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Items: 22

1.

CD96 Is an Immune Checkpoint That Regulates CD8+ T-cell Antitumor Function.

Mittal D, Lepletier A, Madore J, Aguilera AR, Stannard K, Blake SJ, Whitehall VLJ, Liu C, Bettington ML, Takeda K, Long GV, Scolyer RA, Lan R, Siemers N, Korman A, Teng MWL, Johnston RJ, Dougall WC, Smyth MJ.

Cancer Immunol Res. 2019 Apr;7(4):559-571. doi: 10.1158/2326-6066.CIR-18-0637. Epub 2019 Mar 20.

2.

Genome-wide association analysis identifies genetic correlates of immune infiltrates in solid tumors.

Siemers NO, Holloway JL, Chang H, Chasalow SD, Ross-MacDonald PB, Voliva CF, Szustakowski JD.

PLoS One. 2017 Jul 27;12(7):e0179726. doi: 10.1371/journal.pone.0179726. eCollection 2017.

3.

Gene expression analyses of mouse aortic endothelium in response to atherogenic stimuli.

Erbilgin A, Siemers N, Kayne P, Yang WP, Berliner J, Lusis AJ.

Arterioscler Thromb Vasc Biol. 2013 Nov;33(11):2509-17. doi: 10.1161/ATVBAHA.113.301989. Epub 2013 Aug 29.

4.

Unraveling inflammatory responses using systems genetics and gene-environment interactions in macrophages.

Orozco LD, Bennett BJ, Farber CR, Ghazalpour A, Pan C, Che N, Wen P, Qi HX, Mutukulu A, Siemers N, Neuhaus I, Yordanova R, Gargalovic P, Pellegrini M, Kirchgessner T, Lusis AJ.

Cell. 2012 Oct 26;151(3):658-70. doi: 10.1016/j.cell.2012.08.043.

5.

An immune-active tumor microenvironment favors clinical response to ipilimumab.

Ji RR, Chasalow SD, Wang L, Hamid O, Schmidt H, Cogswell J, Alaparthy S, Berman D, Jure-Kunkel M, Siemers NO, Jackson JR, Shahabi V.

Cancer Immunol Immunother. 2012 Jul;61(7):1019-31. doi: 10.1007/s00262-011-1172-6. Epub 2011 Dec 7.

PMID:
22146893
6.

Biochemical and transcriptional profiling to triage additional activities in a series of IGF-1R/IR inhibitors.

Ross-Macdonald P, de Silva H, Patel V, Truong A, He A, Neuhaus I, Tilford C, Ji R, Siemers N, Greer A, Carboni J, Gottardis M, Menard K, Lee F, Dodier M, Frennesson D, Sampognaro A, Saulnier M, Trainor G, Vyas D, Zimmermann K, Wittman M.

Bioorg Med Chem. 2012 Mar 15;20(6):1961-72. doi: 10.1016/j.bmc.2011.10.090. Epub 2011 Nov 6.

PMID:
22137930
7.

SDRS--an algorithm for analyzing large-scale dose-response data.

Ji RR, Siemers NO, Lei M, Schweizer L, Bruccoleri RE.

Bioinformatics. 2011 Oct 15;27(20):2921-3. doi: 10.1093/bioinformatics/btr489. Epub 2011 Aug 24.

8.

Exome sequencing reveals comprehensive genomic alterations across eight cancer cell lines.

Chang H, Jackson DG, Kayne PS, Ross-Macdonald PB, Ryseck RP, Siemers NO.

PLoS One. 2011;6(6):e21097. doi: 10.1371/journal.pone.0021097. Epub 2011 Jun 20.

9.

Comparative analysis of proteome and transcriptome variation in mouse.

Ghazalpour A, Bennett B, Petyuk VA, Orozco L, Hagopian R, Mungrue IN, Farber CR, Sinsheimer J, Kang HM, Furlotte N, Park CC, Wen PZ, Brewer H, Weitz K, Camp DG 2nd, Pan C, Yordanova R, Neuhaus I, Tilford C, Siemers N, Gargalovic P, Eskin E, Kirchgessner T, Smith DJ, Smith RD, Lusis AJ.

PLoS Genet. 2011 Jun;7(6):e1001393. doi: 10.1371/journal.pgen.1001393. Epub 2011 Jun 9.

10.

A high-resolution association mapping panel for the dissection of complex traits in mice.

Bennett BJ, Farber CR, Orozco L, Kang HM, Ghazalpour A, Siemers N, Neubauer M, Neuhaus I, Yordanova R, Guan B, Truong A, Yang WP, He A, Kayne P, Gargalovic P, Kirchgessner T, Pan C, Castellani LW, Kostem E, Furlotte N, Drake TA, Eskin E, Lusis AJ.

Genome Res. 2010 Feb;20(2):281-90. doi: 10.1101/gr.099234.109. Epub 2010 Jan 6.

11.

Transcriptional profiling of the dose response: a more powerful approach for characterizing drug activities.

Ji RR, de Silva H, Jin Y, Bruccoleri RE, Cao J, He A, Huang W, Kayne PS, Neuhaus IM, Ott KH, Penhallow B, Cockett MI, Neubauer MG, Siemers NO, Ross-Macdonald P.

PLoS Comput Biol. 2009 Sep;5(9):e1000512. doi: 10.1371/journal.pcbi.1000512. Epub 2009 Sep 18.

12.

Gene set enrichment analysis.

Tilford CA, Siemers NO.

Methods Mol Biol. 2009;563:99-121. doi: 10.1007/978-1-60761-175-2_6.

PMID:
19597782
13.

HBEGF, SRA1, and IK: Three cosegregating genes as determinants of cardiomyopathy.

Friedrichs F, Zugck C, Rauch GJ, Ivandic B, Weichenhan D, Müller-Bardorff M, Meder B, El Mokhtari NE, Regitz-Zagrosek V, Hetzer R, Schäfer A, Schreiber S, Chen J, Neuhaus I, Ji R, Siemers NO, Frey N, Rottbauer W, Katus HA, Stoll M.

Genome Res. 2009 Mar;19(3):395-403. doi: 10.1101/gr.076653.108. Epub 2008 Dec 8.

14.

Construction of a reference gene association network from multiple profiling data: application to data analysis.

Ucar D, Neuhaus I, Ross-MacDonald P, Tilford C, Parthasarathy S, Siemers N, Ji RR.

Bioinformatics. 2007 Oct 15;23(20):2716-24. Epub 2007 Sep 10.

PMID:
17846039
15.

Nearest Neighbor Networks: clustering expression data based on gene neighborhoods.

Huttenhower C, Flamholz AI, Landis JN, Sahi S, Myers CL, Olszewski KL, Hibbs MA, Siemers NO, Troyanskaya OG, Coller HA.

BMC Bioinformatics. 2007 Jul 12;8:250.

16.

Structural and functional characterization of CFE88: evidence that a conserved and essential bacterial protein is a methyltransferase.

Constantine KL, Krystek SR, Healy MD, Doyle ML, Siemers NO, Thanassi J, Yan N, Xie D, Goldfarb V, Yanchunas J, Tao L, Dougherty BA, Farmer BT 2nd.

Protein Sci. 2005 Jun;14(6):1472-84.

17.

Cephalosporin prodrugs of paclitaxel for immunologically specific activation by L-49-sFv-beta-lactamase fusion protein.

Vrudhula VM, Kerr DE, Siemers NO, Dubowchik GM, Senter PD.

Bioorg Med Chem Lett. 2003 Feb 10;13(3):539-42.

PMID:
12565967
18.

Comparison of recombinant and synthetically formed monoclonal antibody-beta-lactamase conjugates for anticancer prodrug activation.

Kerr DE, Vrudhula VM, Svensson HP, Siemers NO, Senter PD.

Bioconjug Chem. 1999 Nov-Dec;10(6):1084-9.

PMID:
10563779
19.

Mathematical and experimental analysis of localization of anti-tumour antibody-enzyme conjugates.

Jackson TL, Lubkin SR, Siemers NO, Kerr DE, Senter PD, Murray JD.

Br J Cancer. 1999 Aug;80(11):1747-53.

20.

Development and activities of a new melphalan prodrug designed for tumor-selective activation.

Kerr DE, Li Z, Siemers NO, Senter PD, Vrudhula VM.

Bioconjug Chem. 1998 Mar-Apr;9(2):255-9.

PMID:
9548542
21.

Construction, expression, and activities of L49-sFv-beta-lactamase, a single-chain antibody fusion protein for anticancer prodrug activation.

Siemers NO, Kerr DE, Yarnold S, Stebbins MR, Vrudhula VM, Hellström I, Hellström KE, Senter PD.

Bioconjug Chem. 1997 Jul-Aug;8(4):510-9.

PMID:
9258449
22.

Modifying the specificity and activity of the Enterobacter cloacae P99 beta-lactamase by mutagenesis within an M13 phage vector.

Siemers NO, Yelton DE, Bajorath J, Senter PD.

Biochemistry. 1996 Feb 20;35(7):2104-11.

PMID:
8652552

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