Comparison of the molecular profiles of human embryonic and isogenic induced pluripotent stem cells. [Agilent]

Many studies have compared the genetic and epigenetic profiles of human induced pluripotent stem cells (hiPSCs) to human embryonic stem cells (hESCs) and yet the picture remains unclear. To address this, we derived a population of neural precursor cells (NPCs) from the H1 (WA01) hESC line and generated isogenic iPSC lines by reprogramming. The gene expression and methylation profile of three lines were compared to the parental line and intermediate NPC population. We found no gene probe with expression that differed significantly between hESC and iPSC samples under undifferentiated or differentiated conditions. Analysis of the global methylation pattern also showed no significant difference between the two PSC populations. Both undifferentiated populations were distinctly different from the intermediate NPC population in both gene expression and methylation profiles. One point to note is that H1 is a male line and so extrapolation to female lines should be cautioned. However, these data confirm our previous findings that there are no significant differences between hESCs and hiPSCs at the gene expression or methylation level. 22 samples: 1 human NPC, 2 human ESC (UNDIFF), 5 human iPSC (UNDIFF), 2 human ESC (EB_ecto), 5 human iPSC (EB_ecto), 2 human ESC (EB_mesend), 5 human iPSC (EB_mesend)

已有多项研究对人类诱导多能干细胞（human induced pluripotent stem cells，hiPSCs）与人类胚胎干细胞（human embryonic stem cells，hESCs）的遗传及表观遗传谱展开对比，但目前相关结论仍不明确。为厘清这一问题，本研究从H1（WA01）人类胚胎干细胞系中分离获得一群神经前体细胞（neural precursor cells，NPCs），并通过重编程技术构建了同基因诱导多能干细胞系。随后，我们对3株细胞系与亲本细胞系及中间态神经前体细胞群的基因表达谱与甲基化谱进行了对比分析。研究结果显示，在未分化或分化状态下，人类胚胎干细胞与诱导多能干细胞样本间不存在表达差异显著的基因探针。全基因组甲基化模式分析结果同样表明，两类多能干细胞群体间无显著差异。两类未分化细胞群体在基因表达谱与甲基化谱上，均与中间态神经前体细胞群存在显著差异。需特别说明的是，H1细胞系为雄性来源，因此将本研究结果外推至雌性细胞系时需谨慎。尽管如此，本研究数据验证了我们此前的结论：人类胚胎干细胞与诱导多能干细胞在基因表达或甲基化水平上无显著差异。本数据集共包含22个样本：1个人类神经前体细胞样本、2个人类胚胎干细胞未分化样本（UNDIFF）、5个人类诱导多能干细胞未分化样本（UNDIFF）、2个人类胚胎干细胞胚状体外胚层样本（EB_ecto）、5个人类诱导多能干细胞胚状体外胚层样本（EB_ecto）、2个人类胚胎干细胞胚状体中内胚层样本（EB_mesend）、5个人类诱导多能干细胞胚状体中内胚层样本（EB_mesend）