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Supplementary Table 2 RNA-seq Simvastatin DEG FDR<0.05 2 Supplementary Table 3 RNA-seq Rosuvastatin DEG FDR<0.05 54 Supplementary Table 4 HMGCR LDLR PCSK9 Transcript variants 57 Supplementary Table 5 Proteome Simvastatin 58 Supplementary Table 6 Proteome Rosuvastatin 73 Supplementary Table S2. Differentially expressed genes at RNA-level from simvastatin-treated primary human myotubes (FDR<0.05) Controls Simvastatin normalized mean normalized mean Gene name counts counts foldChange pval padj Protein name SEPT4 1501.069803 801.4972929 0.533950714 0.00116405 0.025355381 Septin-4 SEPT8 1441.801849 869.1346625 0.60281145 0.001020561 0.022970752 Septin-8 SEPT11 15446.9098 7040.109901 0.455761702 1.61E-05 0.000918517 Septin-11 7SK_5 15.37250235 2.453813586 0.159623562 0.000193119 0.006512156 Lactosylceramide 4-alpha- A4GALT 337.0734749 647.7282426 1.921623299 3.99E-05 0.001884916 galactosyltransferase Alanine and arginine-rich AARD 16.34273774 2.936168593 0.179661978 0.000385314 0.011128664 domain-containing protein Alanyl-tRNA-editing protein AARSD1 677.076378 414.8116488 0.61265119 0.001650077 0.03285031 Aarsd1 Serine/threonine-protein AATK 107.0697753 36.78265486 0.343539106 6.61E-05 0.002811 kinase LMTK1 4-aminobutyrate aminotransferase, ABAT 275.9205401 151.5957045 0.549417975 0.000800454 0.019197327 mitochondrial ATP-binding cassette sub- ABCA8 499.8487363 269.8631157 0.539889563 0.000170156 0.005920437 family A member 8 ATP-binding cassette sub- family B member 10, ABCB10 299.3483499 481.8190029 1.609559575 0.002820587 0.049042586 mitochondrial Multidrug resistance ABCB4 21.30582529 54.3599761 2.551413773 0.001657132 0.032895175 protein 3 ATP-binding cassette sub- ABCB9 138.8827064 54.94028798 0.395587683 6.29E-05 0.002705609 family B member 9 Canalicular multispecific ABCC3 137.1951044 343.6263325 2.504654478 8.40E-07 8.14E-05 organic anion transporter 2 ATP-binding cassette sub- ABCD1 1969.667397 781.8006913 0.396920156 2.28E-07 2.71E-05 family D member 1 ATP-binding cassette sub- ABCE1 2086.066838 1184.803548 0.567960492 0.000182863 0.006245683 family E member 1 ATP-binding cassette sub- ABCF2 3515.65228 1991.402957 0.566439112 0.00014128 0.00514598 family F member 2 ATP-binding cassette sub- ABCG1 138.7478852 55.14821277 0.397470655 0.002052767 0.038212676 family G member 1 cDNA FLJ52972, weakly similar to Homo sapiens abhydrolase domain containing 3 (ABHD3), ABHD3 42.20842311 122.648491 2.905782352 0.000288392 0.008829437 mRNA ABI3 10.8281812 49.88598563 4.607051239 1.35E-05 0.000789097 ABI gene family member 3 cDNA FLJ54747, highly similar to Active breakpoint cluster region-related ABR 1871.163621 3757.169846 2.007932286 1.91E-06 0.000158586 protein Ankyrin repeat and BTB/POZ domain- ABTB1 519.6104715 881.5494112 1.69655821 0.000522543 0.014119048 containing protein 1 AC002066.1 40.10237568 8.568605257 0.213668271 3.95E-05 0.001871068 AC002117.1 90.87222631 239.7803571 2.63865393 0.001155924 0.025214773 AC002463.3 29.14019146 7.816251739 0.268229251 0.000664623 0.016712823 AC004041.2 122.0963524 227.1615798 1.860510779 0.000465097 0.012894214 AC004112.4 167.4996187 298.5961525 1.782667655 0.00066058 0.016638049 AC005013.1 45.71762421 16.34237587 0.357463367 0.002491365 0.044461503 AC005027.3 328.3891791 84.26356492 0.256596655 2.81E-13 1.68E-10 AC005592.2 101.4891551 50.66029425 0.499169534 0.001527709 0.031079739 AC006460.2 90.9547424 38.62806085 0.424695402 0.002486593 0.044445622 AC007228.11 280.2546707 459.0730292 1.638056658 0.001895232 0.035919228 AC007796.1 106.3847416 490.3962437 4.609648305 0.000581903 0.015266 AC009041.2 48.90001985 97.3395313 1.990582654 0.001914774 0.036163306 Simvastatin RNA-seq 1 Controls Simvastatin normalized mean normalized mean Gene name counts counts foldChange pval padj Protein name AC009133.20 116.0774353 490.4602582 4.225285105 1.13E-07 1.50E-05 AC009492.1 186.5152469 16.8019044 0.090083276 4.18E-06 0.000304706 AC010226.4 92.95251997 229.1465679 2.465200168 5.14E-07 5.42E-05 AC010970.2 1182.337019 17389.68498 14.70789184 1.15E-55 1.20E-51 AC011530.4 323.0503702 592.1147703 1.832886834 0.000135315 0.004957719 AC011747.7 19.38196496 53.30554582 2.750265308 0.000934512 0.0215805 AC016747.3 85.14028949 41.37769307 0.485994273 0.001134485 0.024886665 AC018647.3 840.9429372 222.1116231 0.26412211 0.000145896 0.005289343 AC018890.6 932.1042053 527.5690089 0.565997885 0.00030059 0.009077806 AC022596.6 1.570127796 16.46521327 10.4865434 0.000110439 0.00423591 AC025335.1 401.0579155 157.4717785 0.392640994 0.000274099 0.008475257 AC037459.4 184.3927076 97.63396508 0.529489297 0.00060751 0.015714443 AC073115.7 163.4556742 19.74747111 0.120812393 5.27E-12 2.22E-09 AC073283.4 255.649435 125.9739252 0.492760429 0.000522894 0.014119048 AC079922.3 27.86471568 79.13921936 2.840122981 0.000795911 0.019147424 AC093388.3 5525.579029 9657.408071 1.747763994 0.001791017 0.034326162 AC093673.5 190.6130609 103.2857499 0.541860822 0.000614285 0.015791705 AC096669.2 49.16574591 9.813631133 0.199603015 0.000509679 0.013870572 AC104532.2 77.36551653 177.1309296 2.289533341 1.21E-05 0.000716899 AC104695.3 24.22380896 62.70945326 2.588752799 0.000445332 0.012502266 AC104809.3 2.761599056 17.0356372 6.168758336 0.000733063 0.018083005 AC112229.4 12.52733469 1.427396597 0.113942561 0.000561114 0.014858114 AC112721.2 10.69546318 1.242447262 0.116165821 0.002192679 0.040358276 AC135048.13 96.78695739 300.3283372 3.102983556 5.76E-07 5.97E-05 AC144652.1 86.5688519 194.6452779 2.248444719 6.27E-05 0.002701219 AC144831.1 43.9560005 138.8545317 3.158943718 1.92E-07 2.37E-05 AC147651.3 32.32569508 118.0579551 3.652139722 0.000740096 0.018227584 Acetyl-CoA ACAT2 1064.936878 2495.672704 2.343493549 0.00032769 0.00974611 acetyltransferase, cytosolic Cytosolic acyl coenzyme A ACOT7 1099.701356 514.9548654 0.468267919 1.22E-06 0.000112115 thioester hydrolase Acyl-coenzyme A ACOT8 726.6825833 1476.644862 2.032035576 2.30E-06 0.000185534 thioesterase 8 Peroxisomal acyl-coenzyme ACOX3 800.8442561 382.449077 0.47755737 6.09E-06 0.000417313 A oxidase 3 Acetyl-coenzyme A ACSS2 664.1220082 1701.472947 2.561988499 5.15E-10 1.37E-07 synthetase, cytoplasmic Actin, aortic smooth ACTA2 22761.40606 4056.236354 0.178206757 5.88E-11 2.01E-08 muscle ACTB 40532.69565 18879.60271 0.465787 6.54E-05 0.002788137 Actin, cytoplasmic 1 Actin, gamma-enteric ACTG2 7.637200695 0.255427941 0.033445231 0.000797921 0.019180936 smooth muscle ACTN1 15057.17784 5539.320826 0.367885728 5.89E-08 8.77E-06 Alpha-actinin-1 ACVR2A 646.3692657 295.2762609 0.456822867 1.20E-06 0.000110603 Activin receptor type-2A Disintegrin and metalloproteinase domain- ADAM19 6253.971067 1277.082167 0.204203402 3.82E-09 8.49E-07 containing protein 19 A disintegrin and metalloproteinase with ADAMTS12 604.0498105 202.1974087 0.334736317 1.24E-06 0.000113657 thrombospondin motifs 12 A disintegrin and metalloproteinase with ADAMTS5 2076.507554 1172.948636 0.564866058 0.001733692 0.033660222 thrombospondin motifs 5 A disintegrin and metalloproteinase with ADAMTS6 200.9877148 102.8478976 0.511712358 0.000644598 0.016399421 thrombospondin motifs 6 ADAMTSL5 421.3024452 852.7596751 2.024103313 4.51E-05 0.00207994 ADAMTS-like protein 5 Chaperone activity of bc1 complex-like, ADCK3 1532.047944 2670.684743 1.74321225 0.002212938 0.040613531 mitochondrial ADCY9 2104.941801 4441.556678 2.110061511 1.75E-06 0.000149495 Adenylate cyclase type 9 Simvastatin RNA-seq 2 Controls Simvastatin normalized mean normalized mean Gene name counts counts foldChange pval padj Protein name ADD3 1452.359067 2551.071004 1.756501585 0.001693736 0.033260952 Gamma-adducin Hydroxyacid-oxoacid transhydrogenase, ADHFE1 81.3313592 186.4513799 2.292490642 6.77E-05 0.002866978 mitochondrial Adipogenesis regulatory ADIRF 244.5050701 449.4335625 1.838135963 0.000217057 0.007084757 factor ADORA1 2519.294154 965.9907407 0.383437059 1.11E-06 0.000104028 Adenosine receptor A1 Manganese-dependent ADP-ribose/CDP-alcohol ADPRM 288.3029375 158.2930789 0.549051218 0.001090348 0.024174178 diphosphatase ADRB2 160.1047743 72.52916085 0.453010606 0.000469453 0.012956242 Beta-2 adrenergic receptor Adenylosuccinate ADSSL1 142.3357557 303.2545061 2.130557459 0.000199961 0.006631129 synthetase isozyme 1 Androgen-dependent TFPI- ADTRP 176.3949384 37.04463945 0.210009651 2.03E-09 4.72E-07 regulating protein Actin filament-associated AFAP1L2 86.36572127 34.77695728 0.402670837 0.0004621 0.01283868 protein 1-like 2 AF4/FMR2 family member AFF3 51.19885195 15.50605457 0.302859419 7.06E-05 0.002969886 3 Arf-GAP with GTPase, ANK repeat and PH domain- AGAP2 493.7382513 173.1149163 0.350620832 9.97E-06 0.000616519 containing protein 2 Type-1 angiotensin II receptor-associated AGTRAP 433.5597821 749.8331341 1.729480374 0.000439822 0.012392294 protein AHCY 3760.858933 2297.490917 0.610895266 0.000916361 0.021314624 Adenosylhomocysteinase AHNAK2 6675.719832 11828.20409 1.771824521 0.000112877 0.004308154 Protein AHNAK2 Aryl hydrocarbon receptor AHRR 1889.345119 3870.141862 2.048403875 1.36E-05 0.000792085 repressor cDNA FLJ56675, highly similar to Activator of 90 kDa heat shock protein AHSA1 2862.898195 1760.533253 0.614947907 0.001251613 0.026831613 ATPase homolog 1 Allograft inflammatory AIF1L 6729.528856 3246.372626 0.482407119 0.000113408 0.00431784 factor 1-like AK7 9.941095502 26.9241959 2.708373126 0.00288021 0.049717978 Adenylate kinase 7 A-kinase anchor protein 1, AKAP1 2030.585746 3136.765895 1.544759142 0.002903636 0.049983675 mitochondrial Aldo-keto reductase family AKR1B10 57.41667791 222.2221745 3.870341903 2.44E-06 0.000193734
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    cancers Review Genetic Landscape of Papillary Thyroid Carcinoma and Nuclear Architecture: An Overview Comparing Pediatric and Adult Populations 1, 2, 2 3 Aline Rangel-Pozzo y, Luiza Sisdelli y, Maria Isabel V. Cordioli , Fernanda Vaisman , Paola Caria 4,*, Sabine Mai 1,* and Janete M. Cerutti 2 1 Cell Biology, Research Institute of Oncology and Hematology, University of Manitoba, CancerCare Manitoba, Winnipeg, MB R3E 0V9, Canada; [email protected] 2 Genetic Bases of Thyroid Tumors Laboratory, Division of Genetics, Department of Morphology and Genetics, Universidade Federal de São Paulo/EPM, São Paulo, SP 04039-032, Brazil; [email protected] (L.S.); [email protected] (M.I.V.C.); [email protected] (J.M.C.) 3 Instituto Nacional do Câncer, Rio de Janeiro, RJ 22451-000, Brazil; [email protected] 4 Department of Biomedical Sciences, University of Cagliari, 09042 Cagliari, Italy * Correspondence: [email protected] (P.C.); [email protected] (S.M.); Tel.: +1-204-787-2135 (S.M.) These authors contributed equally to this paper. y Received: 29 September 2020; Accepted: 26 October 2020; Published: 27 October 2020 Simple Summary: Papillary thyroid carcinoma (PTC) represents 80–90% of all differentiated thyroid carcinomas. PTC has a high rate of gene fusions and mutations, which can influence clinical and biological behavior in both children and adults. In this review, we focus on the comparison between pediatric and adult PTC, highlighting genetic alterations, telomere-related genomic instability and changes in nuclear organization as novel biomarkers for thyroid cancers. Abstract: Thyroid cancer is a rare malignancy in the pediatric population that is highly associated with disease aggressiveness and advanced disease stages when compared to adult population.
  • Genetic Correlations Reveal the Shared Genetic Architecture of Transcription in Human Peripheral Blood

    Genetic Correlations Reveal the Shared Genetic Architecture of Transcription in Human Peripheral Blood

    Hemani, G. (2017). Genetic correlations reveal the shared genetic architecture of transcription in human peripheral blood. Nature Communications, 8, [483]. https://doi.org/10.1038/s41467-017-00473- z Publisher's PDF, also known as Version of record License (if available): CC BY Link to published version (if available): 10.1038/s41467-017-00473-z Link to publication record in Explore Bristol Research PDF-document This is the final published version of the article (version of record). It first appeared online via Nature Publishing Group at https://www.nature.com/articles/s41467-017-00473-z . Please refer to any applicable terms of use of the publisher. University of Bristol - Explore Bristol Research General rights This document is made available in accordance with publisher policies. Please cite only the published version using the reference above. Full terms of use are available: http://www.bristol.ac.uk/red/research-policy/pure/user-guides/ebr-terms/ ARTICLE DOI: 10.1038/s41467-017-00473-z OPEN Genetic correlations reveal the shared genetic architecture of transcription in human peripheral blood Samuel W. Lukowski 1, Luke R. Lloyd-Jones1,2, Alexander Holloway2, Holger Kirsten3,4, Gibran Hemani 5,6, Jian Yang 1,2, Kerrin Small 7, Jing Zhao8, Andres Metspalu9, Emmanouil T. Dermitzakis10, Greg Gibson 8, Timothy D. Spector7, Joachim Thiery4,11, Markus Scholz 3,4, Grant W. Montgomery1,12, Tonu Esko 9, Peter M. Visscher 1,2 & Joseph E. Powell1,2 Transcript co-expression is regulated by a combination of shared genetic and environmental factors. Here, we estimate the proportion of co-expression that is due to shared genetic variance.
  • TITLE PAGE Oxidative Stress and Response to Thymidylate Synthase

    TITLE PAGE Oxidative Stress and Response to Thymidylate Synthase

    Downloaded from molpharm.aspetjournals.org at ASPET Journals on October 2, 2021 -Targeted -Targeted 1 , University of of , University SC K.W.B., South Columbia, (U.O., Carolina, This article has not been copyedited and formatted. The final version may differ from this version. This article has not been copyedited and formatted. The final version may differ from this version. This article has not been copyedited and formatted. The final version may differ from this version. This article has not been copyedited and formatted. The final version may differ from this version. This article has not been copyedited and formatted. The final version may differ from this version. This article has not been copyedited and formatted. The final version may differ from this version. This article has not been copyedited and formatted. The final version may differ from this version. This article has not been copyedited and formatted. The final version may differ from this version. This article has not been copyedited and formatted. The final version may differ from this version. This article has not been copyedited and formatted. The final version may differ from this version. This article has not been copyedited and formatted. The final version may differ from this version. This article has not been copyedited and formatted. The final version may differ from this version. This article has not been copyedited and formatted. The final version may differ from this version. This article has not been copyedited and formatted. The final version may differ from this version. This article has not been copyedited and formatted.