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Items: 1 to 20 of 22

1.

Data-driven analysis of immune infiltrate in a large cohort of breast cancer and its association with disease progression, ER activity, and genomic complexity.

Dannenfelser R, Nome M, Tahiri A, Ursini-Siegel J, Vollan HKM, Haakensen VD, Helland Å, Naume B, Caldas C, Børresen-Dale AL, Kristensen VN, Troyanskaya OG.

Oncotarget. 2017 Jul 7;8(34):57121-57133. doi: 10.18632/oncotarget.19078. eCollection 2017 Aug 22.

2.

Bioinformatics Approaches to Profile the Tumor Microenvironment for Immunotherapeutic Discovery.

Clancy T, Dannenfelser R, Troyanskaya O, Malmberg KJ, Hovig E, Kristensen V.

Curr Pharm Des. 2017;23(32):4716-4725. doi: 10.2174/1381612823666170710154936.

PMID:
28699527
3.

IFNγ-Dependent Tissue-Immune Homeostasis Is Co-opted in the Tumor Microenvironment.

Nirschl CJ, Suárez-Fariñas M, Izar B, Prakadan S, Dannenfelser R, Tirosh I, Liu Y, Zhu Q, Devi KSP, Carroll SL, Chau D, Rezaee M, Kim TG, Huang R, Fuentes-Duculan J, Song-Zhao GX, Gulati N, Lowes MA, King SL, Quintana FJ, Lee YS, Krueger JG, Sarin KY, Yoon CH, Garraway L, Regev A, Shalek AK, Troyanskaya O, Anandasabapathy N.

Cell. 2017 Jun 29;170(1):127-141.e15. doi: 10.1016/j.cell.2017.06.016.

PMID:
28666115
4.

Lymphocyte Invasion in IC10/Basal-Like Breast Tumors Is Associated with Wild-Type TP53.

Quigley D, Silwal-Pandit L, Dannenfelser R, Langerød A, Vollan HK, Vaske C, Siegel JU, Troyanskaya O, Chin SF, Caldas C, Balmain A, Børresen-Dale AL, Kristensen V.

Mol Cancer Res. 2015 Mar;13(3):493-501. doi: 10.1158/1541-7786.MCR-14-0387. Epub 2014 Oct 28.

5.

ESCAPE: database for integrating high-content published data collected from human and mouse embryonic stem cells.

Xu H, Baroukh C, Dannenfelser R, Chen EY, Tan CM, Kou Y, Kim YE, Lemischka IR, Ma'ayan A.

Database (Oxford). 2013 Jun 21;2013:bat045. doi: 10.1093/database/bat045. Print 2013.

6.

Network2Canvas: network visualization on a canvas with enrichment analysis.

Tan CM, Chen EY, Dannenfelser R, Clark NR, Ma'ayan A.

Bioinformatics. 2013 Aug 1;29(15):1872-8. doi: 10.1093/bioinformatics/btt319. Epub 2013 Jun 7.

7.

Sets2Networks: network inference from repeated observations of sets.

Clark NR, Dannenfelser R, Tan CM, Komosinski ME, Ma'ayan A.

BMC Syst Biol. 2012 Jul 23;6:89. doi: 10.1186/1752-0509-6-89.

8.

Genes2FANs: connecting genes through functional association networks.

Dannenfelser R, Clark NR, Ma'ayan A.

BMC Bioinformatics. 2012 Jul 2;13:156. doi: 10.1186/1471-2105-13-156.

9.

Patterns and rates of exonic de novo mutations in autism spectrum disorders.

Neale BM, Kou Y, Liu L, Ma'ayan A, Samocha KE, Sabo A, Lin CF, Stevens C, Wang LS, Makarov V, Polak P, Yoon S, Maguire J, Crawford EL, Campbell NG, Geller ET, Valladares O, Schafer C, Liu H, Zhao T, Cai G, Lihm J, Dannenfelser R, Jabado O, Peralta Z, Nagaswamy U, Muzny D, Reid JG, Newsham I, Wu Y, Lewis L, Han Y, Voight BF, Lim E, Rossin E, Kirby A, Flannick J, Fromer M, Shakir K, Fennell T, Garimella K, Banks E, Poplin R, Gabriel S, DePristo M, Wimbish JR, Boone BE, Levy SE, Betancur C, Sunyaev S, Boerwinkle E, Buxbaum JD, Cook EH Jr, Devlin B, Gibbs RA, Roeder K, Schellenberg GD, Sutcliffe JS, Daly MJ.

Nature. 2012 Apr 4;485(7397):242-5. doi: 10.1038/nature11011.

10.

Recovering protein-protein and domain-domain interactions from aggregation of IP-MS proteomics of coregulator complexes.

Mazloom AR, Dannenfelser R, Clark NR, Grigoryan AV, Linder KM, Cardozo TJ, Bond JC, Boran AD, Iyengar R, Malovannaya A, Lanz RB, Ma'ayan A.

PLoS Comput Biol. 2011 Dec;7(12):e1002319. doi: 10.1371/journal.pcbi.1002319. Epub 2011 Dec 29.

11.

Genes2WordCloud: a quick way to identify biological themes from gene lists and free text.

Baroukh C, Jenkins SL, Dannenfelser R, Ma'ayan A.

Source Code Biol Med. 2011 Oct 13;6:15. doi: 10.1186/1751-0473-6-15.

12.

Selection of oral bioavailability enhancing formulations during drug discovery.

Zheng W, Jain A, Papoutsakis D, Dannenfelser RM, Panicucci R, Garad S.

Drug Dev Ind Pharm. 2012 Feb;38(2):235-47. doi: 10.3109/03639045.2011.602406. Epub 2011 Aug 19.

PMID:
21851310
13.

FNV: light-weight flash-based network and pathway viewer.

Dannenfelser R, Lachmann A, Szenk M, Ma'ayan A.

Bioinformatics. 2011 Apr 15;27(8):1181-2. doi: 10.1093/bioinformatics/btr098. Epub 2011 Feb 23.

14.

JCoDA: a tool for detecting evolutionary selection.

Steinway SN, Dannenfelser R, Laucius CD, Hayes JE, Nayak S.

BMC Bioinformatics. 2010 May 27;11:284. doi: 10.1186/1471-2105-11-284.

15.

In vitro hemolysis: guidance for the pharmaceutical scientist.

Amin K, Dannenfelser RM.

J Pharm Sci. 2006 Jun;95(6):1173-6.

PMID:
16639718
16.

Lyophilization of polyethylene glycol mixtures.

Amin K, Dannenfelser RM, Zielinski J, Wang B.

J Pharm Sci. 2004 Sep;93(9):2244-9.

PMID:
15295785
17.
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19.

Emulsion formulations for intravenous administration of paclitaxel.

Simamora P, Dannenfelser RM, Tabibi SE, Yalkowsky SH.

PDA J Pharm Sci Technol. 1998 Jul-Aug;52(4):170-2. No abstract available.

PMID:
9752712
20.

Parenteral formulation of Flavopiridol (NSC-649890).

Dannenfelser RM, Surakitbanharn Y, Tabibi SE, Yalkowsky SH.

PDA J Pharm Sci Technol. 1996 Nov-Dec;50(6):356-9.

PMID:
9038080

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