g++ Cutoff_STAR.cpp -o Cutoff g++ TO-GCN_STAR.cpp -o TO-GCN g++ GeneLevel_STAR.cpp -o GeneLevel (1) Cutoff: Determine the PCC cutoff for TO-GCN First of all, you need postive and negative cutoff values of Pearson’s Correlation Coefficients (PCCs) for constructing the GCN. Our metho...
(3) 在每个 TO- GCN 级别生成一个基因列表。 地址:https://github.com/petitmingchang/TO-GCN_STAR-Protocol 注:这里的TF指转录因子。 准备基因表达数据 在进入管道之前,我们需要准备两个具有不同时间点的基因表达矩阵(TF 基因和非 TF 基因)。除了数据文件,还需要准备一份初始/种子 TF 基因列表(至少一个)。
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Embryonic stem cells (ESCs) can be maintained in the naïve state through inhibition of Mek1/2 and Gsk3 (2i). A relevant effect of 2i is the inhibition of Cdk8/19, which are negative regulators of the Mediator complex, responsible for the activity of e
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GCN5 and PCAF from the GNAT family can transfer malonylation and succinylation effectively19. HBO1, a member of MYST family, is a versatile histone acyltransferase and can catalyze histone acetylation, propionylation, butyrylation, crotonylation, and benzoylation in vivo and in vitro20,21. Our ...
Selp and Sele, encoding endothelial selectins CD62P and CD62E, were upregulated, whereas Fut7 and Gcnt1 were downregulated in TA-HECs compared with LN-HECs, and Ackr1 was expressed similarly in both populations. All these genes were poorly expressed in LN-ECs and TA-ECs. Indeed, TA-...
we investigated the distribution of Php3 and Moc3 in cells devoid of both Gcn5, a subunit of the SAGA complex, and Mst2, a MYST acetyltransferase. Interestingly, we found that in those cells, both TFs can still localize tocenHanddhheterochromatic repeat elements, albeit with a slight reductio...
STAR★Methods Key resources table REAGENT or RESOURCESOURCEIDENTIFIER Antibodies Wee1 (D10D2) mAb Rabbit Cell Signaling Technology CAT# 13084T; RRID: AB_2713924 Anti-GCN2 (phospho T899) antibody Abcam CAT# ab75836; RRID: AB_1310260 GCN2 antibody Abcam CAT# ab157775; RRID: Phospho-S6 Ribosom...
Advanced Message Queuing Protocol (AMQP) [OASIS Advanced Message Queueing Protocol (AMQP)] is a message bus protocol. A message bus is a type of middleware. FIG. 11 shows the relationship between AMPQ Exchanges and Queues. An AMQP Exchange accepts messages from a service and routes the message...