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1 Supplementary Material Summary: The supplementary information includes 1 table (Table S1) and 4 figures (Figure S1 to S4). Supplementary Figure Legends Figure S1 RTL-bearing nude mouse model. (A) Tumor formation rate of P-R/T/L (T) and P-NT (N) inoculated in BALB/c nude mice (n=12, each group). (B) Transplanted RTL cell shows invasive phenotype. Representative metastasis histopathological images of several organs (H & E staining). (C) Electron microscopy analysis of transplanted RTL. Black Bars: 50 μm, Red Bar: 1 μm. Figure S2 Pathway prediction of identified mirnas. The 4 validated most up-regulated mirnas (mir-762, mir-714, mir-455 and mir-467a) in RTL tissues were subjected to an online pathway prediction by MAS software. Each cellular signaling pathway potentially regulated by these mirnas is indicated as a predicted p value. Figure S3 kinetics of mir-467a induction. (A) Time kinetics of mir-467a induction upon four weekly γ-ray irradiations (1.75-Gy per time). 7 day after each irradiation, mir-467a level in thymus tissues was assessed using q-pcr. The first time point was set as 1 week and by this analogy, and mir-467a level in normal non-irradiated thymus tissues (0 week) was used as control (n=4, each group). (B) Different irradiation-dose response level of mir-467a. The four weekly γ-ray irradiations model were also used, and each irradiation-dose was set as 0.75-Gy, 1.25-Gy and 1.75-Gy (cumulative dose was 3-Gy, 5-Gy and 7-Gy) respectively. 7 day after the last irradiation, mir-467a level in thymus tissues was assessed using q-pcr, and normal non-irradiated thymus tissues (0 Gy) were used as control (n=4, each group). (C)
2 MiR-467a response to H 2 O 2 -induced oxidative damage. EL4 cells were treated with 200 ~ 600 μm H 2 O 2 for 20 min, and then returned to their conditioned medium, and PBS treatment was used as control (0 μm). 24 h after exposure, mir-467a were assessed by q-pcr (n=4, each group). * p < 0.05; ** p < 0.01; NS, no significant. Figure S4 MiR-467a targets Fas and Bax in Molt4 cells. (A) MiR-467a mimics-transfected Molt4 cells were exposed to 7-Gy irradiation for 5 min using mir-nc mimics as control. 24h after exposure, apoptosis rate was assessed by flow cytometry. The representative scatter diagrams are shown. (B) The values of apoptosis rate are shown in the form of a bargraph (n=3, each group). (C) Predicted wild type (WT) and mutant (MUT) mir-467a binding sites at human Fas and Bax mrna 3'UTR. (D) Molt4 cells were transfected with mir-467a mimics or mir-nc mimics vector. 24 h later, these cells were exposed to 7-Gy irradiation for 5 min. 24 h after exposure, the protein levels of endogenous Fas and Bax were determined using immunoblotting. (E) Interaction of mir-467a with 3 UTR of human Fas and Bax mrna. At 48 h after transfection with mir-467a mimics or mir-nc mimics vector, a reporter plasmid containing human Fas / Bax wt-3 UTR or mut-3 UTR and a plasmid expressing renilla luciferase were cotransfected into Molt4 cells. Luciferase activities were measured at 48 h after cotransfection, and normalized data are shown (n=3, each group).* p < 0.05; ** p < 0.01; NS, no significant.
3 Supplementary Figures Figure S1
4 Figure S2
5 Figure S3
6 Figure S4
7 Supplementary Tables: Table S1 Table S1. The predicted apoptosis associated genes targeted by indicated mirnas Pathway P value Candidate gene MiRNA Apoptosis 0.0 Bad mmu-mir-455 Apoptosis 0.0 Bax mmu-mir-467a;mmu-mir-455 Apoptosis 0.0 Birc3 mmu-mir-467a;mmu-mir-762 Apoptosis 0.0 Capn1 mmu-mir-762 Apoptosis 0.0 Casp6 mmu-mir-455 Apoptosis 0.0 Cflar mmu-mir-455;mmu-mir-467a Apoptosis 0.0 Chuk mmu-mir-467a Apoptosis 0.0 Dffa mmu-mir-455 Apoptosis 0.0 Fas mmu-mir-467a Apoptosis 0.0 Fasl mmu-mir-467a Apoptosis 0.0 Ikbkg mmu-mir-467a Apoptosis 0.0 Il1b mmu-mir-455 Apoptosis 0.0 Il1rap mmu-mir-467a Apoptosis 0.0 Nfkb2 mmu-mir-762 Apoptosis 0.0 Nfkbia mmu-mir-467a Apoptosis 0.0 Pik3cd mmu-mir-467a Apoptosis 0.0 Rela mmu-mir-762 Apoptosis 0.0 Tnf mmu-mir-762;mmu-mir-455 Apoptosis 0.0 Tnfrsf1a mmu-mir-455 Apoptosis 0.0 Trp53 mmu-mir-762 Apoptosis 0.0 Xiap mmu-mir-467a
8 Luciferase reporter plasmids carrying mouse Fas / Bax 3 -UTR Luciferase-UTR reporter constructs were generated by introducing the full length mouse Fas 3 -UTR into pgl3 promoter vector (Promega). We first amplified the Fas 3 -UTR sequence by PCR using primers Fas-F (5 TGGAtctagaACTACCTCAGTTCCAGCCATGA3') and Fas-R (5' GCTGtctagaGAAATGCAAAAAGAGATACTTTAAT 3') and mouse genome cdna as a template. The PCR product was ligased into pgl3 promoter vector by the Xba1 site. All PCR products were verified by DNA sequencing. The sequencing data of WT Fas 3 -UTR were: TCGACGCAGAAAATCAGAGAGATCCTCATAAAGGCCAAGAAGGGCGGAA AGATCGCCGTGTAATTCTAGAACTACCTCAGTTCCAGCCATGAAGAGAGG AGAGAGCCTGCCACCCATGATGGAAACAAAATGAATGCCAACTGTATTGA CATTGGCAACTCCTGGTGTGTTCTCTTTGCCAGCAAATGGTAGTTGATACT CAGTGAGGGTCAAATGACTAGCAGGTTCCAGGGACTGCTTCTGTTATTCT CTGCAGTTGCTGAGATGAACCATTTTCTCTGTCTACTGCAATTTTTACATTC AAATGTCCATGAAATTTGTATTAAATGTGAAGTGGAATCTGCAGTGTTTGT GTTTATATTCATATACTATGAACTGAGGAGAATTATAAACTGAAACAAATACT CGCAGTTAATTGAAGACCTTCCATTGATGGACAGTTCTTTTCCTCTCTATG TGGAAATGTATAATAGAAGAAATAATTTTTAAATTAAAGTATCTCTTTTTGCA TTTCTCTAGAGTCGGGGCGGCCGGCCGCTTCGAGCAGACATGATAAGAT ACATTGATGAGTTTGGACAAACCACAACTAGAATGCAGTGAAAAAAATGCT TTATTTGTGAAATTTGTGATGCTATTGCTTTATTTGTAACCATTATAAGCTGC AATAAACAAGTTAACAACAACAATTGCATTCATTTTATGTTTCAGGTTCAGG GGGAGGTGTGGGAGGTTTTTTAAAGCAAGTAAAACCTCTACAAATGTGGT AAAATCGATAAGGATCCGTCGACCGATGCCCTTGAGAGCCTTCAACCCAG
9 TCAGCTCCTTTCTCGTGGGCGCGGGGGATGACTATCGTCGTCGCACCTA TGACTGTCTTCCCTATCATGCAACTTCGTATGAGAAGAGGCGGGAGCGC GCTTCGCTTCCTCGCTCACTGACACGATGCGCTCGGTCGGTTCGCTGCG CGAGCGGGATCAGCTCACTCTAAGCGGTGATACCGGTATCTCTCATCACG GTACGCAGGAAGACATGTACAAGGCAGCCATGCAGAACGTCAAGCGCGT GCTGCGGGTC The mutation Fas 3 -UTR, wild type and mutation Bax 3 -UTR was generated by chemical synthesis and then ligased into pgl3 promoter vector by the Xba1 site. The sequence of mutation Fas 3 -UTR that were ligased into pgl3 promoter vector were: AAAACTACCTCAGTTCCAGCCATGAAGAGAGGAGAGAGCCTGCCACCCA TGATGGAAACAAAATGAATGCCAACTGTATTGACATTGGCAACTCCTGGT GTGTTCTCTTTGCCAGCAAATGGTAGTTGATACTCAGTGAGGGTCAAATG ACTAGCAGGTTCCAGGGACTGCTTCTGTTATTCTCTGCAGTTGCTGAGAT GAACCATTTTCTCTGTCTACTGCAATTTTTACATTCAAATGTCCATGAAAT TTGTATTAAATGTGAAGTGGAATCTGCAGTGTTTGTGTTTATATTCATATA CTATGAACTGAGGAGAATTATAAACTGAAACAAATACTCGCAGTTAATTG AAGACCTTCCATTGATGGACAGTTCTTTTCCTCTCTATGAGGAAATCATTA ATAGAAGAAATAATTTTTAAATTAAAGTATCTCTTTTTGCATTTCTATTGCT CTGTTGTCTTGCT (The red highlighted were mutated with wild types) The sequence of wild type Bax 3 -UTR that were ligased into pgl3 promoter vector were:
10 GCCTCCCACTGCCTT-GGACTGTGTCTTTTCTTCATAAATTATGACATTTT-C CTGGGATGAATGGGGGAAGGGGAAAGGCATTTTTCTTACTTTTGTAATTAT TGGGAGGGGTGGGAATGGTGGCCTGGGGAGGCGCCAATAAACCTCAGG TCCACTTTGGATTGTA The sequence of mutation Bax 3 -UTR that were ligased into pgl3 promoter vector were: GCCTCCCACTGCCTT-GGACTGTGTCTTTTCTTCATAAATTATGACATTTT-C CTGGGATGAATGGGGGAAGGGGAAACCGATTTTTCTTACTTTTGTAATTAT TGGGAGGGGTGGGAATGGTGGCCTGGGGAGGCGCCAATAAACCTCAGG TCCACTTTGGATTGTA (The red highlighted were mutated with wild types)
Supplementary Figures
Supplementary Figures Supplementary Figure 1 Increased ABHD5 expression in human colon cancer associated macrophages. (a) Murine peritoneal macrophages were treated with regular culture medium (Ctrl) or
Supplemental Table S1
Supplemental Table S. Tumorigenicity and metastatic potential of 44SQ cell subpopulations a Tumorigenicity b Average tumor volume (mm ) c Lung metastasis d CD high /4 8. 8/ CD low /4 6./ a Mice were injected
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Supplementary Figures
Supplementary Figures Supplementary Figure 1 Characterization of stable expression of GlucB and sshbira in the CT26 cell line (a) Live cell imaging of stable CT26 cells expressing green fluorescent protein
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SUPPLEMENTARY INFORMATION. Supp. Fig. 1. Autoimmunity. Tolerance APC APC. T cell. T cell. doi: /nature06253 ICOS ICOS TCR CD28 TCR CD28
Supp. Fig. 1 a APC b APC ICOS ICOS TCR CD28 mir P TCR CD28 P T cell Tolerance Roquin WT SG Icos mrna T cell Autoimmunity Roquin M199R SG Icos mrna www.nature.com/nature 1 Supp. Fig. 2 CD4 + CD44 low CD4
well for 2 h at rt. Each dot represents an individual mouse and bar is the mean ±
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Supplementary Figure 1
A B D Relative TAp73 mrna p73 Supplementary Figure 1 25 2 15 1 5 p63 _-tub. MDA-468 HCC1143 HCC38 SUM149 MDA-468 HCC1143 HCC38 SUM149 HCC-1937 MDA-MB-468 ΔNp63_ TAp73_ TAp73β E C Relative ΔNp63 mrna TAp73
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Supplementary information
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Nature Medicine: doi: /nm.4322
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Supplemental Figure 1
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Type of file: PDF Size of file: 0 KB Title of file for HTML: Supplementary Information Description: Supplementary Figures
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Supplemental Figure 1
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SUPPLEMENTARY INFORMATION
-. -. SUPPLEMENTARY INFORMATION DOI: 1.1/ncb86 a WAT-1 WAT- BAT-1 BAT- sk-muscle-1 sk-muscle- mir-133b mir-133a mir-6 mir-378 mir-1 mir-85 mir-378 mir-6a mir-18 mir-133a mir- mir- mir-341 mir-196a mir-17
Supplementary Figure 1
Supplementary Figure 1 Asymmetrical function of 5p and 3p arms of mir-181 and mir-30 families and mir-142 and mir-154. (a) Control experiments using mirna sensor vector and empty pri-mirna overexpression
Nature Structural and Molecular Biology: doi: /nsmb Supplementary Figure 1
Supplementary Figure 1 Mutational analysis of the SA2-Scc1 interaction in vitro and in human cells. (a) Autoradiograph (top) and Coomassie stained gel (bottom) of 35 S-labeled Myc-SA2 proteins (input)
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Supplementary Figure 1 Circadian profiles of Adarb1 transcript and ADARB1 protein in mouse tissues. (a) Overlap of rhythmic transcripts identified in the previous transcriptome analyses. The mouse liver
File Name: Supplementary Information Description: Supplementary Figures and Supplementary Table. File Name: Peer Review File Description:
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PREPARED FOR: U.S. Army Medical Research and Materiel Command Fort Detrick, Maryland
AD Award Number: W81XWH-1-1-176 TITLE: Suppression of BRCA2 by Mutant Mitochondrial DNA in Prostate Cancer PRINCIPAL INVESTIGATOR: Hsieh, Jer-Tsong CONTRACTING ORGANIZATION: University of Texas Southwestern
supplementary information
DOI: 10.1038/ncb1875 Figure S1 (a) The 79 surgical specimens from NSCLC patients were analysed by immunohistochemistry with an anti-p53 antibody and control serum (data not shown). The normal bronchi served
Supplementary Figure 1. Deletion of Smad3 prevents B16F10 melanoma invasion and metastasis in a mouse s.c. tumor model.
A B16F1 s.c. Lung LN Distant lymph nodes Colon B B16F1 s.c. Supplementary Figure 1. Deletion of Smad3 prevents B16F1 melanoma invasion and metastasis in a mouse s.c. tumor model. Highly invasive growth
Supplementary Table 1. List of primers used in this study
Supplementary Table 1. List of primers used in this study Gene Forward primer Reverse primer Rat Met 5 -aggtcgcttcatgcaggt-3 5 -tccggagacacaggatgg-3 Rat Runx1 5 -cctccttgaaccactccact-3 5 -ctggatctgcctggcatc-3
Table S1. New colony formation 7 days after stimulation with doxo and VCR in JURKAT cells
Table S1. New colony formation 7 days after stimulation with and in JURKAT cells drug co + number of colonies 7±14 4±7 48±11 JURKAT cells were stimulated and analyzed as in Table 1. Drug concentrations
Nature Medicine: doi: /nm.3922
Title: Glucocorticoid-induced tumor necrosis factor receptor-related protein co-stimulation facilitates tumor regression by inducing IL-9-producing helper T cells Authors: Il-Kyu Kim, Byung-Seok Kim, Choong-Hyun
SUPPLEMENTARY INFORMATION
DOI:.38/ncb3399 a b c d FSP DAPI 5mm mm 5mm 5mm e Correspond to melanoma in-situ Figure a DCT FSP- f MITF mm mm MlanaA melanoma in-situ DCT 5mm FSP- mm mm mm mm mm g melanoma in-situ MITF MlanaA mm mm
The antiparasitic drug ivermectin is a novel FXR ligand that regulates metabolism
Supplementary Information The antiparasitic drug ivermectin is a novel FXR ligand that regulates metabolism Address correspondence to Yong Li (yongli@xmu.edu.cn, Tel: 86-592-218151) GW464 CDCA Supplementary
Supplementary fig. 1. Crystals induce necroptosis does not involve caspases, TNF receptor or NLRP3. A. Mouse tubular epithelial cells were pretreated
Supplementary fig. 1. Crystals induce necroptosis does not involve caspases, TNF receptor or NLRP3. A. Mouse tubular epithelial cells were pretreated with zvad-fmk (10µM) and exposed to calcium oxalate
Nature Immunology: doi: /ni Supplementary Figure 1
Supplementary Figure 1 NLRP12 is downregulated in biopsy samples from patients with active ulcerative colitis (UC). (a-g) NLRP12 expression in 7 UC mrna profiling studies deposited in NCBI GEO database.
Supplementary information. MARCH8 inhibits HIV-1 infection by reducing virion incorporation of envelope glycoproteins
Supplementary information inhibits HIV-1 infection by reducing virion incorporation of envelope glycoproteins Takuya Tada, Yanzhao Zhang, Takayoshi Koyama, Minoru Tobiume, Yasuko Tsunetsugu-Yokota, Shoji
KITENIN-targeting MicroRNA-124 Suppresses Colorectal Cancer Cell Motility and Tumorigenesis
Oligonucleotide therapeutics original article -targeting MicroRNA-124 Suppresses Colorectal Cancer Cell Motility and Tumorigenesis So-Yeon Park 1, Hangun Kim 2, Somy Yoon 1, Jeong A Bae 1, Seok-Yong Choi
Supplementary Figure S I: Effects of D4F on body weight and serum lipids in apoe -/- mice.
Supplementary Figures: Supplementary Figure S I: Effects of D4F on body weight and serum lipids in apoe -/- mice. Male apoe -/- mice were fed a high-fat diet for 8 weeks, and given PBS (model group) or
EGFR shrna A: CCGGCGCAAGTGTAAGAAGTGCGAACTCGAGTTCGCACTTCTTACACTTGCG TTTTTG. EGFR shrna B: CCGGAGAATGTGGAATACCTAAGGCTCGAGCCTTAGGTATTCCACATTCTCTT TTTG
Supplementary Methods Sequence of oligonucleotides used for shrna targeting EGFR EGFR shrna were obtained from the Harvard RNAi consortium. The following oligonucleotides (forward primer) were used to
(A) RT-PCR for components of the Shh/Gli pathway in normal fetus cell (MRC-5) and a
Supplementary figure legends Supplementary Figure 1. Expression of Shh signaling components in a panel of gastric cancer. (A) RT-PCR for components of the Shh/Gli pathway in normal fetus cell (MRC-5) and
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DOI: 10.1038/ncb2211 a! mir-143! b! mir-103/107! let-7a! mir-144! mir-122a! mir-126-3p! mir-194! mir-27a! mir-30c! Figure S1 Northern blot analysis of mir-143 expression dependent on feeding conditions.
Supplementary Figure 1. Schematic diagram of o2n-seq. Double-stranded DNA was sheared, end-repaired, and underwent A-tailing by standard protocols.
Supplementary Figure 1. Schematic diagram of o2n-seq. Double-stranded DNA was sheared, end-repaired, and underwent A-tailing by standard protocols. A-tailed DNA was ligated to T-tailed dutp adapters, circularized
Supplementary Figure 1. Prevalence of U539C and G540A nucleotide and E172K amino acid substitutions among H9N2 viruses. Full-length H9N2 NS
Supplementary Figure 1. Prevalence of U539C and G540A nucleotide and E172K amino acid substitutions among H9N2 viruses. Full-length H9N2 NS nucleotide sequences (a, b) or amino acid sequences (c) from
Supplementary Figure 1.TRIM33 binds β-catenin in the nucleus. a & b, Co-IP of endogenous TRIM33 with β-catenin in HT-29 cells (a) and HEK 293T cells
Supplementary Figure 1.TRIM33 binds β-catenin in the nucleus. a & b, Co-IP of endogenous TRIM33 with β-catenin in HT-29 cells (a) and HEK 293T cells (b). TRIM33 was immunoprecipitated, and the amount of
Nature Immunology: doi: /ni Supplementary Figure 1. Cytokine pattern in skin in response to urushiol.
Supplementary Figure 1 Cytokine pattern in skin in response to urushiol. Wild-type (WT) and CD1a-tg mice (n = 3 per group) were sensitized and challenged with urushiol (uru) or vehicle (veh). Quantitative
Supplementary Information
Supplementary Information Supplementary Figure 1. Effect of mir mimics and anti-mirs on DTPs a, Representative fluorescence microscopy images of GFP vector control or mir mimicexpressing parental and DTP
Supplementary Figure 1: si-craf but not si-braf sensitizes tumor cells to radiation.
Supplementary Figure 1: si-craf but not si-braf sensitizes tumor cells to radiation. (a) Embryonic fibroblasts isolated from wildtype (WT), BRAF -/-, or CRAF -/- mice were irradiated (6 Gy) and DNA damage
The pseudogene TUSC2P promotes TUSC2 function by binding multiple micrornas
Received 9 Aug 3 Accepted Nov 3 Published 7 Jan DOI:.38/ncomms39 The pseudogene promotes TUSC function by binding multiple micrornas OPEN Zina Jeyapalan Rutnam,, *, William W. Du,, *, Weining Yang, Xiangling
(A) SW480, DLD1, RKO and HCT116 cells were treated with DMSO or XAV939 (5 µm)
Supplementary Figure Legends Figure S1. Tankyrase inhibition suppresses cell proliferation in an axin/β-catenin independent manner. (A) SW480, DLD1, RKO and HCT116 cells were treated with DMSO or XAV939
MATERIALS AND METHODS. Neutralizing antibodies specific to mouse Dll1, Dll4, J1 and J2 were prepared as described. 1,2 All
MATERIALS AND METHODS Antibodies (Abs), flow cytometry analysis and cell lines Neutralizing antibodies specific to mouse Dll1, Dll4, J1 and J2 were prepared as described. 1,2 All other antibodies used
GFP-LC3 +/+ CLU -/- kda CLU GFP. Actin. GFP-LC3 +/+ CLU -/- kda CLU GFP. Actin
Supplementary Fig. 1 a CQ treatment ScrB OGX11 MG132 I II AZD5363 I II b GFP / / GFP / / GFP / / GFP / / GFP GFP Actin Actin ctrl CQ GFP / / GFP / / GFP / / GFP / / GFP GFP Actin Actin rapamycin rapamycincq