Fig. 1: The thymic RBPome includes the dynamically expressed Arpp21 protein. | Nature Communications

Fig. 1: The thymic RBPome includes the dynamically expressed Arpp21 protein.

From: The thymocyte-specific RNA-binding protein Arpp21 provides TCR repertoire diversity by binding to the 3’-UTR and promoting Rag1 mRNA expression

Fig. 1

a Schematic representation of the OOPS method. b Volcano plots from two-sided Student’s t test analysis using a permutation-based FDR method for multiple hypothesis corrections showing the −log 10 p value plotted against the log2 fold-change comparing the organic phase after RNase treatment of the interphase of OOPS experiments of the crosslinked (XL) mouse thymocytes versus the non-crosslinked sample. Black dots represent proteins significant at a 5% FDR cutoff level. Yellow dots show RBPs additionally identified in the EuRBPDB and red dots represent proteins for which crosslinks to RNA moieties have directly been measured. c Venn diagram showing the overlap between mouse CD4 T cell RBPs and confirmed RBPs detected in thymocytes (represented by yellow and red dots in (b)). d Representative immunoblots from two independent experiments showing the indicated proteins in cell lysates from different tissues. e Scheme of Arpp21 isoforms showing the domains of R3H in red, SUZ in purple and coiled-coil (CC) in blue. f RT-qPCR analysis of the indicated mRNAs in sorted DN1, DN2, DN3, DN4, DP, CD4-SP, or CD8-SP thymocytes from WT mice. Data are presented as mean values ± SD. n = 7 (for Arpp21 and Rag1) or n = 4 (for Rag2), statistic significance was determined by One-way ANOVA, *p < 0.05, **P < 0.01, ***P < 0.001 and ****P < 0.001. Source data for (d, f) are provided as a Source Data file.

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