ATAC-seq/snATAC-seq
ATAC-seq/snATAC-seq介绍 | ATAC-seq在生命科学研究中的重要应用 | 嘉因生物ATAC-seq服务优势
▍ATAC-seq/snATAC-seq介绍
ATAC-seq（Assay for Transposase-Accessible Chromatin using sequencing） 是一种广泛用于研究基因组中开放染色质区域的高通量测序技术。其使用Tn5转座酶将染色质中的开放区域特异性地切割并标记，随后这些被标记的DNA片段会被分离，扩增和测序，从而产生一个基因组范围的染色质可访问性图谱。
snATAC-seq，即单细胞核ATAC-seq，可以进一步刻画每一个细胞的染色质开放性图谱。snATAC-seq与scRNA-seq结合，可以从单细胞转录调控的角度阐述分子机制。
▍ATAC-seq在生命科学研究中的重要应用
1、基因调控研究
ATAC-seq可以识别基因启动子，增强子和其他调控元件
2、发育过程研究
ATAC-seq可以追踪细胞在发育过程中染色质可访问性的变化
3、疾病机制研究
比较健康和疾病状态下的ATAC-seq数据，揭示疾病相关的染色质可访问性变化，帮助理解疾病发生机制
4、药物研发
ATAC-seq可以用于研究药物对基因组的影响，帮助识别潜在的药物靶点和治疗策略
5、进化研究
比较不同物种的ATAC-seq数据可以揭示基因组演化过程中染色质可访问性的变化，理解物种间的遗传差异
▍嘉因生物ATAC-seq服务优势
优势一：自2017年开展ATAC-seq技术服务以来，协助发表近100篇ATAC-seq文章。助力发表过多篇物种内首篇ATAC-seq文章。
优势二：数据高标准交付。
1、以人液氮速冻组织为例，MACS2 Q-value=0.05下至少8000个peak。(液氮速冻组织保存不超过1个月，不可反复冻融，且提核后细胞核状态合格）。
2、低至1万个细胞核的超微量ATAC-seq项目也可以高标准交付。
优势三：组织样本使用illumina原厂Tn5酶。
优势四：积累5年超过5000多例项目的冷冻组织提核实践，涉及干细胞、软骨，神经元、胎盘，各种昆虫等高难度样本类型。
优势五：ATAC-seq motif分析，ATAC-seq与RNA-seq联合分析一网打尽，应有尽有。
▍ATAC-seq客户文章精选
| 项目 | 样本类型 | 文章标题 | 杂志 | 合作单位 |
scRNAseq ATAC-seq | 肿瘤细胞 | The primordial differentiation of tumor-specific memory CD8+ T cells as bona fide responders to PD_x005f 1/PD-L1 blockade in draining lymph nodes | Cell | 陆军军医大学 |
ATAC-seq CUT&Tag | 食管癌细胞 | RNA m6A regulates transcription via DNA demethylation and chromatin accessibility | Nature Genetics | 中山大学肿瘤中心 |
| ATAC-seq | 幼红细胞erythroblast | Direct chemical reprogramming of human cord blood erythroblasts to induced megakaryocytes that produce platelets | Cell stem cell | 军事医学院辐射医学研究所 |
| ATAC-seq | 前列腺癌细胞 | Chromatin remodeling ATPase BRG1 and PTEN are synthetic lethal in prostate cancer | The Journal of Clinical Investigation | 中科院上海营养与健康研究院 |
| ATAC-seq | 细胞 2BS | Integrated multi-omics approach revealed cellular senescence landscape | Nucleic Acids Research | 首都医科大学宣武医院 |
| ATAC-seq | 气道基底干细胞（TBBC) | Malfunction of airway basal stem cells plays a crucial role in pathophysiology of tracheobronchopathia osteoplastica | Nature Communications | 上海交通大学附属第六人民医院 |
| ATAC-seq | 细胞Huh | Targeting p300/CBP Attenuates Hepatocellular Carcinoma Progression through Epigenetic Regulation of Metabolism | Cancer Research | 第二军医大学附属长征医院 |
ATAC-seq RNAseq | 细胞系（Huh7） | mTORC1 Promotes ARID1A Degradation and Oncogenic Chromatin Remodeling in Hepatocellular CarcinomamTOR Regulates ARID1A in Liver Cancer | Cancer Research | 中山大学肿瘤防治中心 |
CUT&Tag ATAC-seq | 花粉细胞核 | H3K27 methylation regulates the fate of two cell lineages in male gametophytes | The Plant Cell | 武汉大学 |
MeRIP-seq ATAC-seq | 肾癌细胞 | Downregulated METTL14 accumulates BPTF that reinforces super-enhancers and distal lung metastasis via glycolytic reprogramming in renal cell carcinoma | Theranostics | 上海交通大学附属瑞金医院 |
ATAC-seq RNAseq | 食管癌组织 | Transcriptomics based multi-dimensional characterization and drug screen in esophageal squamous cell carcinoma | EBioMedicine | 上海复旦大学附属中山医院 |
| ATAC-seq | 叶片 | Accessible chromatin regions and their functional interrelations with gene transcription and epigenetic modifications in sorghum genome | Plant Communications | 三峡大学 |
| ATAC-seq | 小鼠海马体组织 | Characterization of the chromatin accessibility in an Alzheimer's disease (AD) mouse model[J]. Alzheimer's Research and Therapy | Alzheimer's Research and Therapy | 首都医科大学宣武医院 |
| ATAC-seq | 卵巢颗粒细胞 | Chromatin Accessibility and Transcriptomic Alterations in Murine Ovarian Granulosa Cells upon Deoxynivalenol Exposure | Cells | 扬州大学 |
| ATAC-seq | 细胞 | Dynamic chromatin accessibility profiling reveals changes in host genome organization in response to baculovirus infection | PLoS Pathogens | 浙江大学 |
ChIP-seq ATAC-seq | 胰岛β细胞 | Enhancing Acsl4 in absence of mTORC2/Rictor drove β-cell dedifferentiation via inhibiting FoxO1 and promoting ROS production | Biochimica et Biophysica Acta (BBA) - Molecular Basis of Disease | 上海交通大学附属瑞金医院 |
| ATAC-seq | 菌丝 | Integration of ATAC-Seq and RNA-Seq Identifies Key Genes in Light-Induced Primordia Formation of Sparassis latifolia | International Journal of Molecular Sciences | 福建省农科院食用菌所 |
| ATAC-seq | 卵巢 | Dynamics of the Transcriptome and Accessible Chromatin Landscapes During Early Goose Ovarian Development | Frontiers in Cell and Developmental Biology | 四川农业大学 |
| ATAC-seq | 脑类器官消化后的神经球细胞 | Suppressing the DSCAM/PAK1 pathway reverses neurogenesis deficits in Down Syndrome patient iPSC-derived cerebral organoids | Plant and Cell Physiology | 南京医科大学药学院干细胞与神经再生研究所 |
| ATAC-seq | 叶片 | Characterization of Chromatin Accessibility and Gene Expression upon Cold Stress Reveals that the RAV1 Transcription Factor Functions in Cold Response in Vitis Amurensis | Plant cell physiol | 中科院植物所 |
ATAC-seq RNAseq | 睾丸组织 | Evaluation of MYBL1 as the master regulator for pachytene spermatocyte genes dysregulated in interspecific hybrid dzo | Journal of Dairy Science | 西南大学动物科学技术学院 |
| ATAC-seq | 间充质干细胞 | Alterations in chromatin accessibility during osteoblast and adipocyte diferentiation in human mesenchymal stem cells | BMC Medical Genomics | 九江大学 |
| ATAC-seq | 脂肪来源干细胞 | A chromatin accessibility landscape during early adipogenesis of human adipose-derived stem cells | Adipocyte | 首都儿科研究所生化与免疫科 |
ATAC-seq RNAseq | 果肉 | Identification and functional analysis of transcription factors related to coconut (Cocos nucifera L.) endosperm development based on ATAC-seq | Tropical Plants | 海南大学热带作物学院 |
| ATAC-seq | 晶状体 | Znhit1 Regulates p21Cip1 to Control Mouse Lens Differentiation | INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE | 温州医科大学附属眼视光医院 |