ENAapplication/xmlftp.sra.ebi.ac.uk/vol1/fastq/SRR412/000/SRR4125290/SRR4125290.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR412/006/SRR4125286/SRR4125286.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR412/008/SRR4125288/SRR4125288.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR412/003/SRR4125283/SRR4125283.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR412/007/SRR4125287/SRR4125287.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR412/001/SRR4125281/SRR4125281.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR412/002/SRR4125282/SRR4125282.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR412/004/SRR4125284/SRR4125284.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR412/005/SRR4125285/SRR4125285.fastq.gzftp.sra.ebi.ac.uk/vol1/fastq/SRR412/009/SRR4125289/SRR4125289.fastq.gzprimaryOK2000000GenomicsElowitz Lab, Bioengineering, Caltechhttps://www.ebi.ac.uk/ena/browser/view/PRJNA341719Mus musculusWe develop a theoretical-computational framework for inferring cell state transition dynamics, and apply it to mouse embryonic stem cells states defined by expression levels of Esrrb, Tbx3, and Zscan4. RNA-seq was performed to characterize the larger transcriptional differences between states expressing combinations of these three specific genes, and proceed to explore their dynamic interconversion. Overall design: A double knock-in reporter for Esrrb and Tbx3 with distinct fluorescent proteins was constructed to enable purification of substates defined by their relative expression levels (Esrrb-/Tbx3-; Esrrb+/Tbx3-; Esrrb+/Tbx3+). A second line was constructed using a promoter-fragment reporter to isolate Zscan4+ from Zscan4- cells. Following FACS isolation, the subpopulations were sequenced on an Illumina HiSeq2500. Biological replicates were collected on different days.ENANr3b2, Err2, ZNF494., ERR2, TBX3-ISO, NR3B2, D5Ertd189e, Xltbx3, et, DFNB35, xtbx3, Whole Transcriptome Shotgun Sequencing, RNA-seq, Estrrb, ESRL2, UMS, Errb, ERRb, XHL, tbx3mouse, mouse <Mus musculus>, house mouse.0.00.00.00.00.00falseMus musculusRNA-seq of mouse embryonic stem cell states expressing Esrrb, Tbx3, and Zscan42022-07-182016-11-04PRJNA341719GSE864172788388910090