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Milger Et Al. Pulmonary CCR2+CD4+ T Cells Are Immune Regulatory And

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Milger et al. Pulmonary CCR2+CD4+ T cells are immune regulatory and attenuate lung fibrosis development Supplemental Table S1 List of significantly regulated mRNAs between CCR2+ and CCR2- CD4+ Tcells on Affymetrix Mouse Gene ST 1.0 array. Genewise testing for differential expression by limma t-test and Benjamini-Hochberg multiple testing correction (FDR < 10%). Ratio, significant FDR<10% Probeset Gene symbol or ID Gene Title Entrez rawp BH (1680) 10590631 Ccr2 chemokine (C-C motif) receptor 2 12772 3.27E-09 1.33E-05 9.72 10547590 Klrg1 killer cell lectin-like receptor subfamily G, member 1 50928 1.17E-07 1.23E-04 6.57 10450154 H2-Aa histocompatibility 2, class II antigen A, alpha 14960 2.83E-07 1.71E-04 6.31 10590628 Ccr3 chemokine (C-C motif) receptor 3 12771 1.46E-07 1.30E-04 5.93 10519983 Fgl2 fibrinogen-like protein 2 14190 9.18E-08 1.09E-04 5.49 10349603 Il10 interleukin 10 16153 7.67E-06 1.29E-03 5.28 10590635 Ccr5 chemokine (C-C motif) receptor 5 /// chemokine (C-C motif) receptor 2 12774 5.64E-08 7.64E-05 5.02 10598013 Ccr5 chemokine (C-C motif) receptor 5 /// chemokine (C-C motif) receptor 2 12774 5.64E-08 7.64E-05 5.02 10475517 AA467197 expressed sequence AA467197 /// microRNA 147 433470 7.32E-04 2.68E-02 4.96 10503098 Lyn Yamaguchi sarcoma viral (v-yes-1) oncogene homolog 17096 3.98E-08 6.65E-05 4.89 10345791 Il1rl1 interleukin 1 receptor-like 1 17082 6.25E-08 8.08E-05 4.78 10580077 Rln3 relaxin 3 212108 7.77E-04 2.81E-02 4.77 10523156 Cxcl2 chemokine (C-X-C motif) ligand 2 20310 6.00E-04 2.35E-02 4.55 10456005 Cd74 CD74 antigen (invariant polypeptide of major histocompatibility complex, class II antigen-associated)16149 8.54E-07 3.37E-04 4.40 10444291 H2-Ab1 histocompatibility 2, class II antigen A, beta 1 14961 5.90E-06 1.11E-03 4.35 10463070 Entpd1 ectonucleoside triphosphate diphosphohydrolase 1 12495 1.24E-07 1.26E-04 4.32 10469278 Il2ra interleukin 2 receptor, alpha chain 16184 1.63E-08 3.22E-05 4.30 10415392 Ltb4r1 leukotriene B4 receptor 1 16995 2.11E-06 5.94E-04 4.22 10409866 Ctla2b cytotoxic T lymphocyte-associated protein 2 beta 13025 4.72E-06 9.80E-04 4.10 10526832 LOC100504914 transmembrane protein PVRIG-like 100504914 7.25E-07 2.99E-04 4.03 10355403 Fn1 fibronectin 1 14268 4.92E-04 2.06E-02 4.02 10389214 Ccl9 chemokine (C-C motif) ligand 9 20308 4.33E-06 9.33E-04 3.97 10444298 H2-Eb1 histocompatibility 2, class II antigen E beta 14969 4.98E-07 2.32E-04 3.70 10454015 Ttc39c tetratricopeptide repeat domain 39C 72747 2.62E-06 6.72E-04 3.59 10598292 Foxp3 forkhead box P3 /// RIKEN cDNA 4930524L23 gene /// coiled-coil domain containing 2220371 4.38E-10 8.26E-06 3.59 10356299 Gpr55 G protein-coupled receptor 55 227326 2.26E-05 2.60E-03 3.53 10394674 Socs2 suppressor of cytokine signaling 2 /// suppressor of cytokine signaling 2 pseudogene216233 6.55E-07 2.74E-04 3.49 10360070 Fcer1g Fc receptor, IgE, high affinity I, gamma polypeptide 14127 7.20E-04 2.66E-02 3.47 10368970 Prdm1 PR domain containing 1, with ZNF domain 12142 5.26E-08 7.64E-05 3.47 10409876 Ctla2a cytotoxic T lymphocyte-associated protein 2 alpha 13024 2.32E-07 1.63E-04 3.44 10378286 Itgae integrin alpha E, epithelial-associated 16407 3.63E-06 8.07E-04 3.43 10523182 Areg amphiregulin 11839 1.02E-05 1.55E-03 3.42 10603328 Ccdc22 coiled-coil domain containing 22 /// forkhead box P3 54638 6.91E-10 8.26E-06 3.41 10598004 Ccr1 chemokine (C-C motif) receptor 1 12768 8.18E-06 1.36E-03 3.38 10484894 Ptprj protein tyrosine phosphatase, receptor type, J 19271 1.05E-06 3.84E-04 3.37 10527638 Alox5ap arachidonate 5-lipoxygenase activating protein 11690 5.16E-05 4.45E-03 3.37 10420308 Gzmb granzyme B 14939 1.38E-04 8.80E-03 3.37 10345241 Dst dystonin 13518 1.34E-09 8.54E-06 3.32 10487506 Gm14005 predicted gene 14005 100043424 4.30E-05 4.00E-03 3.31 10486875 Frmd5 FERM domain containing 5 228564 2.41E-06 6.53E-04 3.31 10358816 Lamc1 laminin, gamma 1 226519 1.05E-07 1.19E-04 3.30 10415081 FJ556972 1.21E-04 8.09E-03 3.23 10520121 FJ556972 1.21E-04 8.09E-03 3.23 10578405 FJ556972 1.21E-04 8.09E-03 3.23 10586076 FJ556972 1.21E-04 8.09E-03 3.23 10363070 Gp49a glycoprotein 49 A 14727 5.97E-07 2.55E-04 3.22 10518300 Tnfrsf1b tumor necrosis factor receptor superfamily, member 1b 21938 2.27E-07 1.63E-04 3.20 10421517 Cysltr2 cysteinyl leukotriene receptor 2 70086 6.52E-06 1.18E-03 3.18 10408935 Atxn1 ataxin 1 20238 3.56E-04 1.63E-02 3.18 10586781 Myo1e myosin IE 71602 4.86E-06 9.80E-04 3.15 10517508 C1qb complement component 1, q subcomponent, beta polypeptide 12260 5.35E-05 4.53E-03 3.13 10441436 Snx9 sorting nexin 9 66616 3.01E-07 1.71E-04 3.12 10355312 Ikzf2 IKAROS family zinc finger 2 22779 1.10E-06 3.85E-04 3.12 10569707 Myadm myeloid-associated differentiation marker 50918 3.41E-05 3.41E-03 3.11 10406270 Glrx glutaredoxin 93692 2.79E-07 1.71E-04 3.10 10587733 Ctsh cathepsin H 13036 2.05E-04 1.14E-02 3.10 10435704 Cd80 CD80 antigen 12519 2.60E-05 2.84E-03 3.10 10461558 Slc15a3 solute carrier family 15, member 3 65221 5.53E-07 2.46E-04 3.10 10466606 Anxa1 annexin A1 16952 2.63E-05 2.85E-03 3.08 10388591 Cpd carboxypeptidase D 12874 2.15E-06 5.94E-04 3.08 10569017 Ifitm3 interferon induced transmembrane protein 3 66141 3.87E-03 7.79E-02 3.08 10435907 Cd200r1 CD200 receptor 1 57781 1.89E-06 5.47E-04 3.07 10510580 Tnfrsf9 tumor necrosis factor receptor superfamily, member 9 21942 1.92E-05 2.32E-03 3.04 10405587 Tgfbi transforming growth factor, beta induced 21810 7.40E-05 5.86E-03 3.02 10539135 Capg capping protein (actin filament), gelsolin-like 12332 1.80E-05 2.22E-03 3.01 10580457 N4bp1 NEDD4 binding protein 1 80750 2.11E-05 2.51E-03 3.01 10588577 Cish cytokine inducible SH2-containing protein 12700 3.50E-07 1.88E-04 3.00 10521678 Cd38 CD38 antigen 12494 1.78E-04 1.04E-02 3.00 10509838 Padi2 peptidyl arginine deiminase, type II 18600 1.03E-05 1.56E-03 2.99 10346790 Ctla4 cytotoxic T-lymphocyte-associated protein 4 12477 1.70E-07 1.38E-04 2.98 10445977 Ebi3 Epstein-Barr virus induced gene 3 50498 1.55E-05 2.04E-03 2.95 10422728 Dab2 disabled homolog 2 (Drosophila) 13132 3.69E-04 1.67E-02 2.93 10586252 Dennd4a DENN/MADD domain containing 4A 102442 2.97E-07 1.71E-04 2.92 10597279 Ccrl2 chemokine (C-C motif) receptor-like 2 54199 5.43E-07 2.46E-04 2.90 10458581 Gm10008 predicted gene 10008 791268 9.40E-04 3.19E-02 2.90 10586240 Dennd4a DENN/MADD domain containing 4A 102442 2.09E-05 2.49E-03 2.88 10517513 C1qc complement component 1, q subcomponent, C chain 12262 2.08E-04 1.15E-02 2.88 10503334 Gem GTP binding protein (gene overexpressed in skeletal muscle) 14579 5.69E-04 2.27E-02 2.85 10355567 Tmbim1 transmembrane BAX inhibitor motif containing 1 69660 4.43E-05 4.07E-03 2.83 10401935 BC005685 cDNA sequence BC005685 352945 2.43E-04 1.26E-02 2.82 10381588 Grn granulin 14824 1.21E-05 1.70E-03 2.80 10590242 Ccr8 chemokine (C-C motif) receptor 8 12776 8.14E-05 6.26E-03 2.80 10542993 Pon3 paraoxonase 3 269823 1.35E-04 8.70E-03 2.79 10518313 Tnfrsf8 tumor necrosis factor receptor superfamily, member 8 21941 1.78E-03 4.83E-02 2.79 10371220 Gna15 guanine nucleotide binding protein, alpha 15 14676 2.11E-07 1.62E-04 2.78 10554863 Sytl2 synaptotagmin-like 2 83671 1.28E-05 1.76E-03 2.78 10547100 Plxnd1 plexin D1 67784 2.46E-07 1.67E-04 2.77 10379727 Gm11428 predicted gene 11428 100034251 6.09E-04 2.37E-02 2.75 10484888 Ptprj protein tyrosine phosphatase, receptor type, J 19271 3.49E-07 1.88E-04 2.75 10408937 Atxn1 ataxin 1 20238 3.34E-05 3.37E-03 2.75 10538901 BC005685 cDNA sequence BC005685 352945 3.39E-04 1.59E-02 2.74 10488589 Fam110a family with sequence similarity 110, member A 73847 2.42E-05 2.73E-03 2.74 10504757 BC005685 cDNA sequence BC005685 352945 1.26E-04 8.26E-03 2.74 10473281 Itgav integrin alpha V 16410 4.74E-06 9.80E-04 2.74 10387257 Alox8 arachidonate 8-lipoxygenase 11688 1.01E-06 3.72E-04 2.74 10389581 Ypel2 yippee-like 2 (Drosophila) 77864 4.12E-05 3.88E-03 2.74 10363082 Lilrb4 leukocyte immunoglobulin-like receptor, subfamily B, member 4 14728 8.98E-06 1.41E-03 2.71 10392142 Cd79b CD79B antigen 15985 1.38E-04 8.77E-03 2.71 10357833 Atp2b4 ATPase, Ca++ transporting, plasma membrane 4 381290 7.62E-07 3.10E-04 2.70 10544660 Osbpl3 oxysterol binding protein-like 3 71720 4.73E-06 9.80E-04 2.69 10603551 Cybb cytochrome b-245, beta polypeptide 13058 1.16E-05 1.65E-03 2.69 10413928 1810011H11Rik RIKEN cDNA 1810011H11 gene 69069 4.58E-04 1.96E-02 2.66 10560624 Apoe apolipoprotein E 11816 1.97E-04 1.11E-02 2.64 10401968 Galc galactosylceramidase 14420 3.90E-05 3.73E-03 2.64 10572897 Hmox1 heme oxygenase (decycling) 1 15368 2.84E-06 6.78E-04 2.64 10367436 Cd63 CD63 antigen 12512 2.84E-03 6.44E-02 2.64 10383756 Ifitm2 interferon induced transmembrane protein 2 80876 7.30E-04 2.68E-02 2.62 10493820 S100a6 S100 calcium binding protein A6 (calcyclin) 20200 1.90E-05 2.31E-03 2.62 10592515 Ubash3b ubiquitin associated and SH3 domain containing, B 72828 8.71E-10 8.26E-06 2.61 10569014 Ifitm2 interferon induced transmembrane protein 2 80876 2.38E-04 1.25E-02 2.61 10593050 Il10ra interleukin 10 receptor, alpha 16154 1.30E-06 4.09E-04 2.60 10482687 Arl5a ADP-ribosylation factor-like 5A 75423 7.60E-06 1.29E-03 2.60 10350733 Rgs16 regulator of G-protein signaling 16 19734 1.43E-07 1.30E-04 2.60 10409278 Nfil3 nuclear factor, interleukin 3, regulated 18030 2.14E-04 1.16E-02 2.58 10474064 Trp53i11 transformation related protein 53 inducible protein 11 277414 1.44E-07 1.30E-04 2.57 10414262 Ear2 eosinophil-associated, ribonuclease A family, member 2 /// cDNA sequence BC15109313587 1.77E-04 1.04E-02 2.56 10418341 Il17rb interleukin 17 receptor B 50905 3.85E-05 3.70E-03 2.56 10403229
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    Methods Mice: 4-6 weeks old female C57BL/6 mice obtained from Jackson labs were used for cell isolation. Female Foxp3-IRES-GFP reporter mice (1), backcrossed to B6/C57 background for 10 generations, were used for the isolation of naïve CD4 and naïve CD8 cells for the RNAseq experiments. The mice were housed in pathogen-free animal facility in the La Jolla Institute for Allergy and Immunology and were used according to protocols approved by the Institutional Animal Care and use Committee. Preparation of cells: Subsets of thymocytes were isolated by cell sorting as previously described (2), after cell surface staining using CD4 (GK1.5), CD8 (53-6.7), CD3ε (145- 2C11), CD24 (M1/69) (all from Biolegend). DP cells: CD4+CD8 int/hi; CD4 SP cells: CD4CD3 hi, CD24 int/lo; CD8 SP cells: CD8 int/hi CD4 CD3 hi, CD24 int/lo (Fig S2). Peripheral subsets were isolated after pooling spleen and lymph nodes. T cells were enriched by negative isolation using Dynabeads (Dynabeads untouched mouse T cells, 11413D, Invitrogen). After surface staining for CD4 (GK1.5), CD8 (53-6.7), CD62L (MEL-14), CD25 (PC61) and CD44 (IM7), naïve CD4+CD62L hiCD25-CD44lo and naïve CD8+CD62L hiCD25-CD44lo were obtained by sorting (BD FACS Aria). Additionally, for the RNAseq experiments, CD4 and CD8 naïve cells were isolated by sorting T cells from the Foxp3- IRES-GFP mice: CD4+CD62LhiCD25–CD44lo GFP(FOXP3)– and CD8+CD62LhiCD25– CD44lo GFP(FOXP3)– (antibodies were from Biolegend). In some cases, naïve CD4 cells were cultured in vitro under Th1 or Th2 polarizing conditions (3, 4).
  • Murine Megakaryopoiesis Is Critical for P21 SCL-Mediated Regulation Of

    Murine Megakaryopoiesis Is Critical for P21 SCL-Mediated Regulation Of

    From bloodjournal.hematologylibrary.org at UNIVERSITY OF BIRMINGHAM on March 1, 2012. For personal use only. 2011 118: 723-735 Prepublished online May 19, 2011; doi:10.1182/blood-2011-01-328765 SCL-mediated regulation of the cell-cycle regulator p21 is critical for murine megakaryopoiesis Hedia Chagraoui, Mira Kassouf, Sreemoti Banerjee, Nicolas Goardon, Kevin Clark, Ann Atzberger, Andrew C. Pearce, Radek C. Skoda, David J. P. Ferguson, Steve P. Watson, Paresh Vyas and Catherine Porcher Updated information and services can be found at: http://bloodjournal.hematologylibrary.org/content/118/3/723.full.html Articles on similar topics can be found in the following Blood collections Platelets and Thrombopoiesis (260 articles) Information about reproducing this article in parts or in its entirety may be found online at: http://bloodjournal.hematologylibrary.org/site/misc/rights.xhtml#repub_requests Information about ordering reprints may be found online at: http://bloodjournal.hematologylibrary.org/site/misc/rights.xhtml#reprints Information about subscriptions and ASH membership may be found online at: http://bloodjournal.hematologylibrary.org/site/subscriptions/index.xhtml Blood (print ISSN 0006-4971, online ISSN 1528-0020), is published weekly by the American Society of Hematology, 2021 L St, NW, Suite 900, Washington DC 20036. Copyright 2011 by The American Society of Hematology; all rights reserved. From bloodjournal.hematologylibrary.org at UNIVERSITY OF BIRMINGHAM on March 1, 2012. For personal use only. PLATELETS AND THROMBOPOIESIS SCL-mediated regulation of the cell-cycle regulator p21 is critical for murine megakaryopoiesis Hedia Chagraoui,1 *Mira Kassouf,1 *Sreemoti Banerjee,1 Nicolas Goardon,1 Kevin Clark,1 Ann Atzberger,1 Andrew C.
  • Supplementary Table 1: Adhesion Genes Data Set

    Supplementary Table 1: Adhesion Genes Data Set

    Supplementary Table 1: Adhesion genes data set PROBE Entrez Gene ID Celera Gene ID Gene_Symbol Gene_Name 160832 1 hCG201364.3 A1BG alpha-1-B glycoprotein 223658 1 hCG201364.3 A1BG alpha-1-B glycoprotein 212988 102 hCG40040.3 ADAM10 ADAM metallopeptidase domain 10 133411 4185 hCG28232.2 ADAM11 ADAM metallopeptidase domain 11 110695 8038 hCG40937.4 ADAM12 ADAM metallopeptidase domain 12 (meltrin alpha) 195222 8038 hCG40937.4 ADAM12 ADAM metallopeptidase domain 12 (meltrin alpha) 165344 8751 hCG20021.3 ADAM15 ADAM metallopeptidase domain 15 (metargidin) 189065 6868 null ADAM17 ADAM metallopeptidase domain 17 (tumor necrosis factor, alpha, converting enzyme) 108119 8728 hCG15398.4 ADAM19 ADAM metallopeptidase domain 19 (meltrin beta) 117763 8748 hCG20675.3 ADAM20 ADAM metallopeptidase domain 20 126448 8747 hCG1785634.2 ADAM21 ADAM metallopeptidase domain 21 208981 8747 hCG1785634.2|hCG2042897 ADAM21 ADAM metallopeptidase domain 21 180903 53616 hCG17212.4 ADAM22 ADAM metallopeptidase domain 22 177272 8745 hCG1811623.1 ADAM23 ADAM metallopeptidase domain 23 102384 10863 hCG1818505.1 ADAM28 ADAM metallopeptidase domain 28 119968 11086 hCG1786734.2 ADAM29 ADAM metallopeptidase domain 29 205542 11085 hCG1997196.1 ADAM30 ADAM metallopeptidase domain 30 148417 80332 hCG39255.4 ADAM33 ADAM metallopeptidase domain 33 140492 8756 hCG1789002.2 ADAM7 ADAM metallopeptidase domain 7 122603 101 hCG1816947.1 ADAM8 ADAM metallopeptidase domain 8 183965 8754 hCG1996391 ADAM9 ADAM metallopeptidase domain 9 (meltrin gamma) 129974 27299 hCG15447.3 ADAMDEC1 ADAM-like,
  • 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.