>MT1A|NM_005946|3'UTR
   1 TGTCCGGACAGCCCTGCTCGAAGATATAGAAAGAGTGACCTGCACAAACTTGGAATTTTTTTTCCATACAACCCTGACCC
  81 ATTTACTGTATTTTTTTTAATGAAATATGTGAATGATAATAAAAGTTGCTGACTTAAAAAAAAAAAAAAAAAAAAAAAAA
 161 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA

ID	Duplex structure	Position	Score	MFE
1	miRNA 3' ugGGA-GA-CUU-----UCCUUCgu 5' ||| || ||| || ||| Target 5' gcCCTGCTCGAAGATATAGAAAGag 3'	11 - 35	96.00	-8.36

Mutant ID	Mutant Position	Mutant Source
COSN30182056	3	COSMIC
COSN31539504	5	COSMIC
COSN21249279	9	COSMIC
COSN13677393	20	COSMIC
COSN30480480	20	COSMIC
COSN30121125	59	COSMIC
COSN31609352	63	COSMIC
COSN30719824	64	COSMIC
COSN18836310	65	COSMIC
COSN30467175	66	COSMIC
COSN18739608	84	COSMIC
COSN31602126	97	COSMIC
COSN20060308	99	COSMIC
COSN30613604	99	COSMIC

Mutant ID	Mutant Position	Mutant Source
rs1020817428	2	dbSNP
rs199710928	6	dbSNP
rs757685038	7	dbSNP
rs1407388312	12	dbSNP
rs773110944	17	dbSNP
rs200081796	20	dbSNP
rs770704919	21	dbSNP
rs1453660777	24	dbSNP
rs866188424	25	dbSNP
rs1299251852	26	dbSNP
rs143993797	27	dbSNP
rs1263655994	28	dbSNP
rs538095542	28	dbSNP
rs765515008	30	dbSNP
rs146506562	32	dbSNP
rs1358228912	39	dbSNP
rs1231855896	41	dbSNP
rs1202534027	43	dbSNP
rs1483852311	44	dbSNP
rs375653983	45	dbSNP
rs1290863601	46	dbSNP
rs1205440364	52	dbSNP
rs1312040198	56	dbSNP
rs1433211436	56	dbSNP
rs572691940	59	dbSNP
rs1299816394	67	dbSNP
rs1221473461	69	dbSNP
rs1368369465	73	dbSNP
rs932245618	74	dbSNP
rs986318682	79	dbSNP
rs762291396	83	dbSNP
rs1408159609	87	dbSNP
rs189145868	89	dbSNP
rs1433860895	91	dbSNP
rs536800910	91	dbSNP
rs770206408	99	dbSNP
rs942220213	102	dbSNP
rs77926799	114	dbSNP
rs1178110242	122	dbSNP
rs1433728338	132	dbSNP
rs113060262	135	dbSNP

- Genes & development, 2013

When adapting to environmental stress, cells attenuate and reprogram their translational output. In part, these altered translation profiles are established through changes in the interactions between RNA-binding proteins and mRNAs. The Argonaute 2 (Ago2)/microRNA (miRNA) machinery has been shown to participate in stress-induced translational up-regulation of a particular mRNA, CAT-1; however, a detailed, transcriptome-wide understanding of the involvement of Ago2 in the process has been lacking. Here, we profiled the overall changes in Ago2-mRNA interactions upon arsenite stress by cross-linking immunoprecipitation (CLIP) followed by high-throughput sequencing (CLIP-seq). Ago2 displayed a significant remodeling of its transcript occupancy, with the majority of 3' untranslated region (UTR) and coding sequence (CDS) sites exhibiting stronger interaction. Interestingly, target sites that were destined for release from Ago2 upon stress were depleted in miRNA complementarity signatures, suggesting an alternative mode of interaction. To compare the changes in Ago2-binding patterns across transcripts with changes in their translational states, we measured mRNA profiles on ribosome/polysome gradients by RNA sequencing (RNA-seq). Increased Ago2 occupancy correlated with stronger repression of translation for those mRNAs, as evidenced by a shift toward lighter gradient fractions upon stress, while release of Ago2 was associated with the limited number of transcripts that remained translated. Taken together, these data point to a role for Ago2 and the mammalian miRNAs in mediating the translational component of the stress response.