{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,27]],"date-time":"2026-02-27T13:56:58Z","timestamp":1772200618861,"version":"3.50.1"},"reference-count":57,"publisher":"Public Library of Science (PLoS)","issue":"6","license":[{"start":{"date-parts":[[2017,6,8]],"date-time":"2017-06-08T00:00:00Z","timestamp":1496880000000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["www.plosone.org"],"crossmark-restriction":false},"short-container-title":["PLoS ONE"],"DOI":"10.1371\/journal.pone.0178608","type":"journal-article","created":{"date-parts":[[2017,6,8]],"date-time":"2017-06-08T13:43:20Z","timestamp":1496929400000},"page":"e0178608","update-policy":"https:\/\/doi.org\/10.1371\/journal.pone.corrections_policy","source":"Crossref","is-referenced-by-count":3,"title":["An indicator cell assay for blood-based diagnostics"],"prefix":"10.1371","volume":"12","author":[{"given":"Samuel A.","family":"Danziger","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Leslie R.","family":"Miller","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Karanbir","family":"Singh","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"G. Adam","family":"Whitney","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Elaine R.","family":"Peskind","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ge","family":"Li","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Robert J.","family":"Lipshutz","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"John D.","family":"Aitchison","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5780-7209","authenticated-orcid":true,"given":"Jennifer J.","family":"Smith","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"340","published-online":{"date-parts":[[2017,6,8]]},"reference":[{"key":"ref1","doi-asserted-by":"crossref","first-page":"845","DOI":"10.1074\/mcp.R200007-MCP200","article-title":"The human plasma proteome: history, character, and diagnostic prospects","volume":"1","author":"NL Anderson","year":"2002","journal-title":"Mol Cell proteomics MCP"},{"key":"ref2","doi-asserted-by":"crossref","first-page":"846","DOI":"10.1016\/j.immuni.2013.08.036","article-title":"A single peptide-major histocompatibility complex ligand triggers digital cytokine secretion in CD4(+) T cells","volume":"39","author":"J Huang","year":"2013","journal-title":"Immunity"},{"key":"ref3","doi-asserted-by":"crossref","first-page":"994","DOI":"10.1093\/brain\/awt072","article-title":"Spreading proteins in neurodegeneration: where do they take us?","volume":"136","author":"G Mallucci","year":"2013","journal-title":"Brain a J Neurol"},{"key":"ref4","doi-asserted-by":"crossref","first-page":"387","DOI":"10.1038\/nrc3764","article-title":"Tumorigenesis: Understanding how the field effect arises","volume":"14","author":"GK Alderton","year":"2014","journal-title":"Nat Rev Cancer"},{"key":"ref5","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/j.jns.2005.02.006","article-title":"Background and gender effects on survival in the TgN(SOD1-G93A)1Gur mouse model of ALS","volume":"236","author":"TD Heiman-Patterson","year":"2005","journal-title":"J Neurol Sci"},{"key":"ref6","doi-asserted-by":"crossref","first-page":"1772","DOI":"10.1126\/science.8209258","article-title":"Motor neuron degeneration in mice that express a human Cu,Zn superoxide dismutase mutation","volume":"264","author":"ME Gurney","year":"1994","journal-title":"Science (80-)"},{"key":"ref7","doi-asserted-by":"crossref","first-page":"7319","DOI":"10.1073\/pnas.0702230104","article-title":"Toxicity from different SOD1 mutants dysregulates the complement system and the neuronal regenerative response in ALS motor neurons","volume":"104","author":"CS Lobsiger","year":"2007","journal-title":"Proc Natl Acad Sci U S A"},{"key":"ref8","doi-asserted-by":"crossref","first-page":"9201","DOI":"10.1523\/JNEUROSCI.1470-07.2007","article-title":"Microarray analysis of the cellular pathways involved in the adaptation to and progression of motor neuron injury in the SOD1 G93A mouse model of familial ALS","volume":"27","author":"L Ferraiuolo","year":"2007","journal-title":"J Neurosci Off J Soc Neurosci"},{"key":"ref9","doi-asserted-by":"crossref","first-page":"3309","DOI":"10.1093\/hmg\/ddi357","article-title":"No widespread induction of cell death genes occurs in pure motoneurons in an amyotrophic lateral sclerosis mouse model","volume":"14","author":"FE Perrin","year":"2005","journal-title":"Hum Mol Genet"},{"key":"ref10","doi-asserted-by":"crossref","first-page":"385","DOI":"10.1016\/S0092-8674(02)00835-8","article-title":"Directed differentiation of embryonic stem cells into motor neurons","volume":"110","author":"H Wichterle","year":"2002","journal-title":"Cell"},{"key":"ref11","doi-asserted-by":"crossref","first-page":"249","DOI":"10.1093\/biostatistics\/4.2.249","article-title":"Exploration, normalization, and summaries of high density oligonucleotide array probe level data","volume":"4","author":"RA Irizarry","year":"2003","journal-title":"Biostatistics"},{"key":"ref12","doi-asserted-by":"crossref","first-page":"2149","DOI":"10.1093\/bioinformatics\/btp371","article-title":"A single-array preprocessing method for estimating full-resolution raw copy numbers from all Affymetrix genotyping arrays including GenomeWideSNP 5 &amp; 6","volume":"25","author":"H Bengtsson","year":"2009","journal-title":"Bioinformatics"},{"key":"ref13","doi-asserted-by":"crossref","first-page":"107","DOI":"10.1214\/07-AOAS101","article-title":"On testing the significance of sets of genes","volume":"1","author":"B Efron","year":"2007","journal-title":"Ann Appl Stat"},{"key":"ref14","doi-asserted-by":"crossref","first-page":"1766","DOI":"10.1093\/bioinformatics\/bts238","article-title":"Statistical interpretation of machine learning-based feature importance scores for biomarker discovery","volume":"28","author":"VA Huynh-Thu","year":"2012","journal-title":"Bioinformatics"},{"key":"ref15","first-page":"18","article-title":"Classification and Regression by randomForest","volume":"2","author":"WM Liaw A","year":"2002","journal-title":"R News"},{"key":"ref16","first-page":"1","article-title":"kernlab\u2014An S4 Package for Kernel Methods in R","volume":"11","author":"A Zeileis","year":"2004","journal-title":"J Stat Softw"},{"key":"ref17","doi-asserted-by":"crossref","unstructured":"Platt JC. 12 Fast Training of Support Vector Machines using Sequential Minimal Optimization. 1999;","DOI":"10.7551\/mitpress\/1130.003.0016"},{"key":"ref18","unstructured":"Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing on JSTOR [Internet]. [cited 4 Sep 2015]. Available: <ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" ext-link-type=\"uri\" xlink:href=\"http:\/\/www.jstor.org\/stable\/2346101?seq=1#page_scan_tab_contents\" xlink:type=\"simple\">http:\/\/www.jstor.org\/stable\/2346101?seq=1#page_scan_tab_contents<\/ext-link>"},{"key":"ref19","doi-asserted-by":"crossref","first-page":"e87","DOI":"10.1093\/nar\/gkv300","article-title":"cMonkey2: Automated, systematic, integrated detection of co-regulated gene modules for any organism","volume":"43","author":"DJ Reiss","year":"2015","journal-title":"Nucleic Acids Res"},{"key":"ref20","unstructured":"Kursa MB. rFerns: An Implementation of the Random Ferns Method for General-Purpose Machine Learning. arXiv12021121 [cs, stat]. 2012;"},{"key":"ref21","doi-asserted-by":"crossref","first-page":"65","DOI":"10.1080\/01621459.1926.10502161","article-title":"The Choice of a Class Interval","volume":"21","author":"HA Sturges","year":"1926","journal-title":"J Am Stat Assoc"},{"key":"ref22","doi-asserted-by":"crossref","first-page":"403","DOI":"10.1002\/ana.21610","article-title":"Cerebrospinal fluid biomarker signature in Alzheimer\u2019s disease neuroimaging initiative subjects","volume":"65","author":"LM Shaw","year":"2009","journal-title":"Ann Neurol"},{"key":"ref23","doi-asserted-by":"crossref","first-page":"526","DOI":"10.1309\/W01Y0B808EMEH12L","article-title":"CSF multianalyte profile distinguishes Alzheimer and Parkinson diseases","volume":"129","author":"J Zhang","year":"2008","journal-title":"Am J Clin Pathol"},{"key":"ref24","unstructured":"Warnes Liu, P., Li, F. GR. Estimate Micrarray Sample Size R package V 1.32.0. 2012."},{"key":"ref25","doi-asserted-by":"crossref","first-page":"48","DOI":"10.1002\/mus.880050109","article-title":"Neuron specific in vitro cytotoxicity of sera from patients with amyotrophic lateral sclerosis","volume":"5","author":"FJ Roisen","year":"1982","journal-title":"Muscle Nerve"},{"key":"ref26","doi-asserted-by":"crossref","first-page":"1707","DOI":"10.1093\/bioinformatics\/btn284","article-title":"FIRMA: a method for detection of alternative splicing from exon array data","volume":"24","author":"E Purdom","year":"2008","journal-title":"Bioinformatics"},{"key":"ref27","doi-asserted-by":"crossref","first-page":"906","DOI":"10.1093\/bioinformatics\/16.10.906","article-title":"Support vector machine classification and validation of cancer tissue samples using microarray expression data","volume":"16","author":"TS Furey","year":"2000","journal-title":"Bioinformatics"},{"key":"ref28","doi-asserted-by":"crossref","first-page":"262","DOI":"10.1073\/pnas.97.1.262","article-title":"Knowledge-based analysis of microarray gene expression data by using support vector machines","volume":"97","author":"MP Brown","year":"2000","journal-title":"Proc Natl Acad Sci U S A"},{"key":"ref29","first-page":"507","article-title":"Frequency Distribution of the Values of the Correlation Coefficient in Samples from an Indefinitely Large Population","volume":"10","author":"R Fisher","year":"1915","journal-title":"Biometrika"},{"key":"ref30","doi-asserted-by":"crossref","first-page":"i104","DOI":"10.1093\/bioinformatics\/btm166","article-title":"Choosing where to look next in a mutation sequence space: Active Learning of informative p53 cancer rescue mutants","volume":"23","author":"SA Danziger","year":"2007","journal-title":"Bioinformatics"},{"key":"ref31","doi-asserted-by":"crossref","first-page":"1955","DOI":"10.1089\/ars.2009.2991","article-title":"Amyotrophic lateral sclerosis pathogenesis: a journey through the secretory pathway","volume":"13","author":"M Nassif","year":"2010","journal-title":"Antioxid Redox Signal"},{"key":"ref32","doi-asserted-by":"crossref","first-page":"481","DOI":"10.1038\/ncb2738","article-title":"ER-stress-induced transcriptional regulation increases protein synthesis leading to cell death","volume":"15","author":"J Han","year":"2013","journal-title":"Nat Cell Biol"},{"key":"ref33","doi-asserted-by":"crossref","first-page":"2498","DOI":"10.1101\/gr.1239303","article-title":"Cytoscape: a software environment for integrated models of biomolecular interaction networks","volume":"13","author":"P Shannon","year":"2003","journal-title":"Genome Res"},{"key":"ref34","doi-asserted-by":"crossref","first-page":"1345","DOI":"10.1002\/humu.22157","article-title":"ALSoD: A user-friendly online bioinformatics tool for amyotrophic lateral sclerosis genetics","volume":"33","author":"O Abel","year":"2012","journal-title":"Hum Mutat"},{"key":"ref35","doi-asserted-by":"crossref","first-page":"786","DOI":"10.1002\/mus.24198","article-title":"Genetic heterogeneity of amyotrophic lateral sclerosis: implications for clinical practice and research","volume":"49","author":"XW Su","year":"2014","journal-title":"Muscle Nerve"},{"key":"ref36","doi-asserted-by":"crossref","first-page":"218","DOI":"10.1016\/j.mcn.2005.09.009","article-title":"Activation of the p38MAPK cascade is associated with upregulation of TNF alpha receptors in the spinal motor neurons of mouse models of familial ALS","volume":"31","author":"P Veglianese","year":"2006","journal-title":"Mol Cell Neurosci"},{"key":"ref37","doi-asserted-by":"crossref","first-page":"2183","DOI":"10.1093\/hmg\/ddh246","article-title":"Calcium-permeable AMPA receptors promote misfolding of mutant SOD1 protein and development of amyotrophic lateral sclerosis in a transgenic mouse model","volume":"13","author":"M Tateno","year":"2004","journal-title":"Hum Mol Genet"},{"key":"ref38","doi-asserted-by":"crossref","first-page":"1359","DOI":"10.1038\/nm1653","article-title":"Classification and prediction of clinical Alzheimer\u2019s diagnosis based on plasma signaling proteins","volume":"13","author":"S Ray","year":"2007","journal-title":"Nat Med"},{"key":"ref39","doi-asserted-by":"crossref","first-page":"589","DOI":"10.3109\/00207454.2011.598981","article-title":"Astrocytes and microglia: responses to neuropathological conditions","volume":"121","author":"S Singh","year":"2011","journal-title":"Int J Neurosci"},{"key":"ref40","first-page":"321","article-title":"Association of apolipoprotein E epsilon 4 allele with sporadic late onset Alzheimer`s disease. A meta-analysis","volume":"17","author":"S Sadigh-Eteghad","year":"2012","journal-title":"Neurosciences (Riyadh)"},{"key":"ref41","doi-asserted-by":"crossref","first-page":"305","DOI":"10.1093\/nar\/gkp427","article-title":"ToppGene Suite for gene list enrichment analysis and candidate gene prioritization","volume":"37","author":"J Chen","year":"2009","journal-title":"Nucleic Acids Res"},{"key":"ref42","doi-asserted-by":"crossref","first-page":"73","DOI":"10.1038\/nrn2977","article-title":"The role of G protein-coupled receptors in the pathology of Alzheimer\u2019s disease","volume":"12","author":"A Thathiah","year":"2011","journal-title":"Nat Rev Neurosci"},{"issue":"Suppl 1","key":"ref43","doi-asserted-by":"crossref","first-page":"19","DOI":"10.3109\/21678421.2013.778554","article-title":"Mechanisms, models and biomarkers in amyotrophic lateral sclerosis","volume":"14","author":"MR Turner","year":"2013","journal-title":"Amyotroph Lateral Scler Frontotemporal Degener"},{"key":"ref44","doi-asserted-by":"crossref","first-page":"2247","DOI":"10.1212\/WNL.0000000000001642","article-title":"Neurofilament light chain: A prognostic biomarker in amyotrophic lateral sclerosis","volume":"84","author":"C-H Lu","year":"2015","journal-title":"Neurology"},{"key":"ref45","doi-asserted-by":"crossref","first-page":"e75091","DOI":"10.1371\/journal.pone.0075091","article-title":"Increased neurofilament light chain blood levels in neurodegenerative neurological diseases","volume":"8","author":"J Gaiottino","year":"2013","journal-title":"PLoS One"},{"key":"ref46","doi-asserted-by":"crossref","first-page":"4486","DOI":"10.1021\/acs.jproteome.5b00804","article-title":"Label-Free LC-MS\/MS Proteomic Analysis of Cerebrospinal Fluid Identifies Protein\/Pathway Alterations and Candidate Biomarkers for Amyotrophic Lateral Sclerosis","volume":"14","author":"MA Collins","year":"2015","journal-title":"J Proteome Res"},{"key":"ref47","doi-asserted-by":"crossref","first-page":"453","DOI":"10.2217\/bmm-2016-0025","article-title":"Identification of Apo B48 and other novel biomarkers in amyotrophic lateral sclerosis patient fibroblasts","volume":"10","author":"M Narayan","year":"2016","journal-title":"Biomark Med"},{"key":"ref48","article-title":"Identification of erythrocyte biomarkers in amyotrophic lateral sclerosis","author":"C Duarte","year":"2016","journal-title":"Clin Hemorheol Microcirc"},{"key":"ref49","doi-asserted-by":"crossref","first-page":"74","DOI":"10.1186\/1755-8794-4-74","article-title":"Microarray analysis of peripheral blood lymphocytes from ALS patients and the SAFE detection of the KEGG ALS pathway","volume":"4","author":"LC Mougeot J-","year":"2011","journal-title":"BMC Med Genomics"},{"key":"ref50","doi-asserted-by":"crossref","first-page":"506","DOI":"10.1038\/nature12531","article-title":"Transcriptome and genome sequencing uncovers functional variation in humans","volume":"501","author":"T Lappalainen","year":"2013","journal-title":"Nature"},{"key":"ref51","doi-asserted-by":"crossref","first-page":"503","DOI":"10.1378\/chest.118.2.503","article-title":"Proinflammatory cytokines","volume":"118","author":"CA Dinarello","year":"2000","journal-title":"Chest"},{"key":"ref52","doi-asserted-by":"crossref","first-page":"120","DOI":"10.1186\/ar1190","article-title":"Gene expression signatures for autoimmune disease in peripheral blood mononuclear cells","volume":"6","author":"NJ Olsen","year":"2004","journal-title":"Arthritis Res Ther"},{"key":"ref53","doi-asserted-by":"crossref","first-page":"109","DOI":"10.1038\/nrn3887","article-title":"Spreading of pathology in neurodegenerative diseases: a focus on human studies","volume":"16","author":"J Brettschneider","year":"2015","journal-title":"Nat Rev Neurosci"},{"key":"ref54","doi-asserted-by":"crossref","first-page":"361","DOI":"10.1038\/nm1556","article-title":"Airway epithelial gene expression in the diagnostic evaluation of smokers with suspect lung cancer","volume":"13","author":"A Spira","year":"2007","journal-title":"Nat Med"},{"key":"ref55","doi-asserted-by":"crossref","first-page":"S67","DOI":"10.1016\/S0022-510X(97)00247-5","article-title":"The use of transgenic mouse models of amyotrophic lateral sclerosis in preclinical drug studies","volume":"152","author":"ME Gurney","year":"1997","journal-title":"J Neurol Sci"},{"key":"ref56","doi-asserted-by":"crossref","first-page":"198","DOI":"10.1016\/j.nbd.2010.04.008","article-title":"SOD1 mRNA expression in sporadic amyotrophic lateral sclerosis","volume":"39","author":"S Gagliardi","year":"2010","journal-title":"Neurobiol Dis"},{"key":"ref57","doi-asserted-by":"crossref","first-page":"1257601","DOI":"10.1126\/science.1257601","article-title":"Uncovering disease-disease relationships through the incomplete interactome","volume":"347","author":"J Menche","year":"2015","journal-title":"Science (80-)"}],"container-title":["PLOS ONE"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/dx.plos.org\/10.1371\/journal.pone.0178608","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,8,23]],"date-time":"2023-08-23T19:40:52Z","timestamp":1692819652000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pone.0178608"}},"subtitle":[],"editor":[{"given":"Stefan","family":"W\u00f6lfl","sequence":"first","affiliation":[],"role":[{"role":"editor","vocabulary":"crossref"}]}],"short-title":[],"issued":{"date-parts":[[2017,6,8]]},"references-count":57,"journal-issue":{"issue":"6","published-online":{"date-parts":[[2017,6,8]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pone.0178608","relation":{"has-preprint":[{"id-type":"doi","id":"10.1101\/113357","asserted-by":"object"}]},"ISSN":["1932-6203"],"issn-type":[{"value":"1932-6203","type":"electronic"}],"subject":[],"published":{"date-parts":[[2017,6,8]]}}}