Publications

2018

 

Myhrvold C, Freije CA, Gootenberg JS, Abudayyeh OO, Metsky HC, Durbin AF, Kellner MJ, Tan AL, Paul LM, Parham LA, Garcia KF, Barnes KG, Chak B, Mondini A,  Nogueira ML, Isern S, Michael SF, Lorenzana I, Yozwiak NL, MacInnis BL, Bosch I,  Gehrke L, Zhang F, Sabeti PC. Field-deployable viral diagnostics using CRISPR-Cas13. Science. 2018 Apr 27;360(6387):444-448. doi: 10.1126/science.aas8836. PubMed PMID: 29700266.

 

Gootenberg JS, Abudayyeh OO, Kellner MJ, Joung J, Collins JJ, Zhang F. Multiplexed and portable nucleic acid detection platform with Cas13, Cas12a, and Csm6. Science. 2018 Apr 27;360(6387):439-444. doi: 10.1126/science.aaq0179. Epub  2018 Feb 15. PubMed PMID: 29449508; PubMed Central PMCID: PMC5961727.

 

Sharma A, Toepfer CN, Ward T, Wasson L, Agarwal R, Conner DA, Hu JH, Seidman CE. CRISPR/Cas9-Mediated Fluorescent Tagging of Endogenous Proteins in Human Pluripotent Stem Cells. Curr Protoc Hum Genet. 2018 Jan 24;96:21.11.1-21.11.20. doi: 10.1002/cphg.52. PubMed PMID: 29364519; PubMed Central PMCID: PMC5785097.

 

Short FL, Akusobi C, Broadhurst WR, Salmond GPC. The bacterial Type III toxin-antitoxin system, ToxIN, is a dynamic protein-RNA complex with stability-dependent antiviral abortive infection activity. Sci Rep. 2018 Jan 17;8(1):1013. doi: 10.1038/s41598-017-18696-x. PubMed PMID: 29343718; PubMed Central PMCID: PMC5772629.

 

Allsop SA, Wichmann R, Mills F, Burgos-Robles A, Chang CJ, Felix-Ortiz AC, Vienne A, Beyeler A, Izadmehr EM, Glober G, Cum MI, Stergiadou J, Anandalingam KK, Farris K, Namburi P, Leppla CA, Weddington JC, Nieh EH, Smith AC, Ba D, Brown EN, Tye KM. Corticoamygdala Transfer of Socially Derived Information Gates Observational Learning. Cell. 2018 May 31;173(6):1329-1342.e18. doi: 10.1016/j.cell.2018.04.004. Epub 2018 May 3. PubMed PMID: 29731170.

 

Zhang Y, Malem-Shinitski N, Allsop SA, M Tye K, Ba D. Estimating a Separably Markov Random Field from Binary Observations. Neural Comput. 2018 Apr;30(4):1046-1079. doi: 10.1162/neco_a_01059. Epub 2018 Jan 30. PubMed PMID: 29381446.

 

Pan J, Meyers RM, Michel BC, Mashtalir N, Sizemore AE, Wells JN, Cassel SH, Vazquez F, Weir BA, Hahn WC, Marsh JA, Tsherniak A, Kadoch C. Interrogation of

Mammalian Protein Complex Structure, Function, and Membership Using Genome-Scale  Fitness Screens. Cell Syst. 2018 May 23;6(5):555-568.e7. doi:

10.1016/j.cels.2018.04.011. Epub 2018 May 16. PubMed PMID: 29778836.

 

Brown JM, Campbell JP, Beers A, Chang K, Ostmo S, Chan RVP, Dy J, Erdogmus D, Ioannidis S, Kalpathy-Cramer J, Chiang MF; Imaging and Informatics in Retinopathy of Prematurity (i-ROP) Research Consortium. Automated Diagnosis of Plus Disease in Retinopathy of Prematurity Using Deep Convolutional Neural Networks. JAMA Ophthalmol. 2018 May 2. doi: 10.1001/jamaophthalmol.2018.1934. [Epub ahead of print] PubMed PMID: 29801159.

 

Chang K, Balachandar N, Lam C, Yi D, Brown J, Beers A, Rosen B, Rubin DL, Kalpathy-Cramer J. Distributed deep learning networks among institutions for

medical imaging. J Am Med Inform Assoc. 2018 Mar 29. doi: 10.1093/jamia/ocy017. [Epub ahead of print] PubMed PMID: 29617797.

 

Tang L, Deng L, Bai HX, Sun J, Neale N, Wu J, Wang Y, Chang K, Huang RY, Zhang PJ, Li X, Xiao B, Cao Y, Tao Y, Yang L. Reduced expression of DNA repair genes and chemosensitivity in 1p19q codeleted lower-grade gliomas. J Neurooncol. 2018 Jun 19. doi: 10.1007/s11060-018-2915-4. [Epub ahead of print] PubMed PMID: 29923053

 

Tyssowski KM, DeStefino NR, Cho JH, Dunn CJ, Poston RG, Carty CE, Jones RD, Chang SM, Romeo P, Wurzelmann MK, Ward JM, Andermann ML, Saha RN, Dudek SM, Gray  JM. Different Neuronal Activity Patterns Induce Different Gene Expression Programs. Neuron. 2018 May 2;98(3):530-546.e11. doi:

10.1016/j.neuron.2018.04.001. Epub 2018 Apr 19. PubMed PMID: 29681534; PubMed Central PMCID: PMC5934296.

 

Lima Queiroz A, Zhang B, Comstock DE, Hao Y, Eriksson M, Hydbring P, Vakifahmetoglu-Norberg H, Norberg E. miR-126-5p targets Malate Dehydrogenase 1 in non-small cell lung carcinomas. Biochem Biophys Res Commun. 2018 May 5;499(2):314-320. doi: 10.1016/j.bbrc.2018.03.154. Epub 2018 Mar 26. PubMed PMID: 29574159.

 

DiRisio AC, Muskens IS, Cote DJ, Babu M, Gormley WB, Smith TR, Moojen WA, Broekman ML. Oversight and Ethical Regulation of Conflicts of Interest in

Neurosurgery in the United States. Neurosurgery. 2018 May 30. doi: 10.1093/neuros/nyy227. [Epub ahead of print] PubMed PMID: 29850841.

 

Zaidi HA, Penn DL, Cote DJ, Laws ER Jr. Root cause analysis of diagnostic and  surgical failures in the treatment of suspected Cushing's disease. J Clin

Neurosci. 2018 Jul;53:153-159. doi: 10.1016/j.jocn.2018.04.055. Epub 2018 Apr 30. PubMed PMID: 29716804.

 

Martin E, Muskens IS, Senders JT, Cote DJ, Smith TR, Broekman MLD. A nationwide analysis of 30-day adverse events, unplanned readmission, and length

of hospital stay after peripheral nerve surgery in extremities and the brachial plexus. Microsurgery. 2018 Apr 15. doi: 10.1002/micr.30330. [Epub ahead of print]

PubMed PMID: 29656387.

 

Zaki MM, Cote DJ, Muskens IS, Smith TR, Broekman ML. Defining Innovation in Neurosurgery: Results from an International Survey. World Neurosurg. 2018

Jun;114:e1038-e1048. doi: 10.1016/j.wneu.2018.03.142. Epub 2018 Mar 29. PubMed PMID: 29604357.

 

Alotaibi NM, Noormohamed N, Cote DJ, Alharthi S, Doucette J, Zaidi HA, Mekary  RA, Smith TR. Physiologic Growth Hormone-Replacement Therapy and

Craniopharyngioma Recurrence in Pediatric Patients: A Meta-Analysis. World Neurosurg. 2018 Jan;109:487-496.e1. doi: 10.1016/j.wneu.2017.09.164. Epub 2017 Oct 4. Review. PubMed PMID: 28987837; PubMed Central PMCID: PMC5729106.

 

Senders JT, Goldhaber NH, Cote DJ, Muskens IS, Dawood HY, De Vos FYFL, Gormley WB, Smith TR, Broekman MLD. Venous thromboembolism and intracranial hemorrhage after craniotomy for primary malignant brain tumors: a National Surgical Quality  Improvement Program analysis. J Neurooncol. 2018 Jan;136(1):135-145. doi: 10.1007/s11060-017-2631-5. Epub 2017 Oct 16. PubMed PMID: 29039075; PubMed Central PMCID: PMC5754452.

 

Burke WT, Cote DJ, Iuliano SI, Zaidi HA, Laws ER. A practical method for prevention of readmission for symptomatic hyponatremia following transsphenoidal

surgery. Pituitary. 2018 Feb;21(1):25-31. doi: 10.1007/s11102-017-0843-5. PubMed  PMID: 29075986.

 

Almutairi RD, Muskens IS, Cote DJ, Dijkman MD, Kavouridis VK, Crocker E, Ghazawi K, Broekman MLD, Smith TR, Mekary RA, Zaidi HA. Gross total resection of  pituitary adenomas after endoscopic vs. microscopic transsphenoidal surgery: a meta-analysis. Acta Neurochir (Wien). 2018 Jan 6. doi: 10.1007/s00701-017-3438-z. [Epub ahead of print] Review. PubMed PMID: 29307020.

 

Altuwaijri N, Cote DJ, Lamba N, Albenayan W, Ren SP, Zaghloul I, Doucette J, Zaidi HA, Mekary RA, Smith TR. Headache Resolution After Rathke Cleft Cyst

Resection: A Meta-Analysis. World Neurosurg. 2018 Jan 5. pii: S1878-8750(18)30025-1. doi: 10.1016/j.wneu.2017.12.170. [Epub ahead of print]

PubMed PMID: 29309984.

 

Alreshidi M, Cote DJ, Dasenbrock HH, Acosta M, Can A, Doucette J, Simjian T, Hulou MM, Wheeler LA, Huang K, Zaidi HA, Du R, Aziz-Sultan MA, Mekary RA, Smith TR. Coiling Versus Microsurgical Clipping in the Treatment of Unruptured Middle Cerebral Artery Aneurysms: A Meta-Analysis. Neurosurgery. 2018 Feb 9. doi:

10.1093/neuros/nyx623. [Epub ahead of print] PubMed PMID: 29438551.

 

Senders JT, Muskens IS, Cote DJ, Goldhaber NH, Dawood HY, Gormley WB, Broekman MLD, Smith TR. Thirty-Day Outcomes After Craniotomy for Primary Malignant Brain Tumors: A National Surgical Quality Improvement Program Analysis. Neurosurgery. 2018 Feb 22. doi: 10.1093/neuros/nyy001. [Epub ahead of print] PubMed PMID: 29481613.

 

Tyssowski KM, DeStefino NR, Cho JH, Dunn CJ, Poston RG, Carty CE, Jones RD, Chang SM, Romeo P, Wurzelmann MK, Ward JM, Andermann ML, Saha RN, Dudek SM, Gray  JM. Different Neuronal Activity Patterns Induce Different Gene Expression Programs. Neuron. 2018 May 2;98(3):530-546.e11. doi: 10.1016/j.neuron.2018.04.001. Epub 2018 Apr 19. PubMed PMID: 29681534; PubMed Central PMCID: PMC5934296.

 

Fan X, Xie B, Zou J, Luo J, Qin Z, D'Gama AM, Shi J, Yi S, Yang Q, Wang J, Luo S, Chen S, Agrawal PB, Li Q, Shen Y. Novel ETFDH mutations in four cases of
riboflavin responsive multiple acyl-CoA dehydrogenase deficiency. Mol Genet Metab Rep. 2018 Jun 11;16:15-19. doi: 10.1016/j.ymgmr.2018.05.007. eCollection 2018 Sep. PubMed PMID: 29988809; PubMed Central PMCID: PMC6031868.

 

Ching T, Himmelstein DS, Beaulieu-Jones BK, Kalinin AA, Do BT, Way GP, Ferrero E, Agapow PM, Zietz M, Hoffman MM, Xie W, Rosen GL, Lengerich BJ, Israeli J,

Lanchantin J, Woloszynek S, Carpenter AE, Shrikumar A, Xu J, Cofer EM, Lavender CA, Turaga SC, Alexandari AM, Lu Z, Harris DJ, DeCaprio D, Qi Y, Kundaje A, Peng  Y, Wiley LK, Segler MHS, Boca SM, Swamidass SJ, Huang A, Gitter A, Greene CS. Opportunities and obstacles for deep learning in biology and medicine. J R Soc Interface. 2018 Apr;15(141). pii: 20170387. doi: 10.1098/rsif.2017.0387. Review.  PubMed PMID: 29618526; PubMed Central PMCID: PMC5938574.

 

Wutz A, Loonis R, Roy JE, Donoghue JA, Miller EK. Different Levels of Category Abstraction by Different Dynamics in Different Prefrontal Areas. Neuron. 2018 Feb

7;97(3):716-726.e8. doi: 10.1016/j.neuron.2018.01.009. Epub 2018 Jan 27. PubMed PMID: 29395915.

  

Drosu NC, Edelman ER, Housman DE. Could antiretrovirals be treating EBV in MS? A case report. Mult Scler Relat Disord. 2018 May;22:19-21. doi: 10.1016/j.msard.2018.02.029. Epub 2018 Feb 27. PubMed PMID: 29510325.

 

 Wolfe JM, Fadzen CM, Choo ZN, Holden RL, Yao M, Hanson GJ, Pentelute BL. Machine Learning To Predict Cell-Penetrating Peptides for Antisense Delivery. ACS Cent Sci. 2018 Apr 25;4(4):512-520. doi: 10.1021/acscentsci.8b00098. Epub 2018 Apr 5. PubMed PMID: 29721534; PubMed Central PMCID: PMC5920612.

 

Wolfe JM, Fadzen CM, Holden RL, Yao M, Hanson GJ, Pentelute BL. Perfluoroaryl  Bicyclic Cell-Penetrating Peptides for Delivery of Antisense Oligonucleotides.

Angew Chem Int Ed Engl. 2018 Apr 16;57(17):4756-4759. doi: 10.1002/anie.201801167. Epub 2018 Mar 14. PubMed PMID: 29479836.

 

Kalinich M, Haber DA. Cancer detection: Seeking signals in blood. Science. 2018 Feb 23;359(6378):866-867. doi: 10.1126/science.aas9102. PubMed PMID: 29472467.

 

Wang X, Raghavan A, Peters DT, Pashos EE, Rader DJ, Musunuru K. Interrogation  of the Atherosclerosis-Associated SORT1 (Sortilin 1) Locus With Primary Human

Hepatocytes, Induced Pluripotent Stem Cell-Hepatocytes, and Locus-Humanized Mice. Arterioscler Thromb Vasc Biol. 2018 Jan;38(1):76-82. doi:

10.1161/ATVBAHA.117.310103. Epub 2017 Nov 2. PubMed PMID: 29097363; PubMed Central PMCID: PMC5746470.