Fig. 1
From: YTHDF1 links hypoxia adaptation and non-small cell lung cancer progression
YTHDF1 is a hypoxia adaptation gene. a The signature of positive selection on cancer related genes in Tibetan humans evaluated by different statistics. For each gene, FST_max is the maximum FST value among all SNPs within the gene. iHS_sig_num and XP-EHH_sig_num for each gene are the numbers of SNPs exhibiting significant high values of iHS (integrated haplotype score) and XP-EHH (cross population extended haplotype homozygosity) respectively. Mann–Whitney U tests were used to test the statistical significances. TAG, tumor-associated genes are from www.binfo.ncku.edu.tw/TAG/; CGC, refers to Cancer Gene Census database. Other, refers to genome wide other genes. b Significantly higher values of XP-EHH, FST and ΔDAF (the difference of the derived allele frequencies) were found for SNPs in tumor related genes than in other genome wide genes. The values of two columns represent the –log10 transformed P-values calculated using Mann–Whitney U tests. c Positive selection of TEX2 in Tibetan sheep. Sliding window analysis (size: 50 kb, step: 25 kb) was performed with -log 10 (empirical P value). d The genomic landscape of the signature of positive selection in the highland cattle genome. Sliding window analysis (size: 50 kb, step: 25 kb) was performed with -log 10 (empirical P value) for autosome 1 to 29. e The mRNA expression of YTHDF1, but not YTHDF2 or YTHDF3 is decreased in highland cattle. f, g Validating the efficiency of shRNAs targeting to YTHDF1 by both real-time RT-PCR (f) and western blot (g). h, Suppression of cellular apoptosis by depleting YTHDF1 under 1% O2 hypoxic condition. i YTHDF1 interacting m6-mRNA transcripts overlapped more with CGC, TAG, Hypoxia response genes and PSG (positive selected genes). j YTHDF1 is frequently amplified in various cancers. Mutation (green), deletion (blue), amplification (red), multiple alterations (gray). The related database was indicated in Supplementary Table 1. k Significant differential expression of YTHDF1 between tumor and normal tissues from lung (GEO accession code: GSE10072), colorectum (GSE24514) and breast (GSE21422) cancers. DCIS: ductal carcinoma in situ; IDC: invasive ductal carcinoma. Means ± SEM, *P < 0.05; **P < 0.01; ***P < 0.001; t-test. Ctr = Control shRNA or scrambled shRNA; YTH1 = YTHDF1; YTH2 = YTHDF2; YTH3 = YTHDF3
