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Network controllability analysis of intracellular signalling reveals viruses are actively controlling molecular systems.

Ravindran V, Nacher JC, Akutsu T, Ishitsuka M, Osadcenco A, Sunitha V, Bagler G, Schwartz JM, Robertson DL.

Sci Rep. 2019 Feb 14;9(1):2066. doi: 10.1038/s41598-018-38224-9.


Septic arthritis of the hip and knee treated surgically in pediatric patients: Analysis of the Kids' Inpatient Database.

Tretiakov M, Cautela FS, Walker SE, Dekis JC, Beyer GA, Newman JM, Shah NV, Borrelli J, Shah ST, Gonzales AS 3rd, Cushman JM, Reilly JP, Schwartz JM, Scott CB, Hesham K.

J Orthop. 2019 Jan 4;16(1):97-100. doi: 10.1016/j.jor.2018.12.017. eCollection 2019 Jan-Feb.


Model for End-Stage Liver Disease and Sodium Velocity Predicts Overall Survival in Nonmetastatic Hepatocellular Carcinoma Patients.

Tang JY, Ohri N, Kabarriti R, Aparo S, Chuy J, Goel S, Schwartz JM, Kinkhabwala M, Kaubisch A, Guha C.

Can J Gastroenterol Hepatol. 2018 Nov 7;2018:5681979. doi: 10.1155/2018/5681979. eCollection 2018.


SkeletalVis: An exploration and meta-analysis data portal of cross-species skeletal transcriptomics data.

Soul J, Hardingham T, Boot-Handford R, Schwartz JM.

Bioinformatics. 2018 Nov 27. doi: 10.1093/bioinformatics/bty947. [Epub ahead of print]


Calcium activated nucleotidase 1 (CANT1) is critical for glycosaminoglycan biosynthesis in cartilage and endochondral ossification.

Paganini C, Monti L, Costantini R, Besio R, Lecci S, Biggiogera M, Tian K, Schwartz JM, Huber C, Cormier-Daire V, Gibson BG, Pirog KA, Forlino A, Rossi A.

Matrix Biol. 2018 Nov 12. pii: S0945-053X(18)30397-4. doi: 10.1016/j.matbio.2018.11.002. [Epub ahead of print]


Effect of IAPP on the proteome of cultured Rin-5F cells.

Miraee-Nedjad S, Sims PFG, Schwartz JM, Doig AJ.

BMC Biochem. 2018 Nov 12;19(1):9. doi: 10.1186/s12858-018-0099-3.


Anesthetic considerations for magnetic resonance imaging-guided right-heart catheterization in pediatric patients: A single institution experience.

Deutsch N, Swink J, Matisoff AJ, Olivieri LJ, Cross RR, Waberski AT, Unegbu C, Cronin IF, Kanter JP, Schwartz JM.

Paediatr Anaesth. 2019 Jan;29(1):8-15. doi: 10.1111/pan.13512. Epub 2018 Oct 29.


Using set theory to reduce redundancy in pathway sets.

Stoney RA, Schwartz JM, Robertson DL, Nenadic G.

BMC Bioinformatics. 2018 Oct 19;19(1):386. doi: 10.1186/s12859-018-2355-3.


p53 modeling as a route to mesothelioma patients stratification and novel therapeutic identification.

Tian K, Bakker E, Hussain M, Guazzelli A, Alhebshi H, Meysami P, Demonacos C, Schwartz JM, Mutti L, Krstic-Demonacos M.

J Transl Med. 2018 Oct 13;16(1):282. doi: 10.1186/s12967-018-1650-0.


Modeling Rho GTPase Dynamics Using Boolean Logic.

Hetmanski JHR, Schwartz JM, Caswell PT.

Methods Mol Biol. 2018;1821:37-46. doi: 10.1007/978-1-4939-8612-5_3.


A Suspect Screening Method for Characterizing Multiple Chemical Exposures among a Demographically Diverse Population of Pregnant Women in San Francisco.

Wang A, Gerona RR, Schwartz JM, Lin T, Sirota M, Morello-Frosch R, Woodruff TJ.

Environ Health Perspect. 2018 Jul 24;126(7):077009. doi: 10.1289/EHP2920. eCollection 2018 Jul.


Comparison of Pediatric Cardiopulmonary Resuscitation Quality in Classic Cardiopulmonary Resuscitation and Extracorporeal Cardiopulmonary Resuscitation Events Using Video Review.

Taeb M, Levin AB, Spaeder MC, Schwartz JM.

Pediatr Crit Care Med. 2018 Sep;19(9):831-838. doi: 10.1097/PCC.0000000000001644.


Mapping biological process relationships and disease perturbations within a pathway network.

Stoney R, Robertson DL, Nenadic G, Schwartz JM.

NPJ Syst Biol Appl. 2018 Jun 11;4:22. doi: 10.1038/s41540-018-0055-2. eCollection 2018.


Neurologic Outcomes After Extracorporeal Membrane Oxygenation: A Systematic Review.

Boyle K, Felling R, Yiu A, Battarjee W, Schwartz JM, Salorio C, Bembea MM.

Pediatr Crit Care Med. 2018 Aug;19(8):760-766. doi: 10.1097/PCC.0000000000001612.


Is the Use of Cricoid Pressure During PICU Intubations a Matter of Perspective or Training?

Schwartz JM, McCloskey JJ, Shaffner DH.

Pediatr Crit Care Med. 2018 Jun;19(6):583-584. doi: 10.1097/PCC.0000000000001560. No abstract available.


Regulation of dual specificity phosphatases in breast cancer during initial treatment with Herceptin: a Boolean model analysis.

Buiga P, Elson A, Tabernero L, Schwartz JM.

BMC Syst Biol. 2018 Apr 11;12(Suppl 1):11. doi: 10.1186/s12918-018-0534-5.


When Is it Best to "BURP"?

McCloskey JJ, Schwartz JM, Shaffner DH.

Pediatr Crit Care Med. 2018 Feb;19(2):162-163. doi: 10.1097/PCC.0000000000001389. No abstract available.


Stratification of knee osteoarthritis: two major patient subgroups identified by genome-wide expression analysis of articular cartilage.

Soul J, Dunn SL, Anand S, Serracino-Inglott F, Schwartz JM, Boot-Handford RP, Hardingham TE.

Ann Rheum Dis. 2018 Mar;77(3):423. doi: 10.1136/annrheumdis-2017-212603. Epub 2017 Dec 22. Erratum in: Ann Rheum Dis. 2018 Apr 19;:.


Insight into glucocorticoid receptor signalling through interactome model analysis.

Bakker E, Tian K, Mutti L, Demonacos C, Schwartz JM, Krstic-Demonacos M.

PLoS Comput Biol. 2017 Nov 6;13(11):e1005825. doi: 10.1371/journal.pcbi.1005825. eCollection 2017 Nov.


Suspect screening of maternal serum to identify new environmental chemical biomonitoring targets using liquid chromatography-quadrupole time-of-flight mass spectrometry.

Gerona RR, Schwartz JM, Pan J, Friesen MM, Lin T, Woodruff TJ.

J Expo Sci Environ Epidemiol. 2018 Mar;28(2):101-108. doi: 10.1038/jes.2017.28. Epub 2017 Oct 11.


Cyclic decomposition explains a photosynthetic down regulation for Chlamydomonas reinhardtii.

Chapman SP, Trindade Dos Santos M, Johnson GN, Kritz MV, Schwartz JM.

Biosystems. 2017 Dec;162:119-127. doi: 10.1016/j.biosystems.2017.09.014. Epub 2017 Sep 29.


Differential regulation of cell death pathways by the microenvironment correlates with chemoresistance and survival in leukaemia.

Qattan MY, Bakker EY, Rajendran R, Chen DW, Saha V, Liu J, Zeef L, Schwartz JM, Mutti L, Demonacos C, Krstic-Demonacos M.

PLoS One. 2017 Jun 5;12(6):e0178606. doi: 10.1371/journal.pone.0178606. eCollection 2017.


The chaperone activity of 4PBA ameliorates the skeletal phenotype of Chihuahua, a zebrafish model for dominant osteogenesis imperfecta.

Gioia R, Tonelli F, Ceppi I, Biggiogera M, Leikin S, Fisher S, Tenedini E, Yorgan TA, Schinke T, Tian K, Schwartz JM, Forte F, Wagener R, Villani S, Rossi A, Forlino A.

Hum Mol Genet. 2017 Aug 1;26(15):2897-2911. doi: 10.1093/hmg/ddx171.


Video Laryngoscopy: What We Can See and What We Cannot.

Schwartz JM, McCloskey JJ, Shaffner DH.

Pediatr Crit Care Med. 2017 May;18(5):491-492. doi: 10.1097/PCC.0000000000001141. No abstract available.


A quantitative brain map of experimental cerebral malaria pathology.

Strangward P, Haley MJ, Shaw TN, Schwartz JM, Greig R, Mironov A, de Souza JB, Cruickshank SM, Craig AG, Milner DA Jr, Allan SM, Couper KN.

PLoS Pathog. 2017 Mar 8;13(3):e1006267. doi: 10.1371/journal.ppat.1006267. eCollection 2017 Mar.


Modelling GTPase dynamics to understand RhoA-driven cancer cell invasion.

Hetmanski JH, Schwartz JM, Caswell PT.

Biochem Soc Trans. 2016 Dec 15;44(6):1695-1700.


Environmental Chemicals in an Urban Population of Pregnant Women and Their Newborns from San Francisco.

Morello-Frosch R, Cushing LJ, Jesdale BM, Schwartz JM, Guo W, Guo T, Wang M, Harwani S, Petropoulou SE, Duong W, Park JS, Petreas M, Gajek R, Alvaran J, She J, Dobraca D, Das R, Woodruff TJ.

Environ Sci Technol. 2016 Nov 15;50(22):12464-12472. Epub 2016 Oct 26.


Rationalizing Rac1 and RhoA GTPase signaling: A mathematical approach.

Hetmanski JHR, Schwartz JM, Caswell PT.

Small GTPases. 2018 May 4;9(3):224-229. doi: 10.1080/21541248.2016.1218406. Epub 2016 Aug 30.


PhenomeScape: a cytoscape app to identify differentially regulated sub-networks using known disease associations.

Soul J, Dunn SL, Hardingham TE, Boot-Handford RP, Schwartz JM.

Bioinformatics. 2016 Dec 15;32(24):3847-3849. Epub 2016 Aug 24.


A MAPK-Driven Feedback Loop Suppresses Rac Activity to Promote RhoA-Driven Cancer Cell Invasion.

Hetmanski JH, Zindy E, Schwartz JM, Caswell PT.

PLoS Comput Biol. 2016 May 3;12(5):e1004909. doi: 10.1371/journal.pcbi.1004909. eCollection 2016 May.


Corrigendum: Flux balance analysis reveals acetate metabolism modulates cyclic electron flow and alternative glycolytic pathways in Chlamydomonas reinhardtii.

Chapman SP, Paget CM, Johnson GN, Schwartz JM.

Front Plant Sci. 2016 Mar 22;7:362. doi: 10.3389/fpls.2016.00362. eCollection 2016.


Gene expression changes in damaged osteoarthritic cartilage identify a signature of non-chondrogenic and mechanical responses.

Dunn SL, Soul J, Anand S, Schwartz JM, Boot-Handford RP, Hardingham TE.

Osteoarthritis Cartilage. 2016 Aug;24(8):1431-40. doi: 10.1016/j.joca.2016.03.007. Epub 2016 Mar 10.


Can Telemedicine Improve Adherence to Resuscitation Guidelines for Critically Ill Children at Community Hospitals? A Randomized Controlled Trial Using High-Fidelity Simulation.

Yang CP, Hunt EA, Shilkofski N, Dudas R, Egbuta C, Schwartz JM.

Pediatr Emerg Care. 2017 Jul;33(7):474-479. doi: 10.1097/PEC.0000000000000653.


Constructing a molecular interaction network for thyroid cancer via large-scale text mining of gene and pathway events.

Wu C, Schwartz JM, Brabant G, Peng SL, Nenadic G.

BMC Syst Biol. 2015;9 Suppl 6:S5. doi: 10.1186/1752-0509-9-S6-S5. Epub 2015 Dec 9.


Disentangling the multigenic and pleiotropic nature of molecular function.

Stoney RA, Ames RM, Nenadic G, Robertson DL, Schwartz JM.

BMC Syst Biol. 2015;9 Suppl 6:S3. doi: 10.1186/1752-0509-9-S6-S3. Epub 2015 Dec 9.


Metabolic flux prediction in cancer cells with altered substrate uptake.

Schwartz JM, Barber M, Soons Z.

Biochem Soc Trans. 2015 Dec;43(6):1177-81. doi: 10.1042/BST20150149. Review.


Early Perioperative Management After Pediatric Cardiac Surgery: Review at PCICS 2014.

Bastero P, DiNardo JA, Pratap JN, Schwartz JM, Sivarajan VB.

World J Pediatr Congenit Heart Surg. 2015 Oct;6(4):565-74. doi: 10.1177/2150135115601830. Review.


Risk assessment and anesthetic management of patients with Williams syndrome: a comprehensive review.

Matisoff AJ, Olivieri L, Schwartz JM, Deutsch N.

Paediatr Anaesth. 2015 Dec;25(12):1207-15. doi: 10.1111/pan.12775. Epub 2015 Oct 12. Review.


Flux balance analysis reveals acetate metabolism modulates cyclic electron flow and alternative glycolytic pathways in Chlamydomonas reinhardtii.

Chapman SP, Paget CM, Johnson GN, Schwartz JM.

Front Plant Sci. 2015 Jun 30;6:474. doi: 10.3389/fpls.2015.00474. eCollection 2015. Erratum in: Front Plant Sci. 2016;7:362.


Subtalar Joint Distraction Arthrodesis to Correct Calcaneal Valgus in Pediatric Patients with Tarsal Coalition: A Case Series.

Schwartz JM, Kihm CA, Camasta CA.

J Foot Ankle Surg. 2015 Nov-Dec;54(6):1151-7. doi: 10.1053/j.jfas.2014.09.036. Epub 2015 Feb 19.


Quantitative proteomics and network analysis of SSA1 and SSB1 deletion mutants reveals robustness of chaperone HSP70 network in Saccharomyces cerevisiae.

Jarnuczak AF, Eyers CE, Schwartz JM, Grant CM, Hubbard SJ.

Proteomics. 2015 Sep;15(18):3126-39. doi: 10.1002/pmic.201400527. Epub 2015 Apr 10.


PhenomeExpress: a refined network analysis of expression datasets by inclusion of known disease phenotypes.

Soul J, Hardingham TE, Boot-Handford RP, Schwartz JM.

Sci Rep. 2015 Jan 29;5:8117. doi: 10.1038/srep08117.


Molecular profiling of thyroid cancer subtypes using large-scale text mining.

Wu C, Schwartz JM, Brabant G, Nenadic G.

BMC Med Genomics. 2014;7 Suppl 3:S3. doi: 10.1186/1755-8794-7-S3-S3. Epub 2014 Dec 8.


A logical model of HIV-1 interactions with the T-cell activation signalling pathway.

Oyeyemi OJ, Davies O, Robertson DL, Schwartz JM.

Bioinformatics. 2015 Apr 1;31(7):1075-83. doi: 10.1093/bioinformatics/btu787. Epub 2014 Nov 26.


Acute Renal and Hepatic Failure in an Adolescent: An Unusual Presentation of Multiple Aortic Aneurysms.

Wadia RS, Schwartz JM, Kudchadkar SR.

Pediatr Emerg Care. 2015 Sep;31(9):649-51. doi: 10.1097/PEC.0000000000000256.


Environmental systems biology of cold-tolerant phenotype in Saccharomyces species adapted to grow at different temperatures.

Paget CM, Schwartz JM, Delneri D.

Mol Ecol. 2014 Nov;23(21):5241-57. doi: 10.1111/mec.12930.


A simple technique for repair of chronic tendinopathy.

Schwartz JM, Giakoumis M, Banks AS.

J Foot Ankle Surg. 2015 Jan-Feb;54(1):143-4. doi: 10.1053/j.jfas.2014.04.013. Epub 2014 Sep 13.


An assessment of an automated EEG biofeedback system for attention deficits in a substance use disorders residential treatment setting.

Keith JR, Rapgay L, Theodore D, Schwartz JM, Ross JL.

Psychol Addict Behav. 2015 Mar;29(1):17-25. doi: 10.1037/adb0000016. Epub 2014 Sep 1.


Survival analysis of Hispanics in a cohort of patients with hepatocellular carcinoma.

Aparo S, Goel S, Lin D, Ohri N, Schwartz JM, Lo Y, Kaubisch A.

Cancer. 2014 Dec 1;120(23):3683-90. doi: 10.1002/cncr.28867. Epub 2014 Jul 31.

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