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Items: 30

1.

Coupled Single-Cell CRISPR Screening and Epigenomic Profiling Reveals Causal Gene Regulatory Networks.

Rubin AJ, Parker KR, Satpathy AT, Qi Y, Wu B, Ong AJ, Mumbach MR, Ji AL, Kim DS, Cho SW, Zarnegar BJ, Greenleaf WJ, Chang HY, Khavari PA.

Cell. 2019 Jan 10;176(1-2):361-376.e17. doi: 10.1016/j.cell.2018.11.022. Epub 2018 Dec 20.

PMID:
30580963
2.

Innate Immunity Induces the Accumulation of Lung Mast Cells During Influenza Infection.

Zarnegar B, Westin A, Evangelidou S, Hallgren J.

Front Immunol. 2018 Oct 4;9:2288. doi: 10.3389/fimmu.2018.02288. eCollection 2018.

3.

RNA-protein interaction detection in living cells.

Ramanathan M, Majzoub K, Rao DS, Neela PH, Zarnegar BJ, Mondal S, Roth JG, Gai H, Kovalski JR, Siprashvili Z, Palmer TD, Carette JE, Khavari PA.

Nat Methods. 2018 Mar;15(3):207-212. doi: 10.1038/nmeth.4601. Epub 2018 Feb 5.

4.

CSNK1a1 Regulates PRMT1 to Maintain the Progenitor State in Self-Renewing Somatic Tissue.

Bao X, Siprashvili Z, Zarnegar BJ, Shenoy RM, Rios EJ, Nady N, Qu K, Mah A, Webster DE, Rubin AJ, Wozniak GG, Tao S, Wysocka J, Khavari PA.

Dev Cell. 2017 Oct 23;43(2):227-239.e5. doi: 10.1016/j.devcel.2017.08.021. Epub 2017 Sep 21.

5.

SLC10A4 regulates IgE-mediated mast cell degranulation in vitro and mast cell-mediated reactions in vivo.

Pettersson H, Zarnegar B, Westin A, Persson V, Peuckert C, Jonsson J, Hallgren J, Kullander K.

Sci Rep. 2017 Apr 24;7(1):1085. doi: 10.1038/s41598-017-01121-8.

6.

Influenza Infection in Mice Induces Accumulation of Lung Mast Cells through the Recruitment and Maturation of Mast Cell Progenitors.

Zarnegar B, Mendez-Enriquez E, Westin A, Söderberg C, Dahlin JS, Grönvik KO, Hallgren J.

Front Immunol. 2017 Mar 22;8:310. doi: 10.3389/fimmu.2017.00310. eCollection 2017.

7.

irCLIP platform for efficient characterization of protein-RNA interactions.

Zarnegar BJ, Flynn RA, Shen Y, Do BT, Chang HY, Khavari PA.

Nat Methods. 2016 Jun;13(6):489-92. doi: 10.1038/nmeth.3840. Epub 2016 Apr 25.

8.

Network Analysis Identifies Mitochondrial Regulation of Epidermal Differentiation by MPZL3 and FDXR.

Bhaduri A, Ungewickell A, Boxer LD, Lopez-Pajares V, Zarnegar BJ, Khavari PA.

Dev Cell. 2015 Nov 23;35(4):444-57. doi: 10.1016/j.devcel.2015.10.023.

9.

The noncoding RNAs SNORD50A and SNORD50B bind K-Ras and are recurrently deleted in human cancer.

Siprashvili Z, Webster DE, Johnston D, Shenoy RM, Ungewickell AJ, Bhaduri A, Flockhart R, Zarnegar BJ, Che Y, Meschi F, Puglisi JD, Khavari PA.

Nat Genet. 2016 Jan;48(1):53-8. doi: 10.1038/ng.3452. Epub 2015 Nov 23.

10.

A LncRNA-MAF:MAFB transcription factor network regulates epidermal differentiation.

Lopez-Pajares V, Qu K, Zhang J, Webster DE, Barajas BC, Siprashvili Z, Zarnegar BJ, Boxer LD, Rios EJ, Tao S, Kretz M, Khavari PA.

Dev Cell. 2015 Mar 23;32(6):693-706. doi: 10.1016/j.devcel.2015.01.028.

11.

Mefloquine, an anti-malaria agent, causes reactive oxygen species-dependent cell death in mast cells via a secretory granule-mediated pathway.

Paivandy A, Calounova G, Zarnegar B, Ohrvik H, Melo FR, Pejler G.

Pharmacol Res Perspect. 2014 Dec;2(6):e00066. doi: 10.1002/prp2.66. Epub 2014 Aug 24.

12.

Dissecting noncoding and pathogen RNA-protein interactomes.

Flynn RA, Martin L, Spitale RC, Do BT, Sagan SM, Zarnegar B, Qu K, Khavari PA, Quake SR, Sarnow P, Chang HY.

RNA. 2015 Jan;21(1):135-43. doi: 10.1261/rna.047803.114. Epub 2014 Nov 19.

13.

Genomic analysis and mRNA expression of equine type I interferon genes.

Detournay O, Morrison DA, Wagner B, Zarnegar B, Wattrang E.

J Interferon Cytokine Res. 2013 Dec;33(12):746-59. doi: 10.1089/jir.2012.0130. Epub 2013 Jun 17.

14.

IQGAP1 scaffold-kinase interaction blockade selectively targets RAS-MAP kinase-driven tumors.

Jameson KL, Mazur PK, Zehnder AM, Zhang J, Zarnegar B, Sage J, Khavari PA.

Nat Med. 2013 May;19(5):626-630. doi: 10.1038/nm.3165. Epub 2013 Apr 21.

15.

Genetic pathways in disorders of epidermal differentiation.

Lopez-Pajares V, Yan K, Zarnegar BJ, Jameson KL, Khavari PA.

Trends Genet. 2013 Jan;29(1):31-40. doi: 10.1016/j.tig.2012.10.005. Epub 2012 Nov 8. Review.

16.

Genomic profiling of a human organotypic model of AEC syndrome reveals ZNF750 as an essential downstream target of mutant TP63.

Zarnegar BJ, Webster DE, Lopez-Pajares V, Vander Stoep Hunt B, Qu K, Yan KJ, Berk DR, Sen GL, Khavari PA.

Am J Hum Genet. 2012 Sep 7;91(3):435-43. doi: 10.1016/j.ajhg.2012.07.007. Epub 2012 Aug 23.

17.

ZNF750 is a p63 target gene that induces KLF4 to drive terminal epidermal differentiation.

Sen GL, Boxer LD, Webster DE, Bussat RT, Qu K, Zarnegar BJ, Johnston D, Siprashvili Z, Khavari PA.

Dev Cell. 2012 Mar 13;22(3):669-77. doi: 10.1016/j.devcel.2011.12.001. Epub 2012 Feb 23.

18.

Phylogenetic analysis of bovine respiratory syncytial viruses from recent outbreaks in feedlot and dairy cattle herds.

Bidokhti MR, Tråvén M, Ohlson A, Zarnegar B, Baule C, Belák S, Alenius S, Liu L.

Arch Virol. 2012 Apr;157(4):601-7. doi: 10.1007/s00705-011-1209-3. Epub 2011 Dec 31.

PMID:
22209787
19.

Negative feedback in noncanonical NF-kappaB signaling modulates NIK stability through IKKalpha-mediated phosphorylation.

Razani B, Zarnegar B, Ytterberg AJ, Shiba T, Dempsey PW, Ware CF, Loo JA, Cheng G.

Sci Signal. 2010 May 25;3(123):ra41. doi: 10.1126/scisignal.2000778.

20.

Noncanonical NF-kappaB activation requires coordinated assembly of a regulatory complex of the adaptors cIAP1, cIAP2, TRAF2 and TRAF3 and the kinase NIK.

Zarnegar BJ, Wang Y, Mahoney DJ, Dempsey PW, Cheung HH, He J, Shiba T, Yang X, Yeh WC, Mak TW, Korneluk RG, Cheng G.

Nat Immunol. 2008 Dec;9(12):1371-8. doi: 10.1038/ni.1676. Epub 2008 Nov 9.

21.

Control of canonical NF-kappaB activation through the NIK-IKK complex pathway.

Zarnegar B, Yamazaki S, He JQ, Cheng G.

Proc Natl Acad Sci U S A. 2008 Mar 4;105(9):3503-8. doi: 10.1073/pnas.0707959105. Epub 2008 Feb 21.

22.

IRF3-dependent type I interferon response in B cells regulates CpG-mediated antibody production.

Oganesyan G, Saha SK, Pietras EM, Guo B, Miyahira AK, Zarnegar B, Cheng G.

J Biol Chem. 2008 Jan 11;283(2):802-8. Epub 2007 Oct 9.

23.

TRAF3 and its biological function.

He JQ, Oganesyan G, Saha SK, Zarnegar B, Cheng G.

Adv Exp Med Biol. 2007;597:48-59. Review.

PMID:
17633016
24.

Specificity of TRAF3 in its negative regulation of the noncanonical NF-kappa B pathway.

He JQ, Saha SK, Kang JR, Zarnegar B, Cheng G.

J Biol Chem. 2007 Feb 9;282(6):3688-94. Epub 2006 Dec 11.

25.

Rescue of TRAF3-null mice by p100 NF-kappa B deficiency.

He JQ, Zarnegar B, Oganesyan G, Saha SK, Yamazaki S, Doyle SE, Dempsey PW, Cheng G.

J Exp Med. 2006 Oct 30;203(11):2413-8. Epub 2006 Oct 2.

26.

Regulation of antiviral responses by a direct and specific interaction between TRAF3 and Cardif.

Saha SK, Pietras EM, He JQ, Kang JR, Liu SY, Oganesyan G, Shahangian A, Zarnegar B, Shiba TL, Wang Y, Cheng G.

EMBO J. 2006 Jul 26;25(14):3257-63. Epub 2006 Jul 6.

27.

Critical role of TRAF3 in the Toll-like receptor-dependent and -independent antiviral response.

Oganesyan G, Saha SK, Guo B, He JQ, Shahangian A, Zarnegar B, Perry A, Cheng G.

Nature. 2006 Jan 12;439(7073):208-11. Epub 2005 Nov 23.

PMID:
16306936
28.

Type I interferon production enhances susceptibility to Listeria monocytogenes infection.

O'Connell RM, Saha SK, Vaidya SA, Bruhn KW, Miranda GA, Zarnegar B, Perry AK, Nguyen BO, Lane TF, Taniguchi T, Miller JF, Cheng G.

J Exp Med. 2004 Aug 16;200(4):437-45. Epub 2004 Aug 9.

29.

Unique CD40-mediated biological program in B cell activation requires both type 1 and type 2 NF-kappaB activation pathways.

Zarnegar B, He JQ, Oganesyan G, Hoffmann A, Baltimore D, Cheng G.

Proc Natl Acad Sci U S A. 2004 May 25;101(21):8108-13. Epub 2004 May 17.

30.

Cooperation of multiple signaling pathways in CD40-regulated gene expression in B lymphocytes.

Dadgostar H, Zarnegar B, Hoffmann A, Qin XF, Truong U, Rao G, Baltimore D, Cheng G.

Proc Natl Acad Sci U S A. 2002 Feb 5;99(3):1497-502.

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