Common Cytokines EpiTect ChIP qPCR Array

常见细胞因子ChIP qPCR芯片
 

Product	Species	Technology	Cat. No.
Common Cytokines EpiTect ChIP qPCR Array	Human	Histone Modifications	GH-021A
Common Cytokines EpiTect ChIP qPCR Array	Mouse	Histone Modifications	GM-021A

The Human Common Cytokines EpiTect ChIP qPCR Array profiles the histone modification status or “histone code” of 84 key cytokine genes. Histone modifications regulate chromatin structure and correlate with the transcriptional activity of associated genes. Cytokines produced by multiple cell types regulate and mediate inflammation and immune responses. Epigenetic regulation of their gene expression during immune cell differentiation and maturation processes ensures that specific cell types only transcribe the appropriate cytokines.Dysregulation of cytokine expression alters immune cell maturation pathways, potentially leading to allergy and other autoimmune diseases.This array includes common cytokines such as interleukins, interferons, growth factors, and members of the TGFß superfamily. The results of this array can provide insights into the epigenetic regulation of these cytokines during inflammation and immune cell development. Using chromatin immunoprecipitation and this real-time PCR array, research studies can easily and reliably analyze the histone modification patterns associated with a focused gene panel of common cytokines.
 
常见细胞因子ChIP qPCR芯片分析84个关键细胞因子基因的组蛋白修饰状态或组蛋白密码。组蛋白修饰调节染色质结构和与相关基因的转录活性。多种细胞类型产生的细胞因子调节和介导炎症和免疫反应。疫细胞分化和成熟过程中这些基因表达的表观遗传调控确保特定细胞类型只转录适当的细胞因子。细胞因子表达的失调改变免疫细胞成熟途径，可能导致过敏和其他自身免疫性疾病。这个芯片包含常见的细胞因子如白细胞介素,干扰素,生长因子,TGFß家族的成员。这个芯片的结果可有效洞察这些细胞因子在炎症和免疫细胞发育中的表观遗传调控。通过染色质免疫沉淀和实时定量PCR，可以很简易、可靠地分析组蛋白的化学修饰模式与常见细胞因子的关联。
Interferons: IFNA1, IFNA2, IFNA5, IFNB1, IFNG, IFNK.             
Interleukins:  IL10, IL12A, IL12B, IL13, IL15, IL16, IL17A, IL17B, IL17C, IL17F, IL23A, IL25 (IL17E), IL18, IL19, IL1A, IL1B, IL1RN, IL2, IL20, IL21, IL22, IL24, IL27, IL3, IL4, IL5, IL6, IL7, IL8, IL9, TXLNA (IL14).        
Bone Morphogenic Proteins (BMPs) and TGF-ß Family:  BMP1, BMP2, BMP3, BMP4, BMP5, BMP6, BMP7, GDF2 (BMP9), GDF5, GDF9, INHA, INHBA, MSTN (GDF8), NODAL, TGFA, TGFB1, TGFB2, TGFB3.
PDGF/VEGF Family:  FIGF (VEGFD), PDGFA.
TNF Superfamily: CD40LG (TNFSF5), CD70 (TNFSF7), FASLG (TNFSF6), LTA, LTB, TNF, TNFRSF11B, TNFSF10, TNFSF11, TNFSF12, TNFSF13, TNFSF13B, TNFSF14, TNFSF4, TNFSF8.
Other Growth Factors/Cytokines:  ADIPOQ, CNTF, CSF1 (MCSF), CSF2 (GMCSF), CSF3 (GCSF), FAM3B, LEFTY2 (EBAF), LIF, MIF, OSM, SPP1, THPO
 

How it Works

The ChIP PCR array is a set of optimized real-time PCR primer assays on 96-well or 384-well plates for pathway or disease focused analysis of in vivo protein-DNA interactions. The ChIP PCR array performs ChIP DNA analysis with real-time PCR sensitivity and the multi-genomic loci profiling capability of a ChIP-on-chip. Simply mix your ChIP DNA samples with the appropriate ready-to-use PCR master mix, aliquot equal volumes to each well of the same plate, and then run the real-time PCR cycling program. (Download user manual)

What ChIP PCR Array Offers?

• Function or Disease Focused: Arrays represent a panel of genomic regions relevant to a biological function or disease state.
• Reliable & Sensitive: Arrays can analyze multiple genomic regions simultaneously with Real-Time PCR precision and sensitivity.
• Easy to Use Data Analysis: Download an easy-to-use Excel-based data analysis template [here]. Data analysis is based on the ΔΔCt method with normalization of the specific antibody and control IgG raw data to input raw data.

Layout and Controls: The PCR Arrays are available in both 96- and 384-well plates and are used to monitor the expression of 84 genes related to a disease state or pathway plus five housekeeping genes. Controls are also included on each array for ChIP DNA quality controls and general PCR performance.
You can easily perform a ChIP PCR Array experiment in your own laboratory, or send your samples to us and take advantage of our PCR Array Services.

 

Performance
EpiTect Chip qPCR Arrays provide the high sensitivity, specificity and reproducibility using SYBR-based real-time PCR technology.

Sensitivity
Together with our easy and fast One-Day ChIP kit, ChIP-Grade Antibody Kits, one million cells per assay as starting material provides 100% effective call rates.

Ct Range	Percent Distribution of Ct Values
	Input	H3K4me3	Control IgG
<24	0%	27%	0%
25-30	100%	60%	0%
30-35	0%	13%	96%
Absent Calls	0%	0%	4%

Table 1. ChIP PCR Arrays Analyze the Enrichment of 84 Genomic Sites with as Little as One Million Cells. P19 mouse embryonic carcinoma cells were prepared for ChIP Assay using the EpiTect Chip One-Day Kit and anti-H3K4me3 Antibody Kit. One million cells were used as starting material for each ChIP Assay. The purified ChIP DNA samples were characterized using Mouse Stem Cell Transcription Factor ChIP PCR Array with 1/100th of the ChIP DNA as template in each well. The Real-Time PCR results demonstrate 100 % effective call rates for the Input Fraction (Ct < 30). The difference of Ct value between the anti-H3K4me3 antibody and the control IgG fractions indicates the specific enrichment of the antibody, whereas the high Ct value of the control IgG fraction indicates the low background of the assay.

Reproducibility
The complete ChIP PCR Array System demonstrates a high degree of reproducibility across technical replicates, lots, instruments, and different handling, insuring reliable detection of differences in genomic DNA enrichment among biological samples.

Figure 5. Consistent Performance within the Same Plate or across Different Plates. Sonicated chromatin from HeLa cells (20 µg) was immunoprecipitated with 2 µg of anti-H3ac antibody or control IgG for 2 hours using the EpiTect Chip One-Day Kit. The obtained ChIP DNA samples were characterized in triplicates with EpiTect Chip qPCR primers specific for the active genes (GAPDH, RPL30, ALDOA), inactive genes (MYOD1, SERPINA), repetitive sequence (SAT2, SATa), and an ORF-free region (IGX1A) either within the same array plate or among different array plates in order to evaluate the intra- and inter-plate consistency. The anti-H3ac antibody enriched genomic DNA at active gene promoter regions with a high signal-to-noise ratio and a low co-efficiency of variation (less than 2.02%), irrespective of the type of assay (intra or inter-plate)

Figure 6. Consistent Performance with Various Amount of DNA Samples, Instruments or Handling Conditions. All experiments were performed in triplicates. Cells from MCF-7 (1 million per sample) were subjected to ChIP assay with anti-RNA Polymerase II (Pol 2) antibody followed by qPCR analysis of the proximal promoter of GAPDH, and an ORF-free region (IGX1A). Researcher A & B performed the PCR assays either in 96-well plate or 384-well plate format, on a Stratagene MX 3005 or an ABI 7900 Real-Time PCR instrument respectively. The same ChIP DNA samples were used which were stored for extended periods of time as indicated. The results demonstrate high reproducibility of PCR performance across technical replicates, lots, instruments, and differential handling.

Specific and Accurate ChIP-qPCR Detection
One prerequisite for ChIP PCR Array technology is the uniform and high
PCR amplification efficiency allowing a reciprocal comparison of ChIP enrichment among all genomic loci analyzed. The unique combination of SABiosciences' proprietary ChIP-qPCR primer design algorithm, rigorous validation of every ChIP-qPCR primer assay, and high performance SYBR Green master mix guarantees superior performance of EpiTect Chip qPCR Arrays.

A:

B:

Figure 7. Uniform Amplification Efficiency and Specific PCR Detection. 96 ChIP-qPCR primers were randomly picked from our genome-wide primer pool and analyzed for their performance. (A) All assays exhibit an average amplification efficiency of 99% with a 104.5% confidence interval between 102.5-105.2%, the uniform high amplification efficiency ensures accurate analysis of multiple genomic loci simultaneously using ΔΔCt method. (B) Each ChIP-qPCR primer assay is experimentally validated using dissociation (melt) curve analysis and agarose gel verification. Each pair of primers on PCR Array produces a single specific product as indicated by a single Dissociation Curve peak at a melting temperature (Tm) greater than 75 ºC, and PCR product was further validated on agarose gel for a single product of the predicted size without secondary products such as primer dimers

Application Examples

EpiTect Chip qPCR Arrays provide streamlined approaches to 1) Study biology or disease-focused gene regulation through histone modification and transcriptional regulatory network; 2) Monitor the dynamics of chromatin structure in the screening of function-specific epigenetic patterns; 3) Validate ChIP-on-chip or ChIP-seq results. The EpiTect Chip qPCR Arrays are also