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Respiratory resetting elicited by single pulse spinal stimulation.

Sunshine MD, Ganji CN, Fuller DD, Moritz CT.

Respir Physiol Neurobiol. 2019 Nov 14:103339. doi: 10.1016/j.resp.2019.103339. [Epub ahead of print]


AAV Gene Therapy Utilizing Glycosylation-Independent Lysosomal Targeting Tagged GAA in the Hypoglossal Motor System of Pompe Mice.

Doyle BM, Turner SMF, Sunshine MD, Doerfler PA, Poirier AE, Vaught LA, Jorgensen ML, Falk DJ, Byrne BJ, Fuller DD.

Mol Ther Methods Clin Dev. 2019 Aug 31;15:194-203. doi: 10.1016/j.omtm.2019.08.009. eCollection 2019 Dec 13.


Mid-cervical interneuron networks following high cervical spinal cord injury.

Streeter KA, Sunshine MD, Patel SR, Gonzalez-Rothi EJ, Reier PJ, Baekey DM, Fuller DD.

Respir Physiol Neurobiol. 2019 Sep 22;271:103305. doi: 10.1016/j.resp.2019.103305. [Epub ahead of print]


RNA Sequencing of the NCI-60: Integration into CellMiner and CellMiner CDB.

Reinhold WC, Varma S, Sunshine M, Elloumi F, Ofori-Atta K, Lee S, Trepel JB, Meltzer PS, Doroshow JH, Pommier Y.

Cancer Res. 2019 Jul 1;79(13):3514-3524. doi: 10.1158/0008-5472.CAN-18-2047. Epub 2019 May 21.


CellMinerCDB for Integrative Cross-Database Genomics and Pharmacogenomics Analyses of Cancer Cell Lines.

Rajapakse VN, Luna A, Yamade M, Loman L, Varma S, Sunshine M, Iorio F, Sousa FG, Elloumi F, Aladjem MI, Thomas A, Sander C, Kohn KW, Benes CH, Garnett M, Reinhold WC, Pommier Y.

iScience. 2018 Dec 21;10:247-264. doi: 10.1016/j.isci.2018.11.029. Epub 2018 Dec 12.


Optogenetic surface stimulation of the rat cervical spinal cord.

Mondello SE, Sunshine MD, Fischedick AE, Dreyer SJ, Horwitz GD, Anikeeva P, Horner PJ, Moritz CT.

J Neurophysiol. 2018 Aug 1;120(2):795-811. doi: 10.1152/jn.00461.2017. Epub 2018 May 2.


Intraspinal microstimulation for respiratory muscle activation.

Sunshine MD, Ganji CN, Reier PJ, Fuller DD, Moritz CT.

Exp Neurol. 2018 Apr;302:93-103. doi: 10.1016/j.expneurol.2017.12.014. Epub 2018 Jan 2.


Chromatin status and transcription factor binding to gonadotropin promoters in gonadotrope cell lines.

Xie H, Hoffmann HM, Iyer AK, Brayman MJ, Ngo C, Sunshine MJ, Mellon PL.

Reprod Biol Endocrinol. 2017 Oct 24;15(1):86. doi: 10.1186/s12958-017-0304-z.


Anatomy and physiology of phrenic afferent neurons.

Nair J, Streeter KA, Turner SMF, Sunshine MD, Bolser DC, Fox EJ, Davenport PW, Fuller DD.

J Neurophysiol. 2017 Dec 1;118(6):2975-2990. doi: 10.1152/jn.00484.2017. Epub 2017 Aug 23. Review.


Intermittent Hypoxia Enhances Functional Connectivity of Midcervical Spinal Interneurons.

Streeter KA, Sunshine MD, Patel S, Gonzalez-Rothi EJ, Reier PJ, Baekey DM, Fuller DD.

J Neurosci. 2017 Aug 30;37(35):8349-8362. doi: 10.1523/JNEUROSCI.0992-17.2017. Epub 2017 Jul 27.


Coupling multielectrode array recordings with silver labeling of recording sites to study cervical spinal network connectivity.

Streeter KA, Sunshine MD, Patel SR, Liddell SS, Denholtz LE, Reier PJ, Fuller DD, Baekey DM.

J Neurophysiol. 2017 Mar 1;117(3):1014-1029. doi: 10.1152/jn.00638.2016. Epub 2016 Dec 14.


The NCI-60 Methylome and Its Integration into CellMiner.

Reinhold WC, Varma S, Sunshine M, Rajapakse V, Luna A, Kohn KW, Stevenson H, Wang Y, Heyn H, Nogales V, Moran S, Goldstein DJ, Doroshow JH, Meltzer PS, Esteller M, Pommier Y.

Cancer Res. 2017 Feb 1;77(3):601-612. doi: 10.1158/0008-5472.CAN-16-0655. Epub 2016 Dec 6.


Using CellMiner 1.6 for Systems Pharmacology and Genomic Analysis of the NCI-60.

Reinhold WC, Sunshine M, Varma S, Doroshow JH, Pommier Y.

Clin Cancer Res. 2015 Sep 1;21(17):3841-52. doi: 10.1158/1078-0432.CCR-15-0335. Epub 2015 Jun 5. Review.


A Cervical Hemi-Contusion Spinal Cord Injury Model for the Investigation of Novel Therapeutics Targeting Proximal and Distal Forelimb Functional Recovery.

Mondello SE, Sunshine MD, Fischedick AE, Moritz CT, Horner PJ.

J Neurotrauma. 2015 Dec 15;32(24):1994-2007. doi: 10.1089/neu.2014.3792. Epub 2015 Sep 29.


NCI-60 whole exome sequencing and pharmacological CellMiner analyses.

Reinhold WC, Varma S, Sousa F, Sunshine M, Abaan OD, Davis SR, Reinhold SW, Kohn KW, Morris J, Meltzer PS, Doroshow JH, Pommier Y.

PLoS One. 2014 Jul 17;9(7):e101670. doi: 10.1371/journal.pone.0101670. eCollection 2014.


High resolution copy number variation data in the NCI-60 cancer cell lines from whole genome microarrays accessible through CellMiner.

Varma S, Pommier Y, Sunshine M, Weinstein JN, Reinhold WC.

PLoS One. 2014 Mar 26;9(3):e92047. doi: 10.1371/journal.pone.0092047. eCollection 2014.


Therapeutic intraspinal microstimulation improves forelimb function after cervical contusion injury.

Kasten MR, Sunshine MD, Secrist ES, Horner PJ, Moritz CT.

J Neural Eng. 2013 Aug;10(4):044001. doi: 10.1088/1741-2560/10/4/044001. Epub 2013 May 28.


Cervical intraspinal microstimulation evokes robust forelimb movements before and after injury.

Sunshine MD, Cho FS, Lockwood DR, Fechko AS, Kasten MR, Moritz CT.

J Neural Eng. 2013 Jun;10(3):036001. doi: 10.1088/1741-2560/10/3/036001. Epub 2013 Apr 3.


CellMiner: a web-based suite of genomic and pharmacologic tools to explore transcript and drug patterns in the NCI-60 cell line set.

Reinhold WC, Sunshine M, Liu H, Varma S, Kohn KW, Morris J, Doroshow J, Pommier Y.

Cancer Res. 2012 Jul 15;72(14):3499-511. doi: 10.1158/0008-5472.CAN-12-1370.


Gene expression profiles of the NCI-60 human tumor cell lines define molecular interaction networks governing cell migration processes.

Kohn KW, Zeeberg BR, Reinhold WC, Sunshine M, Luna A, Pommier Y.

PLoS One. 2012;7(5):e35716. doi: 10.1371/journal.pone.0035716. Epub 2012 May 3.


PathVisio-MIM: PathVisio plugin for creating and editing Molecular Interaction Maps (MIMs).

Luna A, Sunshine ML, van Iersel MP, Aladjem MI, Kohn KW.

Bioinformatics. 2011 Aug 1;27(15):2165-6. doi: 10.1093/bioinformatics/btr336. Epub 2011 Jun 2.


A formal MIM specification and tools for the common exchange of MIM diagrams: an XML-Based format, an API, and a validation method.

Luna A, Karac EI, Sunshine M, Chang L, Nussinov R, Aladjem MI, Kohn KW.

BMC Bioinformatics. 2011 May 17;12:167. doi: 10.1186/1471-2105-12-167.


The BioPAX community standard for pathway data sharing.

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 AC, Mi H, Pichler E, Rodchenkov I, Splendiani A, Tkachev S, Zucker J, Gopinath G, Rajasimha H, Ramakrishnan R, Shah I, Syed M, Anwar N, Babur O, Blinov M, Brauner E, Corwin D, Donaldson S, Gibbons F, Goldberg R, Hornbeck P, Luna A, Murray-Rust P, Neumann E, Ruebenacker O, Samwald M, van Iersel M, Wimalaratne S, Allen K, Braun B, Whirl-Carrillo M, Cheung KH, Dahlquist K, Finney A, Gillespie M, Glass E, Gong L, Haw R, Honig M, Hubaut O, Kane D, Krupa S, Kutmon M, Leonard J, Marks D, Merberg D, Petri V, Pico A, Ravenscroft D, Ren L, Shah N, Sunshine M, Tang R, Whaley R, Letovksy S, Buetow KH, Rzhetsky A, Schachter V, Sobral BS, Dogrusoz U, McWeeney S, Aladjem M, Birney E, Collado-Vides J, Goto S, Hucka M, Le Novère N, Maltsev N, Pandey A, Thomas P, Wingender E, Karp PD, Sander C, Bader GD.

Nat Biotechnol. 2010 Sep;28(9):935-42. doi: 10.1038/nbt.1666. Epub 2010 Sep 9. Erratum in: Nat Biotechnol. 2010 Dec;28(12):1308. Nat Biotechnol. 2012 Apr;30(4):365. Reubenacker, Oliver [corrected to Ruebenacker, Oliver].


CellMiner: a relational database and query tool for the NCI-60 cancer cell lines.

Shankavaram UT, Varma S, Kane D, Sunshine M, Chary KK, Reinhold WC, Pommier Y, Weinstein JN.

BMC Genomics. 2009 Jun 23;10:277. doi: 10.1186/1471-2164-10-277.


A novel chemokine receptor for SDF-1 and I-TAC involved in cell survival, cell adhesion, and tumor development.

Burns JM, Summers BC, Wang Y, Melikian A, Berahovich R, Miao Z, Penfold ME, Sunshine MJ, Littman DR, Kuo CJ, Wei K, McMaster BE, Wright K, Howard MC, Schall TJ.

J Exp Med. 2006 Sep 4;203(9):2201-13. Epub 2006 Aug 28.


AbMiner: a bioinformatic resource on available monoclonal antibodies and corresponding gene identifiers for genomic, proteomic, and immunologic studies.

Major SM, Nishizuka S, Morita D, Rowland R, Sunshine M, Shankavaram U, Washburn F, Asin D, Kouros-Mehr H, Kane D, Weinstein JN.

BMC Bioinformatics. 2006 Apr 6;7:192.


High-Throughput GoMiner, an 'industrial-strength' integrative gene ontology tool for interpretation of multiple-microarray experiments, with application to studies of Common Variable Immune Deficiency (CVID).

Zeeberg BR, Qin H, Narasimhan S, Sunshine M, Cao H, Kane DW, Reimers M, Stephens RM, Bryant D, Burt SK, Elnekave E, Hari DM, Wynn TA, Cunningham-Rundles C, Stewart DM, Nelson D, Weinstein JN.

BMC Bioinformatics. 2005 Jul 5;6:168.


The role of CXCR4 in maintaining peripheral B cell compartments and humoral immunity.

Nie Y, Waite J, Brewer F, Sunshine MJ, Littman DR, Zou YR.

J Exp Med. 2004 Nov 1;200(9):1145-56.


PKC-theta knockout mice are protected from fat-induced insulin resistance.

Kim JK, Fillmore JJ, Sunshine MJ, Albrecht B, Higashimori T, Kim DW, Liu ZX, Soos TJ, Cline GW, O'Brien WR, Littman DR, Shulman GI.

J Clin Invest. 2004 Sep;114(6):823-7.


An essential function for the nuclear receptor RORgamma(t) in the generation of fetal lymphoid tissue inducer cells.

Eberl G, Marmon S, Sunshine MJ, Rennert PD, Choi Y, Littman DR.

Nat Immunol. 2004 Jan;5(1):64-73. Epub 2003 Dec 21.


The chemokine SDF1/CXCL12 and its receptor CXCR4 regulate mouse germ cell migration and survival.

Molyneaux KA, Zinszner H, Kunwar PS, Schaible K, Stebler J, Sunshine MJ, O'Brien W, Raz E, Littman D, Wylie C, Lehmann R.

Development. 2003 Sep;130(18):4279-86.


Requirement for CARMA1 in antigen receptor-induced NF-kappa B activation and lymphocyte proliferation.

Egawa T, Albrecht B, Favier B, Sunshine MJ, Mirchandani K, O'Brien W, Thome M, Littman DR.

Curr Biol. 2003 Jul 15;13(14):1252-8.


The chemokine stromal cell-derived factor-1 promotes the survival of embryonic retinal ganglion cells.

Chalasani SH, Baribaud F, Coughlan CM, Sunshine MJ, Lee VM, Doms RW, Littman DR, Raper JA.

J Neurosci. 2003 Jun 1;23(11):4601-12.


GoMiner: a resource for biological interpretation of genomic and proteomic data.

Zeeberg BR, Feng W, Wang G, Wang MD, Fojo AT, Sunshine M, Narasimhan S, Kane DW, Reinhold WC, Lababidi S, Bussey KJ, Riss J, Barrett JC, Weinstein JN.

Genome Biol. 2003;4(4):R28. Epub 2003 Mar 25.


MatchMiner: a tool for batch navigation among gene and gene product identifiers.

Bussey KJ, Kane D, Sunshine M, Narasimhan S, Nishizuka S, Reinhold WC, Zeeberg B, Ajay W, Weinstein JN.

Genome Biol. 2003;4(4):R27. Epub 2003 Mar 25.


A chemokine, SDF-1, reduces the effectiveness of multiple axonal repellents and is required for normal axon pathfinding.

Chalasani SH, Sabelko KA, Sunshine MJ, Littman DR, Raper JA.

J Neurosci. 2003 Feb 15;23(4):1360-71.


Differential requirements for Runx proteins in CD4 repression and epigenetic silencing during T lymphocyte development.

Taniuchi I, Osato M, Egawa T, Sunshine MJ, Bae SC, Komori T, Ito Y, Littman DR.

Cell. 2002 Nov 27;111(5):621-33.


Evidence for distinct CD4 silencer functions at different stages of thymocyte differentiation.

Taniuchi I, Sunshine MJ, Festenstein R, Littman DR.

Mol Cell. 2002 Nov;10(5):1083-96.


Combined deletion of CD8 locus cis-regulatory elements affects initiation but not maintenance of CD8 expression.

Ellmeier W, Sunshine MJ, Maschek R, Littman DR.

Immunity. 2002 May;16(5):623-34.


Hyper immunoglobulin E response in mice with monoclonal populations of B and T lymphocytes.

Curotto de Lafaille MA, Muriglan S, Sunshine MJ, Lei Y, Kutchukhidze N, Furtado GC, Wensky AK, Olivares-Villagómez D, Lafaille JJ.

J Exp Med. 2001 Nov 5;194(9):1349-59.


Epigenetic silencing of CD4 in T cells committed to the cytotoxic lineage.

Zou YR, Sunshine MJ, Taniuchi I, Hatam F, Killeen N, Littman DR.

Nat Genet. 2001 Nov;29(3):332-6.


Control of interneuron fate in the developing spinal cord by the progenitor homeodomain protein Dbx1.

Pierani A, Moran-Rivard L, Sunshine MJ, Littman DR, Goulding M, Jessell TM.

Neuron. 2001 Feb;29(2):367-84.


Role of the nuclear hormone receptor ROR gamma in transcriptional regulation, thymocyte survival, and lymphoid organogenesis.

Littman DR, Sun Z, Unutmaz D, Sunshine MJ, Petrie HT, Zou YR.

Cold Spring Harb Symp Quant Biol. 1999;64:373-81. Review. No abstract available.


Severe B cell deficiency in mice lacking the tec kinase family members Tec and Btk.

Ellmeier W, Jung S, Sunshine MJ, Hatam F, Xu Y, Baltimore D, Mano H, Littman DR.

J Exp Med. 2000 Dec 4;192(11):1611-24.


The primate lentiviral receptor Bonzo/STRL33 is coordinately regulated with CCR5 and its expression pattern is conserved between human and mouse.

Unutmaz D, Xiang W, Sunshine MJ, Campbell J, Butcher E, Littman DR.

J Immunol. 2000 Sep 15;165(6):3284-92.


Requirement for RORgamma in thymocyte survival and lymphoid organ development.

Sun Z, Unutmaz D, Zou YR, Sunshine MJ, Pierani A, Brenner-Morton S, Mebius RE, Littman DR.

Science. 2000 Jun 30;288(5475):2369-73.


Analysis of fractalkine receptor CX(3)CR1 function by targeted deletion and green fluorescent protein reporter gene insertion.

Jung S, Aliberti J, Graemmel P, Sunshine MJ, Kreutzberg GW, Sher A, Littman DR.

Mol Cell Biol. 2000 Jun;20(11):4106-14.


PKC-theta is required for TCR-induced NF-kappaB activation in mature but not immature T lymphocytes.

Sun Z, Arendt CW, Ellmeier W, Schaeffer EM, Sunshine MJ, Gandhi L, Annes J, Petrzilka D, Kupfer A, Schwartzberg PL, Littman DR.

Nature. 2000 Mar 23;404(6776):402-7.


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