Alex Pico, PhD
Core Dir / Res Investigator
Business Service Ctr
Chancellor/EVC/FAS

Through his work, he has authored various research publications on topics such as drug repurposing, multiomic profiling, and the construction of massive knowledge graphs of biomedical information. His contributions to projects like the COVID-19 Disease Map and WikiPathways have facilitated the sharing of valuable research insights across scientific communities. By leveraging programming languages and smart tools like R, Dr. Pico strives to empower researchers and explore the vast potential of biomedical data for precision medicine and scientific discovery.

• Drugst.One - A plug-and-play solution for online systems medicine and network-based drug repurposing.
  ArXiv 2023 Maier A, Hartung M, Abovsky M, Adamowicz K, Bader GD, Baier S, Blumenthal DB, Chen J, Elkjaer ML, Garcia-Hernandez C, Helmy M, Hoffmann M, Jurisica I, Kotlyar M, Lazareva O, Levi H, List M, …
• Defining blood-induced microglia functions in neurodegeneration through multiomic profiling.
  Nature immunology 2023 Mendiola AS, Yan Z, Dixit K, Johnson JR, Bouhaddou M, Meyer-Franke A, Shin MG, Yong Y, Agrawal A, MacDonald E, Muthukumar G, Pearce C, Arun N, Cabriga B, Meza-Acevedo R, Alzamora MDPS, Zamvil SS, Pico…
• BioThings Explorer: a query engine for a federated knowledge graph of biomedical APIs.
  ArXiv 2023 Callaghan J, Xu CH, Xin J, Cano MA, Riutta A, Zhou E, Juneja R, Yao Y, Narayan M, Hanspers K, Agrawal A, Pico AR, Wu C, Su AI
• NDEx IQuery: a multi-method network gene set analysis leveraging the Network Data Exchange.
  Bioinformatics (Oxford, England) 2023 Pillich RT, Chen J, Churas C, Fong D, Gyori BM, Ideker T, Karis K, Liu SN, Ono K, Pico A, Pratt D
• The scalable precision medicine open knowledge engine (SPOKE): a massive knowledge graph of biomedical information.
  Bioinformatics (Oxford, England) 2023 Morris JH, Soman K, Akbas RE, Zhou X, Smith B, Meng EC, Huang CC, Cerono G, Schenk G, Rizk-Jackson A, Harroud A, Sanders L, Costes SV, Bharat K, Chakraborty A, Pico AR, Mardirossian T, Keiser M, Tang …
• COVID-19 Disease Map, a computational knowledge repository of virus-host interaction mechanisms.
  Molecular systems biology 2021 Ostaszewski M, Niarakis A, Mazein A, Kuperstein I, Phair R, Orta-Resendiz A, Singh V, Aghamiri SS, Acencio ML, Glaab E, Ruepp A, Fobo G, Montrone C, Brauner B, Frishman G, Monraz Gómez LC, Somers J, …
• SARS-CoV-2 spike protein induces abnormal inflammatory blood clots neutralized by fibrin immunotherapy.
  bioRxiv : the preprint server for biology 2021 Ryu JK, Sozmen EG, Dixit K, Montano M, Matsui Y, Liu Y, Helmy E, Deerinck TJ, Yan Z, Schuck R, Acevedo RM, Spencer CM, Thomas R, Pico AR, Zamvil SS, Lynch KL, Ellisman MH, Greene WC, Akassoglou K
• COVID19 Disease Map, a computational knowledge repository of virus-host interaction mechanisms.
  Molecular systems biology 2021 Ostaszewski M, Niarakis A, Mazein A, Kuperstein I, Phair R, Orta-Resendiz A, Singh V, Aghamiri SS, Acencio ML, Glaab E, Ruepp A, Fobo G, Montrone C, Brauner B, Frishman G, Monraz Gómez LC, Somers J, …
• Introducing R as a smart version of calculators enables beginners to explore it on their own.
  F1000Research 2021 Choudhary K, Pico AR
• Ten simple rules for creating reusable pathway models for computational analysis and visualization.
  PLoS computational biology 2021 Hanspers K, Kutmon M, Coort SL, Digles D, Dupuis LJ, Ehrhart F, Hu F, Lopes EN, Martens M, Pham N, Shin W, Slenter DN, Waagmeester A, Willighagen EL, Winckers LA, Evelo CT, Pico AR
• scNetViz: from single cells to networks using Cytoscape.
  F1000Research 2021 Choudhary K, Meng EC, Diaz-Mejia JJ, Bader GD, Pico AR, Morris JH
• WikiPathways: connecting communities.
  Nucleic acids research 2021 Martens M, Ammar A, Riutta A, Waagmeester A, Slenter DN, Hanspers K, A Miller R, Digles D, Lopes EN, Ehrhart F, Dupuis LJ, Winckers LA, Coort SL, Willighagen EL, Evelo CT, Pico AR, Kutmon M
• Proteogenomic insights into the biology and treatment of HPV-negative head and neck squamous cell carcinoma.
  Cancer cell 2021 Huang C, Chen L, Savage SR, Eguez RV, Dou Y, Li Y, da Veiga Leprevost F, Jaehnig EJ, Lei JT, Wen B, Schnaubelt M, Krug K, Song X, Cieslik M, Chang HY, Wyczalkowski MA, Li K, Colaprico A, Li QK, Clark …
• Shared Mechanisms Govern HIV Transcriptional Suppression in Circulating CD103+ and Gut CD4+ T Cells.
  Journal of virology 2020 Yukl SA, Khan S, Chen TH, Trapecar M, Wu F, Xie G, Telwatte S, Fulop D, Pico AR, Laird GM, Ritter KD, Jones NG, Lu CM, Siliciano RF, Roan NR, Milush JM, Somsouk M, Deeks SG, Hunt PW, Sanjabi S
• The Dynamic Platelet Transcriptome in Obesity and Weight Loss.
  Arteriosclerosis, thrombosis, and vascular biology 2020 Ezzaty Mirhashemi M, Shah RV, Kitchen RR, Rong J, Spahillari A, Pico AR, Vitseva O, Levy D, Demarco D, Shah S, Iafrati MD, Larson MG, Tanriverdi K, Freedman JE
• Pathway information extracted from 25 years of pathway figures.
  Genome biology 2020 Hanspers K, Riutta A, Summer-Kutmon M, Pico AR
• Mir-30d Regulates Cardiac Remodeling by Intracellular and Paracrine Signaling.
  Circulation research 2020 Li J, Salvador AM, Li G, Valkov N, Ziegler O, Yeri A, Yang Xiao C, Meechoovet B, Alsop E, Rodosthenous RS, Kundu P, Huan T, Levy D, Tigges J, Pico AR, Ghiran I, Silverman MG, Meng X, Kitchen R, Xu J, …
• Comprehensive Metabolic Phenotyping Refines Cardiovascular Risk in Young Adults.
  Circulation 2020 Murthy VL, Reis JP, Pico AR, Kitchen R, Lima JAC, Lloyd-Jones D, Allen NB, Carnethon M, Lewis GD, Nayor M, Vasan RS, Freedman JE, Clish CB, Shah RV
• Molecular Signature of Multisystem Cardiometabolic Stress and Its Association With Prognosis.
  JAMA cardiology 2020 Murthy VL, Yu B, Wang W, Zhang X, Alkis T, Pico AR, Yeri A, Bhupathiraju SN, Bressler J, Ballantyne CM, Freedman JE, Ordovas J, Boerwinkle E, Tucker KL, Shah R
• Metabolic Architecture of Acute Exercise Response in Middle-Aged Adults in the Community.
  Circulation 2020 Nayor M, Shah RV, Miller PE, Blodgett JB, Tanguay M, Pico AR, Murthy VL, Malhotra R, Houstis NE, Deik A, Pierce KA, Bullock K, Dailey L, Velagaleti RS, Moore SA, Ho JE, Baggish AL, Clish CB, Larson MG…
• Author Correction: Transcriptional profiling and therapeutic targeting of oxidative stress in neuroinflammation.
  Nature immunology 2020 Mendiola AS, Ryu JK, Bardehle S, Meyer-Franke A, Ang KK, Wilson C, Baeten KM, Hanspers K, Merlini M, Thomas S, Petersen MA, Williams A, Thomas R, Rafalski VA, Meza-Acevedo R, Tognatta R, Yan Z, Pfaff …
• Author Correction: COVID-19 Disease Map, building a computational repository of SARS-CoV-2 virus-host interaction mechanisms.
  Scientific data 2020 Ostaszewski M, Mazein A, Gillespie ME, Kuperstein I, Niarakis A, Hermjakob H, Pico AR, Willighagen EL, Evelo CT, Hasenauer J, Schreiber F, Dräger A, Demir E, Wolkenhauer O, Furlong LI, Barillot E, …
• PathwayPCA: an R/Bioconductor Package for Pathway Based Integrative Analysis of Multi-Omics Data.
  Proteomics 2020 Odom GJ, Ban Y, Colaprico A, Liu L, Silva TC, Sun X, Pico AR, Zhang B, Wang L, Chen X
• COVID-19 Disease Map, building a computational repository of SARS-CoV-2 virus-host interaction mechanisms.
  Scientific data 2020 Ostaszewski M, Mazein A, Gillespie ME, Kuperstein I, Niarakis A, Hermjakob H, Pico AR, Willighagen EL, Evelo CT, Hasenauer J, Schreiber F, Dräger A, Demir E, Wolkenhauer O, Furlong LI, Barillot E, …
• Transcriptional profiling and therapeutic targeting of oxidative stress in neuroinflammation.
  Nature immunology 2020 Mendiola AS, Ryu JK, Bardehle S, Meyer-Franke A, Ang KK, Wilson C, Baeten KM, Hanspers K, Merlini M, Thomas S, Petersen MA, Williams A, Thomas R, Rafalski VA, Meza-Acevedo R, Tognatta R, Yan Z, Pfaff …
• Wikidata as a knowledge graph for the life sciences.
  eLife 2020 Waagmeester A, Stupp G, Burgstaller-Muehlbacher S, Good BM, Griffith M, Griffith OL, Hanspers K, Hermjakob H, Hudson TS, Hybiske K, Keating SM, Manske M, Mayers M, Mietchen D, Mitraka E, Pico AR, …
• Proteogenomic Characterization of Endometrial Carcinoma.
  Cell 2020 Dou Y, Kawaler EA, Cui Zhou D, Gritsenko MA, Huang C, Blumenberg L, Karpova A, Petyuk VA, Savage SR, Satpathy S, Liu W, Wu Y, Tsai CF, Wen B, Li Z, Cao S, Moon J, Shi Z, Cornwell M, Wyczalkowski MA, …
• Circulating miRNAs and Risk of Sudden Death in Patients With Coronary Heart Disease.
  JACC. Clinical electrophysiology 2019 Silverman MG, Yeri A, Moorthy MV, Camacho Garcia F, Chatterjee NA, Glinge CSA, Tfelt-Hansen J, Salvador AM, Pico AR, Shah R, Albert CM, Das S
• RCy3: Network biology using Cytoscape from within R.
  F1000Research 2019 Gustavsen JA, Pai S, Isserlin R, Demchak B, Pico AR
• Cytoscape Automation: empowering workflow-based network analysis.
  Genome biology 2019 Otasek D, Morris JH, Bouças J, Pico AR, Demchak B
• exRNA Atlas Analysis Reveals Distinct Extracellular RNA Cargo Types and Their Carriers Present across Human Biofluids.
  Cell 2019 Murillo OD, Thistlethwaite W, Rozowsky J, Subramanian SL, Lucero R, Shah N, Jackson AR, Srinivasan S, Chung A, Laurent CD, Kitchen RR, Galeev T, Warrell J, Diao JA, Welsh JA, Hanspers K, Riutta A, …
• Evaluation of methods to assign cell type labels to cell clusters from single-cell RNA-sequencing data.
  F1000Research 2019 Diaz-Mejia JJ, Meng EC, Pico AR, MacParland SA, Ketela T, Pugh TJ, Bader GD, Morris JH
• Proteins Altered by Surgical Weight Loss Highlight Biomarkers of Insulin Resistance in the Community.
  Arteriosclerosis, thrombosis, and vascular biology 2019 Shah RV, Hwang SJ, Yeri A, Tanriverdi K, Pico AR, Yao C, Murthy V, Ho J, Vitseva O, Demarco D, Shah S, Iafrati MD, Levy D, Freedman JE
• Proteomic analysis of heart failure hospitalization among patients with chronic kidney disease: The Heart and Soul Study.
  PloS one 2018 Dubin RF, Whooley M, Pico A, Ganz P, Schiller NB, Meyer C
• Fibrin-targeting immunotherapy protects against neuroinflammation and neurodegeneration.
  Nature immunology 2018 Ryu JK, Rafalski VA, Meyer-Franke A, Adams RA, Poda SB, Rios Coronado PE, Pedersen LØ, Menon V, Baeten KM, Sikorski SL, Bedard C, Hanspers K, Bardehle S, Mendiola AS, Davalos D, Machado MR, Chan JP, …
• Associations of Circulating Extracellular RNAs With Myocardial Remodeling and Heart Failure.
  JAMA cardiology 2018 Shah RV, Rong J, Larson MG, Yeri A, Ziegler O, Tanriverdi K, Murthy V, Liu X, Xiao C, Pico AR, Huan T, Levy D, Lewis GD, Rosenzweig A, Vasan RS, Das S, Freedman JE
• The Cytoscape Automation app article collection.
  F1000Research 2018 Demchak B, Otasek D, Pico AR, Bader GD, Ono K, Settle B, Sage E, Morris JH, Longabaugh W, Lopes C, Kucera M, Treister A, Schwikowski B, Molenaar P, Ideker T
• Identifier Mapping in Cytoscape: idmapper.
  F1000Research 2018 Treister A, Pico AR
• MicroRNAs Associated With Reverse Left Ventricular Remodeling in Humans Identify Pathways of Heart Failure Progression.
  Circulation. Heart failure 2018 Shah R, Ziegler O, Yeri A, Liu X, Murthy V, Rabideau D, Xiao CY, Hanspers K, Belcher A, Tackett M, Rosenzweig A, Pico AR, Januzzi JL, Das S
• WikiPathways: a multifaceted pathway database bridging metabolomics to other omics research.
  Nucleic acids research 2018 Slenter DN, Kutmon M, Hanspers K, Riutta A, Windsor J, Nunes N, Mélius J, Cirillo E, Coort SL, Digles D, Ehrhart F, Giesbertz P, Kalafati M, Martens M, Miller R, Nishida K, Rieswijk L, Waagmeester A, …
• Research synergy and drug development: Bright stars in neighboring constellations.
  Heliyon 2017 Keserci S, Livingston E, Wan L, Pico AR, Chacko G
• Molecular, phenotypic, and sample-associated data to describe pluripotent stem cell lines and derivatives.
  Scientific data 2017 Daily K, Ho Sui SJ, Schriml LM, Dexheimer PJ, Salomonis N, Schroll R, Bush S, Keddache M, Mayhew C, Lotia S, Perumal TM, Dang K, Pantano L, Pico AR, Grassman E, Nordling D, Hide W, Hatzopoulos AK, …
• Extracellular RNAs Are Associated With Insulin Resistance and Metabolic Phenotypes.
  Diabetes care 2017 Shah R, Murthy V, Pacold M, Danielson K, Tanriverdi K, Larson MG, Hanspers K, Pico A, Mick E, Reis J, de Ferranti S, Freinkman E, Levy D, Hoffmann U, Osganian S, Das S, Freedman JE
• Translational Epidemiology: Entering a Brave New World of Team Science.
  Circulation research 2016 Shah R, Pico AR, Freedman JE
• Using the Semantic Web for Rapid Integration of WikiPathways with Other Biological Online Data Resources.
  PLoS computational biology 2016 Waagmeester A, Kutmon M, Riutta A, Miller R, Willighagen EL, Evelo CT, Pico AR
• Reactome from a WikiPathways Perspective.
  PLoS computational biology 2016 Bohler A, Wu G, Kutmon M, Pradhana LA, Coort SL, Hanspers K, Haw R, Pico AR, Evelo CT
• Longer genotypically-estimated leukocyte telomere length is associated with increased adult glioma risk.
  Oncotarget 2015 Walsh KM, Codd V, Rice T, Nelson CP, Smirnov IV, McCoy LS, Hansen HM, Elhauge E, Ojha J, Francis SS, Madsen NR, Bracci PM, Pico AR, Molinaro AM, Tihan T, Berger MS, Chang SM, Prados MD, Jenkins RB, …
• WikiPathways: capturing the full diversity of pathway knowledge.
  Nucleic acids research 2015 Kutmon M, Riutta A, Nunes N, Hanspers K, Willighagen EL, Bohler A, Mélius J, Waagmeester A, Sinha SR, Miller R, Coort SL, Cirillo E, Smeets B, Evelo CT, Pico AR
• From scientific discovery to cures: bright stars within a galaxy.
  Cell 2015 Williams RS, Lotia S, Holloway AK, Pico AR
• Integration of extracellular RNA profiling data using metadata, biomedical ontologies and Linked Data technologies.
  Journal of extracellular vesicles 2015 Subramanian SL, Kitchen RR, Alexander R, Carter BS, Cheung KH, Laurent LC, Pico A, Roberts LR, Roth ME, Rozowsky JS, Su AI, Gerstein MB, Milosavljevic A
• CyAnimator: Simple Animations of Cytoscape Networks.
  F1000Research 2015 Morris JH, Vijay D, Federowicz S, Pico AR, Ferrin TE
• PSFC: a Pathway Signal Flow Calculator App for Cytoscape.
  F1000Research 2015 Nersisyan L, Johnson G, Riel-Mehan M, Pico A, Arakelyan A
• Glioma Groups Based on 1p/19q, IDH, and TERT Promoter Mutations in Tumors.
  The New England journal of medicine 2015 Eckel-Passow JE, Lachance DH, Molinaro AM, Walsh KM, Decker PA, Sicotte H, Pekmezci M, Rice T, Kosel ML, Smirnov IV, Sarkar G, Caron AA, Kollmeyer TM, Praska CE, Chada AR, Halder C, Hansen HM, McCoy …
• PathVisio 3: an extendable pathway analysis toolbox.
  PLoS computational biology 2015 Kutmon M, van Iersel MP, Bohler A, Kelder T, Nunes N, Pico AR, Evelo CT
• Affinity purification-mass spectrometry and network analysis to understand protein-protein interactions.
  Nature protocols 2014 Morris JH, Knudsen GM, Verschueren E, Johnson JR, Cimermancic P, Greninger AL, Pico AR
• The Cytoscape app article collection.
  F1000Research 2014 Pico AR, Bader GD, Demchak B, Guitart Pla O, Hull T, Longabaugh W, Lopes C, Lotia S, Molenaar P, Montojo J, Morris JH, Ono K, Schwikowski B, Welker D, Ideker T
• WikiPathways App for Cytoscape: Making biological pathways amenable to network analysis and visualization.
  F1000Research 2014 Kutmon M, Lotia S, Evelo CT, Pico AR
• enhancedGraphics: a Cytoscape app for enhanced node graphics.
  F1000Research 2014 Morris JH, Kuchinsky A, Ferrin TE, Pico AR
• setsApp: Set operations for Cytoscape Nodes and Edges.
  F1000Research 2014 Morris JH, Wu A, Doncheva NT, Albrecht M, Ferrin TE
• Variants near TERT and TERC influencing telomere length are associated with high-grade glioma risk.
  Nature genetics 2014 Walsh KM, Codd V, Smirnov IV, Rice T, Decker PA, Hansen HM, Kollmeyer T, Kosel ML, Molinaro AM, McCoy LS, Bracci PM, Cabriga BS, Pekmezci M, Zheng S, Wiemels JL, Pico AR, Tihan T, Berger MS, Chang SM,…
• NOA: a cytoscape plugin for network ontology analysis.
  Bioinformatics (Oxford, England) 2013 Zhang C, Wang J, Hanspers K, Xu D, Chen L, Pico AR
• Genetic variants in telomerase-related genes are associated with an older age at diagnosis in glioma patients: evidence for distinct pathways of gliomagenesis.
  Neuro-oncology 2013 Walsh KM, Rice T, Decker PA, Kosel ML, Kollmeyer T, Hansen HM, Zheng S, McCoy LS, Bracci PM, Anderson E, Hsuang G, Wiemels JL, Pico AR, Smirnov I, Molinaro AM, Tihan T, Berger MS, Chang SM, Prados MD,…
• Cytoscape app store.
  Bioinformatics (Oxford, England) 2013 Lotia S, Montojo J, Dong Y, Bader GD, Pico AR
• Inherited variant on chromosome 11q23 increases susceptibility to IDH-mutated but not IDH-normal gliomas regardless of grade or histology.
  Neuro-oncology 2013 Rice T, Zheng S, Decker PA, Walsh KM, Bracci P, Xiao Y, McCoy LS, Smirnov I, Patoka JS, Hansen HM, Hsuang G, Wiemels JL, Tihan T, Pico AR, Prados MD, Chang SM, Berger MS, Caron A, Fink S, Kollmeyer T,…
• Analysis of 60 reported glioma risk SNPs replicates published GWAS findings but fails to replicate associations from published candidate-gene studies.
  Genetic epidemiology 2012 Walsh KM, Anderson E, Hansen HM, Decker PA, Kosel ML, Kollmeyer T, Rice T, Zheng S, Xiao Y, Chang JS, McCoy LS, Bracci PM, Wiemels JL, Pico AR, Smirnov I, Lachance DH, Sicotte H, Eckel-Passow JE, …
• A travel guide to Cytoscape plugins.
  Nature methods 2012 Saito R, Smoot ME, Ono K, Ruscheinski J, Wang PL, Lotia S, Pico AR, Bader GD, Ideker T
• Dynamic and coordinated epigenetic regulation of developmental transitions in the cardiac lineage.
  Cell 2012 Wamstad JA, Alexander JM, Truty RM, Shrikumar A, Li F, Eilertson KE, Ding H, Wylie JN, Pico AR, Capra JA, Erwin G, Kattman SJ, Keller GM, Srivastava D, Levine SS, Pollard KS, Holloway AK, Boyer LA, …
• A low-frequency variant at 8q24.21 is strongly associated with risk of oligodendroglial tumors and astrocytomas with IDH1 or IDH2 mutation.
  Nature genetics 2012 Jenkins RB, Xiao Y, Sicotte H, Decker PA, Kollmeyer TM, Hansen HM, Kosel ML, Zheng S, Walsh KM, Rice T, Bracci P, McCoy LS, Smirnov I, Patoka JS, Hsuang G, Wiemels JL, Tihan T, Pico AR, Prados MD, …
• GO-Elite: a flexible solution for pathway and ontology over-representation.
  Bioinformatics (Oxford, England) 2012 Zambon AC, Gaj S, Ho I, Hanspers K, Vranizan K, Evelo CT, Conklin BR, Pico AR, Salomonis N
• Mosaic: making biological sense of complex networks.
  Bioinformatics (Oxford, England) 2012 Zhang C, Hanspers K, Kuchinsky A, Salomonis N, Xu D, Pico AR
• WikiPathways: building research communities on biological pathways.
  Nucleic acids research 2011 Kelder T, van Iersel MP, Hanspers K, Kutmon M, Conklin BR, Evelo CT, Pico AR
• The BioPAX community standard for pathway data sharing.
  Nature biotechnology 2010 Demir E, Cary MP, Paley S, Fukuda K, Lemer C, Vastrik I, Wu G, D'Eustachio P, Schaefer C, Luciano J, Schacherer F, Martinez-Flores I, Hu Z, Jimenez-Jacinto V, Joshi-Tope G, Kandasamy K, Lopez-Fuentes …
• Finding the right questions: exploratory pathway analysis to enhance biological discovery in large datasets.
  PLoS biology 2010 Kelder T, Conklin BR, Evelo CT, Pico AR
• Structure of the human BK channel Ca2+-activation apparatus at 3.0 A resolution.
  Science (New York, N.Y.) 2010 Yuan P, Leonetti MD, Pico AR, Hsiung Y, MacKinnon R
• Alternative splicing regulates mouse embryonic stem cell pluripotency and differentiation.
  Proceedings of the National Academy of Sciences of the United States of America 2010 Salomonis N, Schlieve CR, Pereira L, Wahlquist C, Colas A, Zambon AC, Vranizan K, Spindler MJ, Pico AR, Cline MS, Clark TA, Williams A, Blume JE, Samal E, Mercola M, Merrill BJ, Conklin BR
• The BridgeDb framework: standardized access to gene, protein and metabolite identifier mapping services.
  BMC bioinformatics 2010 van Iersel MP, Pico AR, Kelder T, Gao J, Ho I, Hanspers K, Conklin BR, Evelo CT
• Alternative splicing in the differentiation of human embryonic stem cells into cardiac precursors.
  PLoS computational biology 2009 Salomonis N, Nelson B, Vranizan K, Pico AR, Hanspers K, Kuchinsky A, Ta L, Mercola M, Conklin BR
• Mining biological pathways using WikiPathways web services.
  PloS one 2009 Kelder T, Pico AR, Hanspers K, van Iersel MP, Evelo C, Conklin BR
• Variants in the CDKN2B and RTEL1 regions are associated with high-grade glioma susceptibility.
  Nature genetics 2009 Wrensch M, Jenkins RB, Chang JS, Yeh RF, Xiao Y, Decker PA, Ballman KV, Berger M, Buckner JC, Chang S, Giannini C, Halder C, Kollmeyer TM, Kosel ML, LaChance DH, McCoy L, O'Neill BP, Patoka J, Pico AR…
• SNPLogic: an interactive single nucleotide polymorphism selection, annotation, and prioritization system.
  Nucleic acids research 2008 Pico AR, Smirnov IV, Chang JS, Yeh RF, Wiemels JL, Wiencke JK, Tihan T, Conklin BR, Wrensch M
• Presenting and exploring biological pathways with PathVisio.
  BMC bioinformatics 2008 van Iersel MP, Kelder T, Pico AR, Hanspers K, Coort S, Conklin BR, Evelo C
• The public road to high-quality curated biological pathways.
  Drug discovery today 2008 Adriaens ME, Jaillard M, Waagmeester A, Coort SL, Pico AR, Evelo CT
• WikiPathways: pathway editing for the people.
  PLoS biology 2008 Pico AR, Kelder T, van Iersel MP, Hanspers K, Conklin BR, Evelo C
• The emerging world of wikis.
  Science (New York, N.Y.) 2008 Hu JC, Aramayo R, Bolser D, Conway T, Elsik CG, Gribskov M, Kelder T, Kihara D, Knight TF, Pico AR, Siegele DA, Wanner BL, Welch RD
• Pathway analysis of single-nucleotide polymorphisms potentially associated with glioblastoma multiforme susceptibility using random forests.
  Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology 2008 Chang JS, Yeh RF, Wiencke JK, Wiemels JL, Smirnov I, Pico AR, Tihan T, Patoka J, Miike R, Sison JD, Rice T, Wrensch MR
• GenMAPP 2: new features and resources for pathway analysis.
  BMC bioinformatics 2007 Salomonis N, Hanspers K, Zambon AC, Vranizan K, Lawlor SC, Dahlquist KD, Doniger SW, Stuart J, Conklin BR, Pico AR
• Integration of biological networks and gene expression data using Cytoscape.
  Nature protocols 2007 Cline MS, Smoot M, Cerami E, Kuchinsky A, Landys N, Workman C, Christmas R, Avila-Campilo I, Creech M, Gross B, Hanspers K, Isserlin R, Kelley R, Killcoyne S, Lotia S, Maere S, Morris J, Ono K, …
• RCK domain model of calcium activation in BK channels
  RCK domain model of calcium activation in BK channels. 2003 Pico AR
• Neurocomputing
  Local cortical injections of glutamate and noradrenaline alter high-frequency (245 Hz) neuronal activity in rat cortex 1999 Brent A Field, Alexander R Pico, Richard T Marrocco
• A new strontium-copper ethylene glycol complex : synthesis and structure of [Sr(C2H6O2)5] [Cu(C2H4O2)2].C2H6O2
  Inorganica Chimica Acta 1997 A R Pico, C S Houk, T J R Weakley, C J Page