Merge pull request #31 from carriewright11/UW

publications

index.Rmd

@@ -29,6 +29,7 @@ See Dr. Wright's CV on [overleaf](https://www.overleaf.com/read/jkhxnxcyctjn).
 You can find Carrie on GitHub at [carriewright11](https://github.com/carriewright11/).
 
 
+
 &nbsp;<center>
 ![](http://ghchart.rshah.org/DA2536/carriewright11.svg){width=500px, }
 </center>

publications.Rmd

@@ -9,23 +9,29 @@
 ## Publications {.tabset .tabset-fade}
  
 
-### First Author Publications
+### First Author or Senior Author Publications
+
+1. Afiaz A, Ivanov AA, Chamberlin J, Hanauer D, Savonen CL, Goldman MJ, Morgan M, Reich M, Getka A, Holmes A, Pati S, Knight D, Boutros PC, Bakas S, Caporaso JG, Del Fiol G, Hochheiser H, Haas B, Schloss PD, Eddy JA, Albrecht J, Fedorov A, Waldron L, Hoffman AM, Bradshaw RL, Leek JT, **Wright C.** Best practices to evaluate the impact of biomedical research software-metric collection beyond citations. Bioinformatics. 2024 Aug 2;40(8):btae469. doi: 10.1093/bioinformatics/btae469. PMID: 39067017; PMCID: [PMC11297485](https://pubmed.ncbi.nlm.nih.gov/39067017/).
+
+1. Hoffman AM\*, **Wright C.\*** Ten simple rules for teaching an introduction to R. PLoS Comput Biol. 2024 May 16;20(5):e1012018. doi: 10.1371/journal.pcbi.1012018. PMID: [38753606](PMC11098303.https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11098303/)
+\* ***These authors contributed equally to this work.***
+
 1. **Wright C.\***, Rajpurohit A.\*, Jaffe A., Burke, E., Williams, C., Collado-Torres, L., Kimos, M., Brandon N., Cross A.J., Weinberger D. R., and Shin J. H. (2019) Comprehensive assessment of multiple biases in small RNA sequencing reveals significant differences in the performance of widely used methods. BMC Genomics. 20(1):513. PMID: [1226924](https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-019-5870-3)
-\* These authors contributed equally to this work.
+\* ***These authors contributed equally to this work.***
 
-2.	Rosenberg A. Z\*., **Wright C\***., Fox-Talbot K., Rajpurohit A., Williams C., Porter C., Foulke-Abel J, Kovbasnjuk O., McCall M. N., Shin J. H.,  Haluska, M. K. (2018) xMD-miRNA-seq to generate near in vivo miRNA expression estimates in colon epithelial cells. Scientific Reports. 8(1):9783. PMID: [29955168](https://www.ncbi.nlm.nih.gov/pubmed/29955168)
-\* These authors contributed equally to this work.
+1.	Rosenberg A. Z\*., **Wright C\***., Fox-Talbot K., Rajpurohit A., Williams C., Porter C., Foulke-Abel J, Kovbasnjuk O., McCall M. N., Shin J. H.,  Haluska, M. K. (2018) xMD-miRNA-seq to generate near in vivo miRNA expression estimates in colon epithelial cells. Scientific Reports. 8(1):9783. PMID: [29955168](https://www.ncbi.nlm.nih.gov/pubmed/29955168)
+\* ***These authors contributed equally to this work.***
 
-3.	**Wright C.**, Ross D. A., and Weinberger D. R. (2018) Small RNAs may answer big questions in mental illness. Biological Psychiatry. 83(1):e1. PMID: [29173708](https://www.ncbi.nlm.nih.gov/pubmed/?term=29173708)
+1.	**Wright C.**, Ross D. A., and Weinberger D. R. (2018) Small RNAs may answer big questions in mental illness. Biological Psychiatry. 83(1):e1. PMID: [29173708](https://www.ncbi.nlm.nih.gov/pubmed/?term=29173708)
 
-4.	**Wright C.**, Shin J. H., Jaffe A., Rajpurohit A., Brandon N., Cross A., Hyde T. M., Kleinman, J. E., and Weinberger D. R. (2017) Altered expression of histamine signaling genes in Autism Spectrum Disorder. Translational Psychiatry. 7(5):e1126. PMID: [28485729](https://www.ncbi.nlm.nih.gov/pubmed/?term=28485729)
+1.	**Wright C.**, Shin J. H., Jaffe A., Rajpurohit A., Brandon N., Cross A., Hyde T. M., Kleinman, J. E., and Weinberger D. R. (2017) Altered expression of histamine signaling genes in Autism Spectrum Disorder. Translational Psychiatry. 7(5):e1126. PMID: [28485729](https://www.ncbi.nlm.nih.gov/pubmed/?term=28485729)
 
-5.	**Wright C.**, Gupta C. N., Chen J., Patel V., Calhoun V.D., Ehrlich S., Wang L., Bustillo J. R., Perrone-Bizzozero N., and Turner J. A. (2016) Polymorphisms in MIR137HG and microRNA-137 regulated genes influence gray matter structure in schizophrenia. Translational Psychiatry. 6:e724. PMID: [26836412](https://www.ncbi.nlm.nih.gov/pubmed/?term=26836412)  
+1.	**Wright C.**, Gupta C. N., Chen J., Patel V., Calhoun V.D., Ehrlich S., Wang L., Bustillo J. R., Perrone-Bizzozero N., and Turner J. A. (2016) Polymorphisms in MIR137HG and microRNA-137 regulated genes influence gray matter structure in schizophrenia. Translational Psychiatry. 6:e724. PMID: [26836412](https://www.ncbi.nlm.nih.gov/pubmed/?term=26836412)  
 
-6.	**Wright C.**, Calhoun V., Ehrlich S., Wang L., Turner J.A., and Perrone-Bizzozero N. (2015)
+1.	**Wright C.**, Calhoun V., Ehrlich S., Wang L., Turner J.A., and Perrone-Bizzozero N. (2015)
 Meta gene set enrichment analyses link miR-137-regulated pathways with schizophrenia risk. Frontiers in Genetics. 6:147. PMID: [25941532](https://www.ncbi.nlm.nih.gov/pubmed/?term=25941532)
 
-7.	**Wright C.**, Turner J.A., Calhoun V.D. and Perrone-Bizzozero N. (2013) Potential impact of miR-137 and its targets in schizophrenia. Frontiers in Genetics. 4:58. PMID: [23637704](https://www.ncbi.nlm.nih.gov/pubmed/?term=23637704) 
+1.	**Wright C.**, Turner J.A., Calhoun V.D. and Perrone-Bizzozero N. (2013) Potential impact of miR-137 and its targets in schizophrenia. Frontiers in Genetics. 4:58. PMID: [23637704](https://www.ncbi.nlm.nih.gov/pubmed/?term=23637704) 
 
 ### Secondary Author Publications
 

publications.html

@@ -13,7 +13,7 @@
 
 <title>publications.knit</title>
 
-<script src="site_libs/header-attrs-2.25/header-attrs.js"></script>
+<script src="site_libs/header-attrs-2.27/header-attrs.js"></script>
 <script src="site_libs/jquery-3.6.0/jquery-3.6.0.min.js"></script>
 <meta name="viewport" content="width=device-width, initial-scale=1" />
 <link href="site_libs/bootstrap-3.3.5/css/cosmo.min.css" rel="stylesheet" />
@@ -301,24 +301,42 @@ <h3></h3>
 <div id="publications" class="section level2 tabset tabset-fade">
 <h2 class="tabset tabset-fade">Publications</h2>
 <p> </p>
-<div id="first-author-publications" class="section level3">
-<h3>First Author Publications</h3>
+<div id="first-author-or-senior-author-publications"
+class="section level3">
+<h3>First Author or Senior Author Publications</h3>
 <ol style="list-style-type: decimal">
+<li><p>Afiaz A, Ivanov AA, Chamberlin J, Hanauer D, Savonen CL, Goldman
+MJ, Morgan M, Reich M, Getka A, Holmes A, Pati S, Knight D, Boutros PC,
+Bakas S, Caporaso JG, Del Fiol G, Hochheiser H, Haas B, Schloss PD, Eddy
+JA, Albrecht J, Fedorov A, Waldron L, Hoffman AM, Bradshaw RL, Leek JT,
+<strong>Wright C.</strong> Best practices to evaluate the impact of
+biomedical research software-metric collection beyond citations.
+Bioinformatics. 2024 Aug 2;40(8):btae469. doi:
+10.1093/bioinformatics/btae469. PMID: 39067017; PMCID: <a
+href="https://pubmed.ncbi.nlm.nih.gov/39067017/">PMC11297485</a>.</p></li>
+<li><p>Hoffman AM*, <strong>Wright C.*</strong> Ten simple rules for
+teaching an introduction to R. PLoS Comput Biol. 2024 May
+16;20(5):e1012018. doi: 10.1371/journal.pcbi.1012018. PMID: <a
+href="PMC11098303.https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11098303/">38753606</a>
+* <strong><em>These authors contributed equally to this
+work.</em></strong></p></li>
 <li><p><strong>Wright C.*</strong>, Rajpurohit A.*, Jaffe A., Burke, E.,
 Williams, C., Collado-Torres, L., Kimos, M., Brandon N., Cross A.J.,
 Weinberger D. R., and Shin J. H. (2019) Comprehensive assessment of
 multiple biases in small RNA sequencing reveals significant differences
 in the performance of widely used methods. BMC Genomics. 20(1):513.
 PMID: <a
 href="https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-019-5870-3">1226924</a>
-* These authors contributed equally to this work.</p></li>
+* <strong><em>These authors contributed equally to this
+work.</em></strong></p></li>
 <li><p>Rosenberg A. Z*., <strong>Wright C*</strong>., Fox-Talbot K.,
 Rajpurohit A., Williams C., Porter C., Foulke-Abel J, Kovbasnjuk O.,
 McCall M. N., Shin J. H., Haluska, M. K. (2018) xMD-miRNA-seq to
 generate near in vivo miRNA expression estimates in colon epithelial
 cells. Scientific Reports. 8(1):9783. PMID: <a
-href="https://www.ncbi.nlm.nih.gov/pubmed/29955168">29955168</a> * These
-authors contributed equally to this work.</p></li>
+href="https://www.ncbi.nlm.nih.gov/pubmed/29955168">29955168</a> *
+<strong><em>These authors contributed equally to this
+work.</em></strong></p></li>
 <li><p><strong>Wright C.</strong>, Ross D. A., and Weinberger D. R.
 (2018) Small RNAs may answer big questions in mental illness. Biological
 Psychiatry. 83(1):e1. PMID: <a