SRX18492492 GSM6788463_r1 SRP411359 PRJNA908809 SRS15963235 GSM6788463 GSM6788463 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492493 GSM6788464_r1 SRP411359 PRJNA908809 SRS15963236 GSM6788464 GSM6788464 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492494 GSM6788497_r1 SRP411359 PRJNA908809 SRS15963237 GSM6788497 GSM6788497 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492495 GSM6788498_r1 SRP411359 PRJNA908809 SRS15963238 GSM6788498 GSM6788498 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492496 GSM6788499_r1 SRP411359 PRJNA908809 SRS15963239 GSM6788499 GSM6788499 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492497 GSM6788500_r1 SRP411359 PRJNA908809 SRS15963240 GSM6788500 GSM6788500 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492498 GSM6788465_r1 SRP411359 PRJNA908809 SRS15963241 GSM6788465 GSM6788465 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492499 GSM6788466_r1 SRP411359 PRJNA908809 SRS15963242 GSM6788466 GSM6788466 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492500 GSM6788467_r1 SRP411359 PRJNA908809 SRS15963243 GSM6788467 GSM6788467 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492501 GSM6788468_r1 SRP411359 PRJNA908809 SRS15963244 GSM6788468 GSM6788468 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492502 GSM6788469_r1 SRP411359 PRJNA908809 SRS15963245 GSM6788469 GSM6788469 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492503 GSM6788470_r1 SRP411359 PRJNA908809 SRS15963246 GSM6788470 GSM6788470 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492504 GSM6788471_r1 SRP411359 PRJNA908809 SRS15963247 GSM6788471 GSM6788471 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492505 GSM6788472_r1 SRP411359 PRJNA908809 SRS15963248 GSM6788472 GSM6788472 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492506 GSM6788473_r1 SRP411359 PRJNA908809 SRS15963249 GSM6788473 GSM6788473 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492507 GSM6788474_r1 SRP411359 PRJNA908809 SRS15963250 GSM6788474 GSM6788474 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492508 GSM6788475_r1 SRP411359 PRJNA908809 SRS15963251 GSM6788475 GSM6788475 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492509 GSM6788476_r1 SRP411359 PRJNA908809 SRS15963252 GSM6788476 GSM6788476 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492510 GSM6788477_r1 SRP411359 PRJNA908809 SRS15963253 GSM6788477 GSM6788477 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492511 GSM6788478_r1 SRP411359 PRJNA908809 SRS15963254 GSM6788478 GSM6788478 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492512 GSM6788479_r1 SRP411359 PRJNA908809 SRS15963255 GSM6788479 GSM6788479 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492513 GSM6788480_r1 SRP411359 PRJNA908809 SRS15963256 GSM6788480 GSM6788480 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492514 GSM6788481_r1 SRP411359 PRJNA908809 SRS15963257 GSM6788481 GSM6788481 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492515 GSM6788482_r1 SRP411359 PRJNA908809 SRS15963258 GSM6788482 GSM6788482 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492516 GSM6788483_r1 SRP411359 PRJNA908809 SRS15963259 GSM6788483 GSM6788483 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492517 GSM6788484_r1 SRP411359 PRJNA908809 SRS15963260 GSM6788484 GSM6788484 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492518 GSM6788485_r1 SRP411359 PRJNA908809 SRS15963261 GSM6788485 GSM6788485 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492519 GSM6788486_r1 SRP411359 PRJNA908809 SRS15963262 GSM6788486 GSM6788486 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492520 GSM6788487_r1 SRP411359 PRJNA908809 SRS15963263 GSM6788487 GSM6788487 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492521 GSM6788488_r1 SRP411359 PRJNA908809 SRS15963264 GSM6788488 GSM6788488 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492522 GSM6788489_r1 SRP411359 PRJNA908809 SRS15963265 GSM6788489 GSM6788489 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492523 GSM6788490_r1 SRP411359 PRJNA908809 SRS15963266 GSM6788490 GSM6788490 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492524 GSM6788491_r1 SRP411359 PRJNA908809 SRS15963267 GSM6788491 GSM6788491 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492525 GSM6788492_r1 SRP411359 PRJNA908809 SRS15963268 GSM6788492 GSM6788492 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492526 GSM6788493_r1 SRP411359 PRJNA908809 SRS15963269 GSM6788493 GSM6788493 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492527 GSM6788494_r1 SRP411359 PRJNA908809 SRS15963270 GSM6788494 GSM6788494 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492528 GSM6788495_r1 SRP411359 PRJNA908809 SRS15963271 GSM6788495 GSM6788495 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq SRX18492529 GSM6788496_r1 SRP411359 PRJNA908809 SRS15963272 GSM6788496 GSM6788496 miRNA-Seq TRANSCRIPTOMIC size fractionation For IPF fibrotic foci, Laser Capture Microdissection was used to isolate fibrotic foci from formalin embedded IPF tissue. RNA was isolated from LCM cut tissue and whole IPF formalin embedded tissue using FFPE RNeasy extraction kit (Qiagen). Lung fibroblasts were isolated from IPF lung tissue and normal human lungs. The cells were grown to 90% confluence, then serum starved for 24h in media containing 0.4% foetal calf serum. After the 24h perios, the cells were incubated for 48h with complete media only or media supplemented with 3ng/ml TGFβ1. The cells were harvested at 48h and total RNA extracted using an RNeasy mini kit (Qiagen). NEBNext small RNA libraries (New England BioLabs Inc.) were prepared from total RNA. Illumina MiSeq