Nathan Daniel Price - Publications

Affiliations: 
2005 University of California, San Diego, La Jolla, CA 

180 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2022 Wilmanski T, Kornilov SA, Diener C, Conomos MP, Lovejoy JC, Sebastiani P, Orwoll ES, Hood L, Price ND, Rappaport N, Magis AT, Gibbons SM. Heterogeneity in statin responses explained by variation in the human gut microbiome. Med (New York, N.Y.). 3: 388-405.e6. PMID 35690059 DOI: 10.1016/j.medj.2022.04.007  0.653
2022 Omenn GS, Magis AT, Price ND, Hood L. Personal Dense Dynamic Data Clouds Connect Systems Biomedicine to Scientific Wellness. Methods in Molecular Biology (Clifton, N.J.). 2486: 315-334. PMID 35437729 DOI: 10.1007/978-1-0716-2265-0_15  0.693
2022 Heath L, Earls JC, Magis AT, Kornilov SA, Lovejoy JC, Funk CC, Rappaport N, Logsdon BA, Mangravite LM, Kunkle BW, Martin ER, Naj AC, Ertekin-Taner N, Golde TE, Hood L, ... Price ND, et al. Manifestations of Alzheimer's disease genetic risk in the blood are evident in a multiomic analysis in healthy adults aged 18 to 90. Scientific Reports. 12: 6117. PMID 35413975 DOI: 10.1038/s41598-022-09825-2  0.675
2022 Su Y, Yuan D, Chen DG, Ng RH, Wang K, Choi J, Li S, Hong S, Zhang R, Xie J, Kornilov SA, Scherler K, Pavlovitch-Bedzyk AJ, Dong S, Lausted C, ... ... Price ND, et al. Multiple early factors anticipate post-acute COVID-19 sequelae. Cell. PMID 35216672 DOI: 10.1016/j.cell.2022.01.014  0.648
2022 Piekos SN, Roper RT, Hwang YM, Sorensen T, Price ND, Hood L, Hadlock JJ. The effect of maternal SARS-CoV-2 infection timing on birth outcomes: a retrospective multicentre cohort study. The Lancet. Digital Health. PMID 35034863 DOI: 10.1016/S2589-7500(21)00250-8  0.326
2021 Ross MK, Raji C, Lokken KL, Bredesen DE, Roach JC, Funk CC, Price N, Rappaport N, Hood L, Heath JR. Case Study: A Precision Medicine Approach to Multifactorial Dementia and Alzheimer's Disease. Journal of Alzheimer's Disease & Parkinsonism. 11. PMID 35237464  0.373
2021 Diener C, Qin S, Zhou Y, Patwardhan S, Tang L, Lovejoy JC, Magis AT, Price ND, Hood L, Gibbons SM. Baseline Gut Metagenomic Functional Gene Signature Associated with Variable Weight Loss Responses following a Healthy Lifestyle Intervention in Humans. Msystems. e0096421. PMID 34519531 DOI: 10.1128/mSystems.00964-21  0.655
2021 Lee JW, Su Y, Baloni P, Chen D, Pavlovitch-Bedzyk AJ, Yuan D, Duvvuri VR, Ng RH, Choi J, Xie J, Zhang R, Murray K, Kornilov S, Smith B, Magis AT, ... ... Price ND, et al. Integrated analysis of plasma and single immune cells uncovers metabolic changes in individuals with COVID-19. Nature Biotechnology. PMID 34489601 DOI: 10.1038/s41587-021-01020-4  0.695
2021 McEwen SC, Merrill DA, Bramen J, Porter V, Panos S, Kaiser S, Hodes J, Ganapathi A, Bell L, Bookheimer T, Glatt R, Rapozo M, Ross MK, Price ND, Kelly D, et al. A systems-biology clinical trial of a personalized multimodal lifestyle intervention for early Alzheimer's disease. Alzheimer's & Dementia (New York, N. Y.). 7: e12191. PMID 34295960 DOI: 10.1002/trc2.12191  0.363
2021 Zimmer A, Korem Y, Rappaport N, Wilmanski T, Baloni P, Jade K, Robinson M, Magis AT, Lovejoy J, Gibbons SM, Hood L, Price ND. The geometry of clinical labs and wellness states from deeply phenotyped humans. Nature Communications. 12: 3578. PMID 34117230 DOI: 10.1038/s41467-021-23849-8  0.662
2021 Arif M, Zhang C, Li X, Güngör C, Çakmak B, Arslantürk M, Tebani A, Özcan B, Subaş O, Zhou W, Piening B, Turkez H, Fagerberg L, Price N, Hood L, et al. iNetModels 2.0: an interactive visualization and database of multi-omics data. Nucleic Acids Research. PMID 33849075 DOI: 10.1093/nar/gkab254  0.445
2021 Wilmanski T, Diener C, Rappaport N, Patwardhan S, Wiedrick J, Lapidus J, Earls JC, Zimmer A, Glusman G, Robinson M, Yurkovich JT, Kado DM, Cauley JA, Zmuda J, Lane NE, ... ... Price ND, et al. Author Correction: Gut microbiome pattern reflects healthy ageing and predicts survival in humans. Nature Metabolism. PMID 33731896 DOI: 10.1038/s42255-021-00377-9  0.765
2021 Wilmanski T, Diener C, Rappaport N, Patwardhan S, Wiedrick J, Lapidus J, Earls JC, Zimmer A, Glusman G, Robinson M, Yurkovich JT, Kado DM, Cauley JA, Zmuda J, Lane NE, ... ... Price ND, et al. Gut microbiome pattern reflects healthy ageing and predicts survival in humans. Nature Metabolism. 3: 274-286. PMID 33619379 DOI: 10.1038/s42255-021-00348-0  0.775
2020 Baloni P, Funk CC, Yan J, Yurkovich JT, Kueider-Paisley A, Nho K, Heinken A, Jia W, Mahmoudiandehkordi S, Louie G, Saykin AJ, Arnold M, Kastenmüller G, Griffiths WJ, Thiele I, ... ... Price ND, et al. Metabolic Network Analysis Reveals Altered Bile Acid Synthesis and Metabolism in Alzheimer's Disease. Cell Reports. Medicine. 1: 100138. PMID 33294859 DOI: 10.1016/j.xcrm.2020.100138  0.757
2020 Su Y, Chen D, Yuan D, Lausted C, Choi J, Dai CL, Voillet V, Duvvuri VR, Scherler K, Troisch P, Baloni P, Qin G, Smith B, Kornilov SA, Rostomily C, ... ... Price ND, et al. Multi-Omics Resolves a Sharp Disease-State Shift between Mild and Moderate COVID-19. Cell. PMID 33171100 DOI: 10.1016/j.cell.2020.10.037  0.666
2020 Manor O, Dai CL, Kornilov SA, Smith B, Price ND, Lovejoy JC, Gibbons SM, Magis AT. Health and disease markers correlate with gut microbiome composition across thousands of people. Nature Communications. 11: 5206. PMID 33060586 DOI: 10.1038/s41467-020-18871-1  0.593
2020 Magis AT, Rappaport N, Conomos MP, Omenn GS, Lovejoy JC, Hood L, Price ND. Untargeted longitudinal analysis of a wellness cohort identifies markers of metastatic cancer years prior to diagnosis. Scientific Reports. 10: 16275. PMID 33004987 DOI: 10.1038/s41598-020-73451-z  0.633
2020 Wainberg M, Magis AT, Earls JC, Lovejoy JC, Sinnott-Armstrong N, Omenn GS, Hood L, Price ND. Multiomic blood correlates of genetic risk identify presymptomatic disease alterations. Proceedings of the National Academy of Sciences of the United States of America. 117: 21813-21820. PMID 32817414 DOI: 10.1073/Pnas.2001429117  0.705
2020 Funk CC, Casella AM, Jung S, Richards MA, Rodriguez A, Shannon P, Donovan-Maiye R, Heavner B, Chard K, Xiao Y, Glusman G, Ertekin-Taner N, Golde TE, Toga A, Hood L, ... ... Price ND, et al. Atlas of Transcription Factor Binding Sites from ENCODE DNase Hypersensitivity Data across 27 Tissue Types. Cell Reports. 32: 108029. PMID 32814038 DOI: 10.1016/J.Celrep.2020.108029  0.788
2020 Su Y, Chen D, Lausted C, Yuan D, Choi J, Dai C, Voillet V, Scherler K, Troisch P, Duvvuri VR, Baloni P, Qin G, Smith B, Kornilov S, Rostomily C, ... ... Price ND, et al. Multiomic Immunophenotyping of COVID-19 Patients Reveals Early Infection Trajectories. Biorxiv : the Preprint Server For Biology. PMID 32766585 DOI: 10.1101/2020.07.27.224063  0.644
2020 Wan YW, Al-Ouran R, Mangleburg CG, Perumal TM, Lee TV, Allison K, Swarup V, Funk CC, Gaiteri C, Allen M, Wang M, Neuner SM, Kaczorowski CC, Philip VM, Howell GR, ... ... Price ND, et al. Meta-Analysis of the Alzheimer's Disease Human Brain Transcriptome and Functional Dissection in Mouse Models. Cell Reports. 32: 107908. PMID 32668255 DOI: 10.1016/J.Celrep.2020.107908  0.644
2020 Madin JS, Nielsen DA, Brbic M, Corkrey R, Danko D, Edwards K, Engqvist MKM, Fierer N, Geoghegan JL, Gillings M, Kyrpides NC, Litchman E, Mason CE, Moore L, Nielsen SL, ... ... Price ND, et al. A synthesis of bacterial and archaeal phenotypic trait data. Scientific Data. 7: 170. PMID 32503990 DOI: 10.1038/S41597-020-0497-4  0.593
2020 Levy R, Magis AT, Earls JC, Manor O, Wilmanski T, Lovejoy J, Gibbons SM, Omenn GS, Hood L, Price ND. Longitudinal analysis reveals transition barriers between dominant ecological states in the gut microbiome. Proceedings of the National Academy of Sciences of the United States of America. PMID 32471946 DOI: 10.1073/Pnas.1922498117  0.69
2020 Gillespie MA, Palii CG, Sanchez-Taltavull D, Shannon P, Longabaugh WJR, Downes DJ, Sivaraman K, Espinoza HM, Hughes JR, Price ND, Perkins TJ, Ranish JA, Brand M. Absolute Quantification of Transcription Factors Reveals Principles of Gene Regulation in Erythropoiesis. Molecular Cell. PMID 32330456 DOI: 10.1016/J.Molcel.2020.03.031  0.32
2020 Lieven C, Beber ME, Olivier BG, Bergmann FT, Ataman M, Babaei P, Bartell JA, Blank LM, Chauhan S, Correia K, Diener C, Dräger A, Ebert BE, Edirisinghe JN, Faria JP, ... ... Price ND, et al. Publisher Correction: MEMOTE for standardized genome-scale metabolic model testing. Nature Biotechnology. 38: 504. PMID 32265554 DOI: 10.1038/S41587-020-0477-4  0.782
2020 Lieven C, Beber ME, Olivier BG, Bergmann FT, Ataman M, Babaei P, Bartell JA, Blank LM, Chauhan S, Correia K, Diener C, Dräger A, Ebert BE, Edirisinghe JN, Faria JP, ... ... Price ND, et al. MEMOTE for standardized genome-scale metabolic model testing. Nature Biotechnology. PMID 32123384 DOI: 10.1038/S41587-020-0446-Y  0.784
2020 Paquette AG, Hood L, Price ND, Sadovsky Y. Deep phenotyping during pregnancy for predictive and preventive medicine. Science Translational Medicine. 12. PMID 31969484 DOI: 10.1126/Scitranslmed.Aay1059  0.419
2020 Kim TK, Lee I, Cho JH, Canine B, Keller A, Price ND, Hwang D, Carlson G, Hood L. Core transcriptional regulatory circuits in prion diseases. Molecular Brain. 13: 10. PMID 31959236 DOI: 10.1186/S13041-020-0551-3  0.502
2019 Earls JC, Rappaport N, Heath L, Wilmanski T, Magis AT, Schork NJ, Omenn GS, Lovejoy J, Hood L, Price ND. Multi-Omic Biological Age Estimation and Its Correlation With Wellness and Disease Phenotypes: A Longitudinal Study of 3,558 Individuals. The Journals of Gerontology. Series a, Biological Sciences and Medical Sciences. 74: S52-S60. PMID 31724055 DOI: 10.1093/Gerona/Glz220  0.684
2019 Yurkovich JT, Tian Q, Price ND, Hood L. A systems approach to clinical oncology uses deep phenotyping to deliver personalized care. Nature Reviews. Clinical Oncology. PMID 31619755 DOI: 10.1038/S41571-019-0273-6  0.736
2019 Zhou Y, Qin S, Sun M, Tang L, Yan X, Kim TK, Caballero J, Glusman G, Brunkow ME, Soloski MJ, Rebman AW, Scavarda C, Cooper D, Omenn GS, Moritz RL, ... ... Price N, et al. Measurement of organ-specific and acute-phase blood protein levels in early Lyme disease. Journal of Proteome Research. PMID 31618575 DOI: 10.1021/Acs.Jproteome.9B00569  0.468
2019 Dean KR, Hammamieh R, Mellon SH, Abu-Amara D, Flory JD, Guffanti G, Wang K, Daigle BJ, Gautam A, Lee I, Yang R, Almli LM, Bersani FS, Chakraborty N, Donohue D, ... ... Price ND, et al. Multi-omic biomarker identification and validation for diagnosing warzone-related post-traumatic stress disorder. Molecular Psychiatry. PMID 31501510 DOI: 10.1038/S41380-019-0496-Z  0.483
2019 Wilmanski T, Rappaport N, Earls JC, Magis AT, Manor O, Lovejoy J, Omenn GS, Hood L, Gibbons SM, Price ND. Blood metabolome predicts gut microbiome α-diversity in humans. Nature Biotechnology. PMID 31477923 DOI: 10.1038/S41587-019-0233-9  0.692
2019 Baloni P, Sangar V, Yurkovich JT, Robinson M, Taylor S, Karbowski CM, Hamadeh HK, He YD, Price ND. Genome-scale metabolic model of the rat liver predicts effects of diet restriction. Scientific Reports. 9: 9807. PMID 31285465 DOI: 10.1038/S41598-019-46245-1  0.726
2019 Zubair N, Conomos MP, Hood L, Omenn GS, Price ND, Spring BJ, Magis AT, Lovejoy JC. Genetic Predisposition Impacts Clinical Changes in a Lifestyle Coaching Program. Scientific Reports. 9: 6805. PMID 31048771 DOI: 10.1038/S41598-019-43058-0  0.672
2019 Madduri R, Chard K, D'Arcy M, Jung SC, Rodriguez A, Sulakhe D, Deutsch E, Funk C, Heavner B, Richards M, Shannon P, Glusman G, Price N, Kesselman C, Foster I. Reproducible big data science: A case study in continuous FAIRness. Plos One. 14: e0213013. PMID 30973881 DOI: 10.1371/Journal.Pone.0213013  0.607
2019 Shen F, Sun R, Yao J, Li J, Liu Q, Price ND, Liu C, Wang Z. OptRAM: In-silico strain design via integrative regulatory-metabolic network modeling. Plos Computational Biology. 15: e1006835. PMID 30849073 DOI: 10.1371/Journal.Pcbi.1006835  0.393
2019 Pearl JR, Colantuoni C, Bergey DE, Funk CC, Shannon P, Basu B, Casella AM, Oshone RT, Hood L, Price ND, Ament SA. Genome-Scale Transcriptional Regulatory Network Models of Psychiatric and Neurodegenerative Disorders. Cell Systems. PMID 30772379 DOI: 10.1016/J.Cels.2019.01.002  0.739
2019 Price N, Price N, Earls J, Rappaport N, Heath L, Wilmanski T, Lovejoy J, Hood L. MULTI-OMIC BIOLOGICAL AGE ESTIMATION, CORRELATION WITH WELLNESS, DISEASE PHENOTYPES: LONGITUDINAL SAMPLE OF 3558 Innovation in Aging. 3: S209-S209. DOI: 10.1093/Geroni/Igz038.761  0.467
2019 Funk CC, Shannon P, Gibbs D, Rappaport N, Allen M, Carrasquillo MM, Ertekin-Taner N, Golde TE, Shmulevich I, Hood L, Price ND. P4-103: CELL-TYPE SPECIFIC MECHANISTIC AND DIRECTIONAL TRANSCRIPTIONAL REGULATORY NETWORKS IN ALZHEIMER'S DISEASE Alzheimer's & Dementia. 15: P1314-P1315. DOI: 10.1016/J.Jalz.2019.06.3764  0.494
2019 Roach JC, Hara J, Lovejoy JC, Fridman D, Funk C, Heath LM, Price ND, Hood L, Heim L, Brant-Zawadski M, Shankle WR. P4-017: Coaching For Cognition In Alzheimer'S (Cocoa) Trial Alzheimers & Dementia. 15. DOI: 10.1016/J.Jalz.2019.06.3676  0.406
2019 Heath LM, Earls JC, Magis AT, Kornilov SA, Hood L, Lovejoy JC, Price ND. P2-141: THE MANIFESTATION OF GENETIC RISK FOR ALZHEIMER'S DISEASE IN BLOOD ACROSS ADULTHOOD: A MULTI-OMIC PHENOME-WIDE ASSOCIATION STUDY (PHEWAS) APPROACH Alzheimer's & Dementia. 15: P627-P627. DOI: 10.1016/J.Jalz.2019.06.2548  0.679
2019 Casella A, Funk C, Price N, Colantuoni C, Ament S. 94 REGULOME-WIDE ASSOCIATION STUDY IDENTIFIES TRANSCRIPTION FACTOR NETWORKS ASSOCIATED WITH RISK FOR SCHIZOPHRENIA European Neuropsychopharmacology. 29: S112. DOI: 10.1016/J.Euroneuro.2019.07.235  0.657
2018 Allen M, Wang X, Serie DJ, Strickland SL, Burgess JD, Koga S, Younkin CS, Nguyen TT, Malphrus KG, Lincoln SJ, Alamprese M, Zhu K, Chang R, Carrasquillo MM, Kouri N, ... ... Price ND, et al. Divergent brain gene expression patterns associate with distinct cell-specific tau neuropathology traits in progressive supranuclear palsy. Acta Neuropathologica. PMID 30136084 DOI: 10.1007/S00401-018-1900-5  0.344
2018 Magis AT, Earls JC, Glusman G, Omenn GS, Lovejoy JC, Price ND, Hood L. Reply to "Precision medicine in the clouds". Nature Biotechnology. 36: 680-682. PMID 30080845 DOI: 10.1038/Nbt.4211  0.643
2018 Readhead B, Haure-Mirande JV, Funk CC, Richards MA, Shannon P, Haroutunian V, Sano M, Liang WS, Beckmann ND, Price ND, Reiman EM, Schadt EE, Ehrlich ME, Gandy S, Dudley JT. Multiscale Analysis of Independent Alzheimer's Cohorts Finds Disruption of Molecular, Genetic, and Clinical Networks by Human Herpesvirus. Neuron. PMID 29937276 DOI: 10.1016/J.Neuron.2018.05.023  0.627
2018 Trachana K, Bargaje R, Glusman G, Price ND, Huang S, Hood LE. Taking Systems Medicine to Heart. Circulation Research. 122: 1276-1289. PMID 29700072 DOI: 10.1161/Circresaha.117.310999  0.509
2018 Dinalankara W, Ke Q, Xu Y, Ji L, Pagane N, Lien A, Matam T, Fertig EJ, Price ND, Younes L, Marchionni L, Geman D. Digitizing omics profiles by divergence from a baseline. Proceedings of the National Academy of Sciences of the United States of America. PMID 29666255 DOI: 10.1073/Pnas.1721628115  0.352
2018 Ament SA, Pearl JR, Cantle JP, Bragg RM, Skene PJ, Coffey SR, Bergey DE, Wheeler VC, MacDonald ME, Baliga NS, Rosinski J, Hood LE, Carroll JB, Price ND. Transcriptional regulatory networks underlying gene expression changes in Huntington's disease. Molecular Systems Biology. 14: e7435. PMID 29581148 DOI: 10.15252/Msb.20167435  0.742
2018 Chung J, Zhang X, Allen M, Wang X, Ma Y, Beecham G, Montine TJ, Younkin SG, Dickson DW, Golde TE, Price ND, Ertekin-Taner N, Lunetta KL, Mez J, et al. Genome-wide pleiotropy analysis of neuropathological traits related to Alzheimer's disease. Alzheimer's Research & Therapy. 10: 22. PMID 29458411 DOI: 10.1186/S13195-018-0349-Z  0.31
2018 Kearney P, Boniface JJ, Price ND, Hood L. The building blocks of successful translation of proteomics to the clinic. Current Opinion in Biotechnology. 51: 123-129. PMID 29427919 DOI: 10.1016/J.Copbio.2017.12.011  0.457
2017 King B, Farrah T, Richards MA, Mundy M, Simeonidis E, Price ND. ProbAnnoWeb and ProbAnnoPy: probabilistic annotation and gap-filling of metabolic reconstructions. Bioinformatics (Oxford, England). PMID 29267848 DOI: 10.1093/Bioinformatics/Btx796  0.626
2017 Allen M, Wang X, Burgess JD, Watzlawik J, Serie DJ, Younkin CS, Nguyen T, Malphrus KG, Lincoln S, Carrasquillo MM, Ho C, Chakrabarty P, Strickland S, Murray ME, Swarup V, ... ... Price ND, et al. Conserved brain myelination networks are altered in Alzheimer's and other neurodegenerative diseases. Alzheimer's & Dementia : the Journal of the Alzheimer's Association. PMID 29107053 DOI: 10.1016/J.Jalz.2017.09.012  0.305
2017 Samal A, Craig JP, Coradetti ST, Benz JP, Eddy JA, Price ND, Glass NL. Network reconstruction and systems analysis of plant cell wall deconstruction by Neurospora crassa. Biotechnology For Biofuels. 10: 225. PMID 28947916 DOI: 10.1186/S13068-017-0901-2  0.608
2017 Seo SO, Janssen H, Magis A, Wang Y, Lu T, Price ND, Jin YS, Blaschek HP. Genomic, transcriptional and phenotypic analysis of the glucose derepressed Clostridium beijerinckii mutant exhibiting acid crash phenotype. Biotechnology Journal. PMID 28762642 DOI: 10.1002/Biot.201700182  0.638
2017 Sims R, van der Lee SJ, Naj AC, Bellenguez C, Badarinarayan N, Jakobsdottir J, Kunkle BW, Boland A, Raybould R, Bis JC, Martin ER, Grenier-Boley B, Heilmann-Heimbach S, Chouraki V, Kuzma AB, ... ... Price ND, et al. Rare coding variants in PLCG2, ABI3, and TREM2 implicate microglial-mediated innate immunity in Alzheimer's disease. Nature Genetics. PMID 28714976 DOI: 10.1038/Ng.3916  0.302
2017 Price ND, Magis AT, Earls JC, Glusman G, Levy R, Lausted C, McDonald DT, Kusebauch U, Moss CL, Zhou Y, Qin S, Moritz RL, Brogaard K, Omenn GS, Lovejoy JC, et al. A wellness study of 108 individuals using personal, dense, dynamic data clouds. Nature Biotechnology. PMID 28714965 DOI: 10.1038/Nbt.3870  0.712
2017 Marshall-Colon A, Long SP, Allen DK, Allen G, Beard DA, Benes B, von Caemmerer S, Christensen AJ, Cox DJ, Hart JC, Hirst PM, Kannan K, Katz DS, Lynch JP, Millar AJ, ... ... Price ND, et al. Crops In Silico: Generating Virtual Crops Using an Integrative and Multi-scale Modeling Platform. Frontiers in Plant Science. 8: 786. PMID 28555150 DOI: 10.3389/Fpls.2017.00786  0.318
2017 Wang Z, Danziger SA, Heavner BD, Ma S, Smith JJ, Li S, Herricks T, Simeonidis E, Baliga NS, Aitchison JD, Price ND. Combining inferred regulatory and reconstructed metabolic networks enhances phenotype prediction in yeast. Plos Computational Biology. 13: e1005489. PMID 28520713 DOI: 10.1371/Journal.Pcbi.1005489  0.569
2017 Coffey SR, Bragg RM, Minnig S, Ament SA, Cantle JP, Glickenhaus A, Shelnut D, Carrillo JM, Shuttleworth DD, Rodier JA, Noguchi K, Bennett CF, Price ND, Kordasiewicz HB, Carroll JB. Peripheral huntingtin silencing does not ameliorate central signs of disease in the B6.HttQ111/+ mouse model of Huntington's disease. Plos One. 12: e0175968. PMID 28453524 DOI: 10.1371/Journal.Pone.0175968  0.669
2017 Ghosh D, Funk CC, Caballero J, Shah N, Rouleau K, Earls JC, Soroceanu L, Foltz G, Cobbs CS, Price ND, Hood L. A Cell-Surface Membrane Protein Signature for Glioblastoma. Cell Systems. PMID 28365151 DOI: 10.1016/J.Cels.2017.03.004  0.472
2017 Bragg RM, Coffey SR, Weston RM, Ament SA, Cantle JP, Minnig S, Funk CC, Shuttleworth DD, Woods EL, Sullivan BR, Jones L, Glickenhaus A, Anderson JS, Anderson MD, Dunnett SB, ... ... Price ND, et al. Corrigendum: Motivational, proteostatic and transcriptional deficits precede synapse loss, gliosis and neurodegeneration in the B6.Htt(Q111/+) model of Huntington's disease. Scientific Reports. 7: 44960. PMID 28350386 DOI: 10.1038/srep44960  0.616
2017 Ament SA, Pearl JR, Grindeland A, St Claire J, Earls JC, Kovalenko M, Gillis T, Mysore J, Gusella JF, Lee JM, Kwak S, Howland D, Lee MY, Baxter D, Scherler K, ... ... Price ND, et al. High resolution time-course mapping of early transcriptomic, molecular and cellular phenotypes in Huntington's disease CAG knock-in mice across multiple genetic backgrounds. Human Molecular Genetics. PMID 28334820 DOI: 10.1093/Hmg/Ddx006  0.72
2017 Bragg RM, Coffey SR, Weston RM, Ament SA, Cantle JP, Minnig S, Funk CC, Shuttleworth DD, Woods EL, Sullivan BR, Jones L, Glickenhaus A, Anderson JS, Anderson MD, Dunnett SB, ... ... Price ND, et al. Motivational, proteostatic and transcriptional deficits precede synapse loss, gliosis and neurodegeneration in the B6.Htt(Q111/+) model of Huntington's disease. Scientific Reports. 7: 41570. PMID 28176805 DOI: 10.1038/Srep41570  0.653
2017 Ament S, Pearl J, Funk C, Bergey D, Shannon P, Basu B, Hood L, Price N. Genome-Scale Transcriptional Regulatory Network Models of Psychiatric Disorders European Neuropsychopharmacology. 27: S417. DOI: 10.1016/J.Euroneuro.2016.09.465  0.731
2016 Richards MA, Lie TJ, Zhang J, Ragsdale SW, Leigh JA, Price ND. Exploring Hydrogenotrophic Methanogenesis: A Genome Scale Metabolic Reconstruction of Methanococcus maripaludis. Journal of Bacteriology. PMID 27736793 DOI: 10.1128/Jb.00571-16  0.658
2016 Allen M, Carrasquillo MM, Funk C, Heavner BD, Zou F, Younkin CS, Burgess JD, Chai HS, Crook J, Eddy JA, Li H, Logsdon B, Peters MA, Dang KK, Wang X, ... ... Price ND, et al. Human whole genome genotype and transcriptome data for Alzheimer's and other neurodegenerative diseases. Scientific Data. 3: 160089. PMID 27727239 DOI: 10.1038/Sdata.2016.89  0.658
2016 Sagner M, McNeil A, Puska P, Auffray C, Price ND, Hood L, Lavie CJ, Han ZG, Chen Z, Brahmachari SK, McEwen BS, Soares MB, Balling R, Epel E, Arena R. The P4 Health Spectrum - A Predictive, Preventive, Personalized and Participatory Continuum for Promoting Healthspan. Progress in Cardiovascular Diseases. PMID 27546358 DOI: 10.1016/J.Pcad.2016.08.002  0.47
2016 Dinov ID, Heavner B, Tang M, Glusman G, Chard K, Darcy M, Madduri R, Pa J, Spino C, Kesselman C, Foster I, Deutsch EW, Price ND, Van Horn JD, Ames J, et al. Predictive Big Data Analytics: A Study of Parkinson's Disease Using Large, Complex, Heterogeneous, Incongruent, Multi-Source and Incomplete Observations. Plos One. 11: e0157077. PMID 27494614 DOI: 10.1371/Journal.Pone.0157077  0.485
2016 Zhou JX, Samal A, 'Hérouël AF, Price ND, Huang S. Relative Stability of Network States in Boolean Network Models of Gene Regulation in Development. Bio Systems. PMID 26965665 DOI: 10.1016/J.Biosystems.2016.03.002  0.343
2016 Richards M, King B, Simeonidis E, Price N. Mighty morphing metabolic models: leveraging manual curations for automatic metabolic reconstruction of clades F1000research. 5. DOI: 10.7490/F1000Research.1112664.1  0.623
2016 Bragg B, Coffey S, Ament S, Price N, Carroll J. B18 Transcriptome profiling of B6.HttQ111/+ hepatocytes in response to chemical perturbagens Journal of Neurology, Neurosurgery & Psychiatry. 87: A15.2-A15. DOI: 10.1136/Jnnp-2016-314597.49  0.627
2016 Golde TE, Ertekin-Taner N, Chakrabarty P, Allen M, Carrasquillo MM, Dickson DW, Younkin SG, Levites Y, Price ND, Funk C, Heavner BD, Logsdon B, Mangravite LM, Li H, Burgess JD, et al. F2-01-04: From Systems Level Transcriptomics to new Immune Targets for Alzheimer’s Disease Alzheimer's & Dementia. 12: P215-P216. DOI: 10.1016/J.Jalz.2016.06.383  0.598
2016 Logsdon BA, Zhang B, Komashko V, Mostafavi S, Chen M, Perumal TM, Funk C, Allen M, Amberkar S, Hide W, Friend SH, Bennett DA, Schadt E, de Jager P, Price ND, et al. P4-031: Integrative Network Analysis of Multiple Alzheimer's Disease Rnaseq Studies From the Accelerating Medicine Partnership-Alzheimer's Disease Consortium Alzheimer's & Dementia. 12: P1026-P1027. DOI: 10.1016/J.Jalz.2016.06.2120  0.303
2015 Magis AT, Funk CC, Price ND. SNAPR: a bioinformatics pipeline for efficient and accurate RNA-seq alignment and analysis. Ieee Life Sciences Letters. 1: 22-25. PMID 29270443 DOI: 10.1109/LLS.2015.2465870  0.588
2015 López García de Lomana A, Schäuble S, Valenzuela J, Imam S, Carter W, Bilgin DD, Yohn CB, Turkarslan S, Reiss DJ, Orellana MV, Price ND, Baliga NS. Transcriptional program for nitrogen starvation-induced lipid accumulation in Chlamydomonas reinhardtii. Biotechnology For Biofuels. 8: 207. PMID 26633994 DOI: 10.1186/S13068-015-0391-Z  0.344
2015 Ma S, Minch KJ, Rustad TR, Hobbs S, Zhou SL, Sherman DR, Price ND. Integrated Modeling of Gene Regulatory and Metabolic Networks in Mycobacterium tuberculosis. Plos Computational Biology. 11: e1004543. PMID 26618656 DOI: 10.1371/Journal.Pcbi.1004543  0.562
2015 Heavner BD, Price ND. Comparative Analysis of Yeast Metabolic Network Models Highlights Progress, Opportunities for Metabolic Reconstruction. Plos Computational Biology. 11: e1004530. PMID 26566239 DOI: 10.1371/Journal.Pcbi.1004530  0.432
2015 Imam S, Schäuble S, Valenzuela J, López García de Lomana A, Carter W, Price ND, Baliga NS. A refined genome-scale reconstruction of Chlamydomonas metabolism provides a platform for systems-level analyses. The Plant Journal : For Cell and Molecular Biology. PMID 26485611 DOI: 10.1111/Tpj.13059  0.411
2015 Ebrahim A, Almaas E, Bauer E, Bordbar A, Burgard AP, Chang RL, Dräger A, Famili I, Feist AM, Fleming RM, Fong SS, Hatzimanikatis V, Herrgård MJ, Holder A, Hucka M, ... ... Price ND, et al. Do genome-scale models need exact solvers or clearer standards? Molecular Systems Biology. 11: 831. PMID 26467284 DOI: 10.15252/Msb.20156157  0.733
2015 Toga AW, Foster I, Kesselman C, Madduri R, Chard K, Deutsch EW, Price ND, Glusman G, Heavner BD, Dinov ID, Ames J, Van Horn J, Kramer R, Hood L. Big Biomedical data as the key resource for discovery science. Journal of the American Medical Informatics Association : Jamia. PMID 26198305 DOI: 10.1093/Jamia/Ocv077  0.506
2015 Eddy JA, Funk CC, Price ND. Fostering synergy between cell biology and systems biology. Trends in Cell Biology. PMID 26013981 DOI: 10.1016/J.Tcb.2015.04.005  0.633
2015 Imam S, Schäuble S, Brooks AN, Baliga NS, Price ND. Data-driven integration of genome-scale regulatory and metabolic network models. Frontiers in Microbiology. 6: 409. PMID 25999934 DOI: 10.3389/Fmicb.2015.00409  0.413
2015 Turkarslan S, Peterson EJ, Rustad TR, Minch KJ, Reiss DJ, Morrison R, Ma S, Price ND, Sherman DR, Baliga NS. A comprehensive map of genome-wide gene regulation in Mycobacterium tuberculosis. Scientific Data. 2: 150010. PMID 25977815 DOI: 10.1038/Sdata.2015.10  0.508
2015 Ament SA, Szelinger S, Glusman G, Ashworth J, Hou L, Akula N, Shekhtman T, Badner JA, Brunkow ME, Mauldin DE, Stittrich AB, Rouleau K, Detera-Wadleigh SD, Nurnberger JI, Edenberg HJ, ... ... Price ND, et al. Rare variants in neuronal excitability genes influence risk for bipolar disorder. Proceedings of the National Academy of Sciences of the United States of America. 112: 3576-81. PMID 25730879 DOI: 10.1073/Pnas.1424958112  0.708
2015 Chandrasekaran S, Rittschof CC, Djukovic D, Gu H, Raftery D, Price ND, Robinson GE. Aggression is associated with aerobic glycolysis in the honey bee brain(1). Genes, Brain, and Behavior. 14: 158-66. PMID 25640316 DOI: 10.1111/Gbb.12201  0.64
2015 Chakrabarty P, Li A, Ceballos-Diaz C, Eddy JA, Funk CC, Moore B, DiNunno N, Rosario AM, Cruz PE, Verbeeck C, Sacino A, Nix S, Janus C, Price ND, Das P, et al. IL-10 alters immunoproteostasis in APP mice, increasing plaque burden and worsening cognitive behavior. Neuron. 85: 519-33. PMID 25619653 DOI: 10.1016/J.Neuron.2014.11.020  0.598
2015 Minch KJ, Rustad TR, Peterson EJ, Winkler J, Reiss DJ, Ma S, Hickey M, Brabant W, Morrison B, Turkarslan S, Mawhinney C, Galagan JE, Price ND, Baliga NS, Sherman DR. The DNA-binding network of Mycobacterium tuberculosis. Nature Communications. 6: 5829. PMID 25581030 DOI: 10.1038/Ncomms6829  0.465
2015 Simeonidis E, Price ND. Genome-scale modeling for metabolic engineering. Journal of Industrial Microbiology & Biotechnology. 42: 327-38. PMID 25578304 DOI: 10.1007/S10295-014-1576-3  0.389
2015 Hood L, Lovejoy JC, Price ND. Integrating big data and actionable health coaching to optimize wellness. Bmc Medicine. 13: 4. PMID 25575752 DOI: 10.1186/S12916-014-0238-7  0.496
2015 Heavner BD, Price ND. Transparency in metabolic network reconstruction enables scalable biological discovery. Current Opinion in Biotechnology. 34: 105-9. PMID 25562137 DOI: 10.1016/J.Copbio.2014.12.010  0.405
2015 Geman D, Ochs M, Price ND, Tomasetti C, Younes L. An argument for mechanism-based statistical inference in cancer Human Genetics. 134: 479-495. PMID 25381197 DOI: 10.1007/S00439-014-1501-X  0.377
2014 Rustad TR, Minch KJ, Ma S, Winkler JK, Hobbs S, Hickey M, Brabant W, Turkarslan S, Price ND, Baliga NS, Sherman DR. Mapping and manipulating the Mycobacterium tuberculosis transcriptome using a transcription factor overexpression-derived regulatory network. Genome Biology. 15: 502. PMID 25380655 DOI: 10.1186/S13059-014-0502-3  0.485
2014 Ma S, Sung J, Magis AT, Wang Y, Geman D, Price ND. Measuring the effect of inter-study variability on estimating prediction error. Plos One. 9: e110840. PMID 25330348 DOI: 10.1371/Journal.Pone.0110840  0.781
2014 Benedict MN, Mundy MB, Henry CS, Chia N, Price ND. Likelihood-based gene annotations for gap filling and quality assessment in genome-scale metabolic models. Plos Computational Biology. 10: e1003882. PMID 25329157 DOI: 10.1371/Journal.Pcbi.1003882  0.642
2014 Richards MA, Cassen V, Heavner BD, Ajami NE, Herrmann A, Simeonidis E, Price ND. MediaDB: a database of microbial growth conditions in defined media. Plos One. 9: e103548. PMID 25098325 DOI: 10.1371/Journal.Pone.0103548  0.64
2014 Craig TA, Zhang Y, Magis AT, Funk CC, Price ND, Ekker SC, Kumar R. Detection of 1α,25-dihydroxyvitamin D-regulated miRNAs in zebrafish by whole transcriptome sequencing. Zebrafish. 11: 207-18. PMID 24650217 DOI: 10.1089/Zeb.2013.0899  0.589
2014 Hood L, Price ND. Demystifying disease, democratizing health care. Science Translational Medicine. 6: 225ed5. PMID 24574336 DOI: 10.1126/Scitranslmed.3008665  0.423
2014 Benedict MN, Henriksen JR, Metcalf WW, Whitaker RJ, Price ND. ITEP: An integrated toolkit for exploration of microbial pan-genomes Bmc Genomics. 15. PMID 24387194 DOI: 10.1186/1471-2164-15-8  0.624
2014 Lausted C, Lee I, Zhou Y, Qin S, Sung J, Price ND, Hood L, Wang K. Systems approach to neurodegenerative disease biomarker discovery. Annual Review of Pharmacology and Toxicology. 54: 457-81. PMID 24160693 DOI: 10.1146/Annurev-Pharmtox-011613-135928  0.625
2014 Ma S, Sung J, Magis AT, Wang Y, Geman D, Price ND. Measuring the effect of inter-study variability on estimating prediction error Plos One. 9. DOI: 10.1371/journal.pone.0110840  0.771
2014 Hood L, Price ND. Promoting Wellness & Demystifying Disease: The 100K Project Clinical Omics. 1: 20-23. DOI: 10.1089/Clinomi.01.03.07  0.42
2014 Labhsetwar P, Cole J, Price N, Luthey-Schulten Z. Elucidating Metabolic Variability in Isogenic Microbial Populations Arising due to Noise in Protein Expression Biophysical Journal. 106: 644a. DOI: 10.1016/J.Bpj.2013.11.3564  0.364
2013 Flores M, Glusman G, Brogaard K, Price ND, Hood L. P4 medicine: how systems medicine will transform the healthcare sector and society. Personalized Medicine. 10: 565-576. PMID 25342952 DOI: 10.2217/Pme.13.57  0.468
2013 Chandrasekaran S, Price ND. Metabolic constraint-based refinement of transcriptional regulatory networks. Plos Computational Biology. 9: e1003370. PMID 24348226 DOI: 10.1371/Journal.Pcbi.1003370  0.616
2013 Wang C, Funk CC, Eddy JA, Price ND. Transcriptional analysis of aggressiveness and heterogeneity across grades of astrocytomas. Plos One. 8: e76694. PMID 24146911 DOI: 10.1371/Journal.Pone.0076694  0.791
2013 Li XJ, Hayward C, Fong PY, Dominguez M, Hunsucker SW, Lee LW, McLean M, Law S, Butler H, Schirm M, Gingras O, Lamontagne J, Allard R, Chelsky D, Price ND, et al. A blood-based proteomic classifier for the molecular characterization of pulmonary nodules. Science Translational Medicine. 5: 207ra142. PMID 24132637 DOI: 10.1126/Scitranslmed.3007013  0.472
2013 Sung J, Kim PJ, Ma S, Funk CC, Magis AT, Wang Y, Hood L, Geman D, Price ND. Multi-study integration of brain cancer transcriptomes reveals organ-level molecular signatures. Plos Computational Biology. 9: e1003148. PMID 23935471 DOI: 10.1371/Journal.Pcbi.1003148  0.79
2013 Heavner BD, Smallbone K, Price ND, Walker LP. Version 6 of the consensus yeast metabolic network refines biochemical coverage and improves model performance Database. 2013. PMID 23935056 DOI: 10.1093/Database/Bat059  0.422
2013 Labhsetwar P, Cole JA, Roberts E, Price ND, Luthey-Schulten ZA. Heterogeneity in protein expression induces metabolic variability in a modeled Escherichia coli population. Proceedings of the National Academy of Sciences of the United States of America. 110: 14006-11. PMID 23908403 DOI: 10.1073/Pnas.1222569110  0.35
2013 Earls JC, Eddy JA, Funk CC, Ko Y, Magis AT, Price ND. AUREA: an open-source software system for accurate and user-friendly identification of relative expression molecular signatures. Bmc Bioinformatics. 14: 78. PMID 23496976 DOI: 10.1186/1471-2105-14-78  0.778
2013 Thiele I, Swainston N, Fleming RM, Hoppe A, Sahoo S, Aurich MK, Haraldsdottir H, Mo ML, Rolfsson O, Stobbe MD, Thorleifsson SG, Agren R, Bölling C, Bordel S, Chavali AK, ... ... Price ND, et al. A community-driven global reconstruction of human metabolism. Nature Biotechnology. 31: 419-25. PMID 23455439 DOI: 10.1038/Nbt.2488  0.794
2013 Gonnerman MC, Benedict MN, Feist AM, Metcalf WW, Price ND. Genomically and biochemically accurate metabolic reconstruction of Methanosarcina barkeri Fusaro, iMG746. Biotechnology Journal. 8: 1070-9. PMID 23420771 DOI: 10.1002/Biot.201200266  0.734
2013 Simeonidis E, Chandrasekaran S, Price ND. A guide to integrating transcriptional regulatory and metabolic networks using PROM (probabilistic regulation of metabolism). Methods in Molecular Biology (Clifton, N.J.). 985: 103-12. PMID 23417801 DOI: 10.1007/978-1-62703-299-5_6  0.594
2013 Ko Y, Ament SA, Eddy JA, Caballero J, Earls JC, Hood L, Price ND. Cell type-specific genes show striking and distinct patterns of spatial expression in the mouse brain. Proceedings of the National Academy of Sciences of the United States of America. 110: 3095-100. PMID 23386717 DOI: 10.1073/Pnas.1222897110  0.777
2013 Price ND. Genome-scale models for microbial factories Industrial Biotechnology. 9: 177-178. DOI: 10.1089/Ind.2013.1586  0.317
2013 Labhsetwar P, Cole J, Roberts E, Price N, Luthey-Schulten Z. Heterogenity in Protein Copy Numbers induces Metabolic Variability in Modeled E. coli Populations Biophysical Journal. 104: 495a. DOI: 10.1016/J.Bpj.2012.11.2731  0.385
2013 Hood L, Flores MA, Brogaard KR, Price ND. Systems Medicine and the Emergence of Proactive P4 Medicine: Predictive, Preventive, Personalized and Participatory Handbook of Systems Biology. 445-467. DOI: 10.1016/B978-0-12-385944-0.00023-X  0.353
2013 Price ND, Edelman LB, Lee I, Yoo H, Hwang D, Carlson G, Galas DJ, Heath JR, Hood L. Systems Biology and Systems Medicine Genomic and Personalized Medicine. 1: 60-72. DOI: 10.1016/B978-0-12-382227-7.00005-7  0.332
2013 Georgatos F, Ballereau S, Pellet J, Ghanem M, Price N, Hood L, Guo YK, Boutigny D, Auffray C, Balling R, Schneider R. Computational infrastructures for data and knowledge management in systems biology Systems Biology. 1: 377-397. DOI: 10.1007/978-94-007-6803-1_13  0.349
2012 Wang Y, Eddy JA, Price ND. Reconstruction of genome-scale metabolic models for 126 human tissues using mCADRE. Bmc Systems Biology. 6: 153. PMID 23234303 DOI: 10.1186/1752-0509-6-153  0.747
2012 Simcha D, Price ND, Geman D. The limits of de novo DNA motif discovery. Plos One. 7: e47836. PMID 23144830 DOI: 10.1371/Journal.Pone.0047836  0.319
2012 Sangar V, Eddy JA, Simeonidis E, Price ND. Mechanistic modeling of aberrant energy metabolism in human disease. Frontiers in Physiology. 3: 404. PMID 23112774 DOI: 10.3389/Fphys.2012.00404  0.686
2012 Yang JL, Cogdell D, Eddy J, Trent J, Price N, Zhang W. [Expression of PRUNE2 mRNA and its positive correlation with non-coding RNA PCA3 in leiomyosarcoma]. Zhonghua Zhong Liu Za Zhi [Chinese Journal of Oncology]. 34: 497-500. PMID 22967466 DOI: 10.3760/Cma.J.Issn.0253-3766.2012.07.005  0.589
2012 Magis AT, Price ND. The top-scoring 'N' algorithm: a generalized relative expression classification method from small numbers of biomolecules. Bmc Bioinformatics. 13: 227. PMID 22966958 DOI: 10.1186/1471-2105-13-227  0.626
2012 Craig TA, Zhang Y, McNulty MS, Middha S, Ketha H, Singh RJ, Magis AT, Funk C, Price ND, Ekker SC, Kumar R. Research resource: whole transcriptome RNA sequencing detects multiple 1α,25-dihydroxyvitamin D(3)-sensitive metabolic pathways in developing zebrafish. Molecular Endocrinology (Baltimore, Md.). 26: 1630-42. PMID 22734042 DOI: 10.1210/Me.2012-1113  0.601
2012 Sung J, Wang Y, Chandrasekaran S, Witten DM, Price ND. Molecular signatures from omics data: from chaos to consensus. Biotechnology Journal. 7: 946-57. PMID 22528809 DOI: 10.1002/Biot.201100305  0.721
2012 Bebek G, Koyutürk M, Price ND, Chance MR. Network biology methods integrating biological data for translational science. Briefings in Bioinformatics. 13: 446-59. PMID 22390873 DOI: 10.1093/Bib/Bbr075  0.411
2012 Tian Q, Price ND, Hood L. Systems cancer medicine: towards realization of predictive, preventive, personalized and participatory (P4) medicine. Journal of Internal Medicine. 271: 111-21. PMID 22142401 DOI: 10.1111/J.1365-2796.2011.02498.X  0.512
2012 Benedict MN, Gonnerman MC, Metcalf WW, Price ND. Genome-scale metabolic reconstruction and hypothesis testing in the methanogenic archaeon Methanosarcina acetivorans C2A. Journal of Bacteriology. 194: 855-65. PMID 22139506 DOI: 10.1128/Jb.06040-11  0.613
2011 Kim PJ, Price ND. Genetic co-occurrence network across sequenced microbes. Plos Computational Biology. 7: e1002340. PMID 22219725 DOI: 10.1371/Journal.Pcbi.1002340  0.342
2011 Ghosh A, Zhao H, Price ND. Genome-scale consequences of cofactor balancing in engineered pentose utilization pathways in Saccharomyces cerevisiae. Plos One. 6: e27316. PMID 22076150 DOI: 10.1371/Journal.Pone.0027316  0.319
2011 Chandrasekaran S, Ament SA, Eddy JA, Rodriguez-Zas SL, Schatz BR, Price ND, Robinson GE. Behavior-specific changes in transcriptional modules lead to distinct and predictable neurogenomic states. Proceedings of the National Academy of Sciences of the United States of America. 108: 18020-5. PMID 21960440 DOI: 10.1073/Pnas.1114093108  0.777
2011 Milne CB, Eddy JA, Raju R, Ardekani S, Kim PJ, Senger RS, Jin YS, Blaschek HP, Price ND. Metabolic network reconstruction and genome-scale model of butanol-producing strain Clostridium beijerinckii NCIMB 8052. Bmc Systems Biology. 5: 130. PMID 21846360 DOI: 10.1186/1752-0509-5-130  0.669
2011 Li Q, Singh CR, Ma S, Price ND, Jagannath C. Label-free proteomics and systems biology analysis of mycobacterial phagosomes in dendritic cells and macrophages. Journal of Proteome Research. 10: 2425-39. PMID 21413810 DOI: 10.1021/Pr101245U  0.457
2011 Magis AT, Earls JC, Ko YH, Eddy JA, Price ND. Graphics processing unit implementations of relative expression analysis algorithms enable dramatic computational speedup. Bioinformatics (Oxford, England). 27: 872-3. PMID 21257608 DOI: 10.1093/Bioinformatics/Btr033  0.765
2011 Yan X, Ma L, Yi D, Yoon JG, Diercks A, Foltz G, Price ND, Hood LE, Tian Q. A CD133-related gene expression signature identifies an aggressive glioblastoma subtype with excessive mutations. Proceedings of the National Academy of Sciences of the United States of America. 108: 1591-6. PMID 21220328 DOI: 10.1073/Pnas.1018696108  0.473
2010 Ma S, Funk CC, Price ND. Systems approaches to molecular cancer diagnostics. Discovery Medicine. 10: 531-42. PMID 21189224  0.434
2010 Chandrasekaran S, Price ND. Probabilistic integrative modeling of genome-scale metabolic and regulatory networks in Escherichia coli and Mycobacterium tuberculosis. Proceedings of the National Academy of Sciences of the United States of America. 107: 17845-50. PMID 20876091 DOI: 10.1073/Pnas.1005139107  0.625
2010 Edelman LB, Eddy JA, Price ND. In silico models of cancer. Wiley Interdisciplinary Reviews. Systems Biology and Medicine. 2: 438-59. PMID 20836040 DOI: 10.1002/Wsbm.75  0.664
2010 Shi L, Campbell G, Jones WD, Campagne F, Wen Z, Walker SJ, Su Z, Chu TM, Goodsaid FM, Pusztai L, Shaughnessy JD, Oberthuer A, Thomas RS, Paules RS, Fielden M, ... ... Price ND, et al. The MicroArray Quality Control (MAQC)-II study of common practices for the development and validation of microarray-based predictive models. Nature Biotechnology. 28: 827-38. PMID 20676074 DOI: 10.1038/Nbt.1665  0.546
2010 Price ND, Lee SY. Editorial: Systems biology for biotech applications. Biotechnology Journal. 5: 636-7. PMID 20665637 DOI: 10.1002/Biot.201000216  0.398
2010 Yang J, Eddy JA, Pan Y, Hategan A, Tabus I, Wang Y, Cogdell D, Price ND, Pollock RE, Lazar AJ, Hunt KK, Trent JC, Zhang W. Integrated proteomics and genomics analysis reveals a novel mesenchymal to epithelial reverting transition in leiomyosarcoma through regulation of slug. Molecular & Cellular Proteomics : McP. 9: 2405-13. PMID 20651304 DOI: 10.1074/Mcp.M110.000240  0.621
2010 Eddy JA, Hood L, Price ND, Geman D. Identifying tightly regulated and variably expressed networks by Differential Rank Conservation (DIRAC). Plos Computational Biology. 6: e1000792. PMID 20523739 DOI: 10.1371/Journal.Pcbi.1000792  0.72
2010 Eddy JA, Sung J, Geman D, Price ND. Relative expression analysis for molecular cancer diagnosis and prognosis. Technology in Cancer Research & Treatment. 9: 149-59. PMID 20218737 DOI: 10.1177/153303461000900204  0.723
2010 Edelman LB, Chandrasekaran S, Price ND. Systems biology of embryogenesis. Reproduction, Fertility, and Development. 22: 98-105. PMID 20003850 DOI: 10.1071/Rd09215  0.526
2010 Ma S, Sung J, Wang Y, Price ND. Lung disease diagnosis from gene expression profiles Aiche Annual Meeting, Conference Proceedings 0.56
2009 Eddy JA, Geman D, Price ND. Relative expression analysis for identifying perturbed pathways. Conference Proceedings : ... Annual International Conference of the Ieee Engineering in Medicine and Biology Society. Ieee Engineering in Medicine and Biology Society. Annual Conference. 2009: 5456-9. PMID 19964680 DOI: 10.1109/IEMBS.2009.5334063  0.629
2009 Edelman LB, Toia G, Geman D, Zhang W, Price ND. Two-transcript gene expression classifiers in the diagnosis and prognosis of human diseases. Bmc Genomics. 10: 583. PMID 19961616 DOI: 10.1186/1471-2164-10-583  0.37
2009 Milne CB, Kim PJ, Eddy JA, Price ND. Accomplishments in genome-scale in silico modeling for industrial and medical biotechnology. Biotechnology Journal. 4: 1653-70. PMID 19946878 DOI: 10.1002/Biot.200900234  0.649
2009 Hwang D, Lee IY, Yoo H, Gehlenborg N, Cho JH, Petritis B, Baxter D, Pitstick R, Young R, Spicer D, Price ND, Hohmann JG, Dearmond SJ, Carlson GA, Hood LE. A systems approach to prion disease. Molecular Systems Biology. 5: 252. PMID 19308092 DOI: 10.1038/Msb.2009.10  0.505
2009 Price ND, Edelman LB, Lee I, Yoo H, Hwang D, Carlson G, Galas DJ, Heath JR, Hood L. Systems Biology and the Emergence of Systems Medicine Genomic and Personalized Medicine, Two-Vol Set. 74-85. DOI: 10.1016/B978-0-12-369420-1.00006-8  0.446
2008 Nykter M, Price ND, Aldana M, Ramsey SA, Kauffman SA, Hood LE, Yli-Harja O, Shmulevich I. Gene expression dynamics in the macrophage exhibit criticality. Proceedings of the National Academy of Sciences of the United States of America. 105: 1897-900. PMID 18250330 DOI: 10.1073/Pnas.0711525105  0.483
2008 Price ND, Foltz G, Madan A, Hood L, Tian Q. Systems biology and cancer stem cells. Journal of Cellular and Molecular Medicine. 12: 97-110. PMID 18031300 DOI: 10.1111/J.1582-4934.2007.00151.X  0.442
2008 Sung J, Price ND. Panel of gene-pair relative expression classifiers for stratifying various cancer and non-cancer diseases of the human brain Aiche Annual Meeting, Conference Proceedings 0.45
2008 Eddy JA, Geman D, Price ND. Pathway expression rank analysis (p-xray): A novel tool for gene set expression analysis Aiche Annual Meeting, Conference Proceedings 0.594
2007 Price ND, Shmulevich I. Biochemical and statistical network models for systems biology. Current Opinion in Biotechnology. 18: 365-70. PMID 17681779 DOI: 10.1016/J.Copbio.2007.07.009  0.341
2007 Price ND, Trent J, El-Naggar AK, Cogdell D, Taylor E, Hunt KK, Pollock RE, Hood L, Shmulevich I, Zhang W. Highly accurate two-gene classifier for differentiating gastrointestinal stromal tumors and leiomyosarcomas. Proceedings of the National Academy of Sciences of the United States of America. 104: 3414-9. PMID 17360660 DOI: 10.1073/Pnas.0611373104  0.491
2006 Gianchandani EP, Papin JA, Price ND, Joyce AR, Palsson BO. Matrix formalism to describe functional states of transcriptional regulatory systems. Plos Computational Biology. 2: e101. PMID 16895435 DOI: 10.1371/Journal.Pcbi.0020101  0.773
2006 Price ND, Thiele I, Palsson BØ. Candidate states of Helicobacter pylori's genome-scale metabolic network upon application of "loop law" thermodynamic constraints. Biophysical Journal. 90: 3919-28. PMID 16533855 DOI: 10.1529/Biophysj.105.072645  0.669
2006 Barrett CL, Price ND, Palsson BO. Network-level analysis of metabolic regulation in the human red blood cell using random sampling and singular value decomposition. Bmc Bioinformatics. 7: 132. PMID 16533395 DOI: 10.1186/1471-2105-7-132  0.546
2006 Becker SA, Price ND, Palsson BØ. Metabolite coupling in genome-scale metabolic networks. Bmc Bioinformatics. 7: 111. PMID 16519800 DOI: 10.1186/1471-2105-7-111  0.7
2006 Allen TE, Price ND, Joyce AR, Palsson BØ. Long-range periodic patterns in microbial genomes indicate significant multi-scale chromosomal organization. Plos Computational Biology. 2: e2. PMID 16410829 DOI: 10.1371/Journal.Pcbi.0020002  0.765
2006 Heath LM, Earls JC, Magis AT, Conomos MP, Rohwer JE, Hood L, Lovejoy JC, Price ND. P2-123: A PHENOME-WIDE ASSOCIATION STUDY (PHEWAS) OF BLOOD-BASED BIOLOGICAL MARKERS AND APOLIPOPROTEIN E GENOTYPE ACROSS THE ADULT LIFESPAN Alzheimer's & Dementia. 14: P716-P716. DOI: 10.1016/J.Jalz.2018.06.809  0.6
2006 Funk CC, Richards MA, Shannon P, Donovan-Maiye R, Rappaport N, Robinson M, Allen M, Carrasquillo MM, Chakrabarty P, McFarland K, Jung SC, Rodriguez A, Ertekin-Taner N, Golde TE, Hood L, ... ... Price ND, et al. O3-03-01: MECHANISTIC AND DIRECTIONAL TRANSCRIPTIONAL REGULATORY NETWORKS IN ALZHEIMER'S DISEASE Alzheimer's & Dementia. 14: P1014-P1015. DOI: 10.1016/J.Jalz.2018.06.2782  0.775
2005 Thiele I, Vo TD, Price ND, Palsson BØ. Expanded metabolic reconstruction of Helicobacter pylori (iIT341 GSM/GPR): an in silico genome-scale characterization of single- and double-deletion mutants. Journal of Bacteriology. 187: 5818-30. PMID 16077130 DOI: 10.1128/Jb.187.16.5818-5830.2005  0.77
2005 Thiele I, Price ND, Vo TD, Palsson BØ. Candidate metabolic network states in human mitochondria. Impact of diabetes, ischemia, and diet. The Journal of Biological Chemistry. 280: 11683-95. PMID 15572364 DOI: 10.1074/Jbc.M409072200  0.77
2004 Price ND, Reed JL, Palsson BØ. Genome-scale models of microbial cells: evaluating the consequences of constraints. Nature Reviews. Microbiology. 2: 886-97. PMID 15494745 DOI: 10.1038/Nrmicro1023  0.565
2004 Price ND, Schellenberger J, Palsson BO. Uniform sampling of steady-state flux spaces: means to design experiments and to interpret enzymopathies. Biophysical Journal. 87: 2172-86. PMID 15454420 DOI: 10.1529/Biophysj.104.043000  0.788
2004 Papin JA, Stelling J, Price ND, Klamt S, Schuster S, Palsson BO. Comparison of network-based pathway analysis methods. Trends in Biotechnology. 22: 400-5. PMID 15283984 DOI: 10.1016/J.Tibtech.2004.06.010  0.68
2004 Raghunathan A, Price ND, Galperin MY, Makarova KS, Purvine S, Picone AF, Cherny T, Xie T, Reilly TJ, Munson R, Tyler RE, Akerley BJ, Smith AL, Palsson BO, Kolker E. In Silico Metabolic Model and Protein Expression of Haemophilus influenzae Strain Rd KW20 in Rich Medium. Omics : a Journal of Integrative Biology. 8: 25-41. PMID 15107235 DOI: 10.1089/153623104773547471  0.499
2003 Price ND, Reed JL, Papin JA, Wiback SJ, Palsson BO. Network-based analysis of metabolic regulation in the human red blood cell. Journal of Theoretical Biology. 225: 185-94. PMID 14575652 DOI: 10.1016/S0022-5193(03)00237-6  0.8
2003 Papin JA, Price ND, Wiback SJ, Fell DA, Palsson BO. Metabolic pathways in the post-genome era. Trends in Biochemical Sciences. 28: 250-8. PMID 12765837 DOI: 10.1016/S0968-0004(03)00064-1  0.808
2003 Palsson BO, Price ND, Papin JA. Development of network-based pathway definitions: the need to analyze real metabolic networks. Trends in Biotechnology. 21: 195-8. PMID 12727379 DOI: 10.1016/S0167-7799(03)00080-5  0.658
2003 Price ND, Papin JA, Schilling CH, Palsson BO. Genome-scale microbial in silico models: the constraints-based approach. Trends in Biotechnology. 21: 162-9. PMID 12679064 DOI: 10.1016/S0167-7799(03)00030-1  0.765
2003 Price ND, Reed JL, Papin JA, Famili I, Palsson BO. Analysis of metabolic capabilities using singular value decomposition of extreme pathway matrices. Biophysical Journal. 84: 794-804. PMID 12547764 DOI: 10.1016/S0006-3495(03)74899-1  0.803
2002 Papin JA, Price ND, Palsson BØ. Extreme pathway lengths and reaction participation in genome-scale metabolic networks. Genome Research. 12: 1889-900. PMID 12466293 DOI: 10.1101/Gr.327702  0.663
2002 Price ND, Famili I, Beard DA, Palsson BØ. Extreme pathways and Kirchhoff's second law. Biophysical Journal. 83: 2879-82. PMID 12425318 DOI: 10.1016/S0006-3495(02)75297-1  0.796
2002 Papin JA, Price ND, Edwards JS, Palsson B BØ. The genome-scale metabolic extreme pathway structure in Haemophilus influenzae shows significant network redundancy. Journal of Theoretical Biology. 215: 67-82. PMID 12051985 DOI: 10.1006/Jtbi.2001.2499  0.716
2002 Price ND, Papin JA, Palsson BØ. Determination of redundancy and systems properties of the metabolic network of Helicobacter pylori using genome-scale extreme pathway analysis. Genome Research. 12: 760-9. PMID 11997342 DOI: 10.1101/Gr.218002  0.679
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