023-08-12 OER427273 SLE3_Input_fq SLE3-Input 2 2023-08-12 OER427274 SLE4_Input_fq SLE4-Input 2 2023-08-12
Author Information
- Create Date
- 2023-08-12
- Last Modified
- 2024-03-29
- Submission
- Delong Feng
- The Second Xiangya hospital of Central South University