From a4e28334285f325cc882d81f6b0488c9449286b1 Mon Sep 17 00:00:00 2001 From: Don Armstrong Date: Sun, 16 Feb 2014 15:37:02 -0800 Subject: [PATCH] try switching to footnotes instead of citations --- resume/research_statement.mdwn | 30 +++++++++++++++--------------- 1 file changed, 15 insertions(+), 15 deletions(-) diff --git a/resume/research_statement.mdwn b/resume/research_statement.mdwn index 70283a3..a2c382a 100644 --- a/resume/research_statement.mdwn +++ b/resume/research_statement.mdwn @@ -51,17 +51,17 @@ I developed novel bioinformatic methods which increase likelihood of identifying reproducible genetic associations using prior knowledge from publicly available databases and expert -information [#Armstrong2008:function2gene]. Using these methods, I was +information [^Armstrong2008:function2gene]. Using these methods, I was able to identify genes previously unassociated with SLE in a -trio-based study [#Jacob2007:ar_lupus]. These genes were then +trio-based study [^Jacob2007:ar_lupus]. These genes were then replicated in a larger case-control study which was funded by the NIH -on the basis of the original findings [#Jacob2009:sle_irak1] , -[#Armstrong2009:sle_gi]. Among other findings, this larger study +on the basis of the original findings [^Jacob2009:sle_irak1],[^Armstrong2009:sle_gi]. +Among other findings, this larger study identified a missense allele in NCF2 (H389Q, rs17849502) which was associated with SLE. Collaborative work indicated that H389Q altered the binding energy of NCF2 with VAV1 using docking simulations, and in vitro experiments confirmed that H389Q altered NADPH oxidase function -[#Jacob2012:sle_ncf2], thus identifying it as a causative SLE +[^Jacob2012:sle_ncf2], thus identifying it as a causative SLE mutation. ## Cancer Stem Cells in Glioblastoma @@ -86,7 +86,7 @@ indentified multiple gene regulation pathways, many of them novel, including the Id1/Thsb1 inhibitory pathway. Additional experiments indicated that the *in vitro* pathology of endothelial cells could be partially rescued using extracellular Thsb1 -[#Stapleton2011:thbs1]. +[^Stapleton2011:thbs1]. # Future research directions @@ -204,41 +204,41 @@ be able to build upon and improve my tools without being forced to reinvent them. -[#Armstrong2009:sle_gi]: D L Armstrong et al. “Identification of new SLE-associated genes with a two-step +[^Armstrong2009:sle_gi]: D L Armstrong et al. “Identification of new SLE-associated genes with a two-step Bayesian study design”. In: Genes Immun. 10.5 (July 2009), pp. 446–456. doi: [10.1038/gene.2009.38](http://dx.doi.org/10.1038/gene.2009.38). -[#Armstrong2008:function2gene]: Don L Armstrong, Chaim O Jacob, and Raphael Zidovetzki. “Function2Gene: a +[^Armstrong2008:function2gene]: Don L Armstrong, Chaim O Jacob, and Raphael Zidovetzki. “Function2Gene: a gene selection tool to increase the power of genetic association studies by utilizing public databases and expert knowledge”. In: BMC Bioinformatics 9 (2008), p. 311. doi: [10.1186/1471-2105-9-311](http://dx.doi.org/10.1186/1471-2105-9-311). -[#Jacob2009:sle_irak1]: Chaim O Jacob et al. “Identification of IRAK1 as a risk gene with critical role +[^Jacob2009:sle_irak1]: Chaim O Jacob et al. “Identification of IRAK1 as a risk gene with critical role in the pathogenesis of systemic lupus erythematosus”. In: Proc. Natl. Acad. Sci. U.S.A. 106.15 (Apr. 2009), pp. 6256–6261. doi: [10.1073/pnas.0901181106](http://dx.doi.org/10.1073/pnas.0901181106). -[#Jacob2007:ar_lupus]: Chaim O Jacob et al. “Identification of novel susceptibility genes in childhood- +[^Jacob2007:ar_lupus]: Chaim O Jacob et al. “Identification of novel susceptibility genes in childhood- onset systemic lupus erythematosus using a uniquely designed candidate gene pathway platform”. In: Arthritis Rheum. 56.12 (Dec. 2007), pp. 4164–4173. doi: [10.1002/art.23060](http://dx.doi.org/10.1002/art.23060). -[#Jacob2012:sle_ncf2]: Chaim O Jacob et al. “Lupus-associated causal mutation in neutrophil cytosolic +[^Jacob2012:sle_ncf2]: Chaim O Jacob et al. “Lupus-associated causal mutation in neutrophil cytosolic factor 2 (NCF2) brings unique insights to the structure and function of NADPH oxidase”. In: Proc. Natl. Acad. Sci. U.S.A. 109.2 (Jan. 2012), pp. 59–67. doi: [10.1073/pnas.1113251108](http://dx.doi.org/10.1073/pnas.1113251108). -[#Stapleton2011:thbs1]: Christopher J Stapleton et al. +[^Stapleton2011:thbs1]: Christopher J Stapleton et al. “Thrombospondin-1 modulates the angiogenic phe- notype of human cerebral arteriovenous malformation endothelial cells”. In: Neurosurgery 68.5 (May 2011), pp. 1342–1353. doi: [10.1227/NEU.0b013e31820c0a68](http://dx.doi.org/10.1227/NEU.0b013e31820c0a68). -[survival_rate]: Only 4% of patients survive to 5 years after diagnosis +[^survival_rate]: Only 4% of patients survive to 5 years after diagnosis -[avm_definition]: Direct artery to vein connection without an +[^avm_definition]: Direct artery to vein connection without an intervening capilary bed; leads to high pressure arterial flow in venous tissue and can lead to hemmorrhage and death. -[extending_note]: and extending existing open source tools where they +[^extending_note]: and extending existing open source tools where they exist -- 2.39.2