Publications

Recent Selected Publications

Method Development and Optimization

  1. Kudo LC, Parfenova L, Vi N, Lau K, Pomakian J, Valdmanis P, Rouleau GA, Vinters HV, Wiedau-Pazos M, Karsten SL. (2010) Integrative gene-tissue microarray-based approach for identification of human disease biomarkers: application to amyotrophic lateral sclerosis. Human Mol Genetics. 19(16):3233-53
  2. Karsten SL, Kudo LC, Geschwind DH. (2008) Gene expression analysis of neural cells and tissues using DNA microarrays. In Crawley JN, Gerfen C, Rogawski M, Sibley D, Skolnick P, Wray S (eds), Current Protocols in Neuroscience. New York: John Wiley and Sons.
  3. Akhtari M, Bragin A, Cohen M, Moats R, Brenker F, Lynch MD, Vinters HV, Engel J Jr. (2008) Functionalized magnetonanoparticles for MRI diagnosis and localization in epilepsy. Epilepsia. 49(8):1419-30.
  4. Karsten SL, Shoemaker L, Kornblum HI (2007) “Methods in Expression Analysis of Stem Cells” in Report on the Workshop “New Technologies in Stem Cell Research,” Society for Pediatric Research, San Francisco, California, April 29, 2006 Stem Cells. 25(4): 1070-88.
  5. Le Van Quyen M, Bragin A. (2007), Analysis of dynamic brain oscillations: methodological advances. Trends in Neuroscience 30(7):365-73.
  6. Lobo MK., Karsten SL, Gray M, Geschwind DH, Yang XW. (2006) FACS-array profiling of striatal projection neuron subtypes in juvenile and adult mouse brains. Nature Neuroscience 9(3): 443-452
  7. Bragin A, Karsten S, Geschwind D, Wilson CL, Engel J. (2004) Microarray gene expression analysis in the electrophysiologically identified neuronal clusters. Journal of Neuroscience Methods 133(1-2): 49-55.
  8. Karsten S, Kudo L, Geschwind D. (2004) Microarray platforms: Introduction and application to neurobiology. Int Rev Neurobiol. 60:1-23.
  9. Karsten S, Van Deerlin V, Sabatti C, Gill L, Geschwind D. (2002) An evaluation of tyramide signal amplification and archived and frozen tissue in microarray gene expression analysis. Nucleic Acids Research 30(2).
  10. Sabatti C, Karsten S, Geschwind D. (2002) Thresholding rules to recover a sparse signal from microarray experiments. Mathematical Biosciences 176: 17-34.
  11. Geschwind D, Dougherty J, Kudo L, Karsten SL. (2002) Beyond the gene list: Using bioinformatics to make sense out of array data. In SFN Short Course Syllabus: Bioinformatics 2002: A Neuroscientist’s Guide to Tools and Techniques for Mining and Refining Massive Data Sets.
  12. Karsten SL, Geschwind DH. (2002) Gene expression analysis using high-density cDNA microarrays. In Crawley JN, Gerfen C, Rogawski M, Sibley D, Skolnick P, Wray S (eds), Current Protocols in Neuroscience. New York: John Wiley and Sons Suppl. 20, Section 4: Unit 4.28.
  13. Bragin A, Hetke J, Wilson CL, Anderson DJ, Engel J Jr, Buzsáki G. (2000) Multiple site silicon-based probes for chronic recordings in freely moving rats: implantation, recording and histological verification. J Neurosci Methods. 98(1):77-82.

Functional Genomics/Neuroscience

  1. Ren G, Hui M, Ma Z, Parfenova L, KudoLC, HuiKS, Karsten SL. (2011) Cu, Zn-Superoxide Dismutase 1 (SOD1) is a Novel Target of Puromycin Sensitive Aminopeptidase (PSA/NPEPPS): Implication of PSA/NPEPPS as a Modifier of Amyotrophic Lateral Sclerosis. Molecular Neurodegeneration 6:29.
  2. Kudo LC, Parfenova L, Ren G, Vi N, Hui M, Ma Z, Lau K, Gray M, Bardag-Gorce F, Wiedau-Pazos M, Hui KS, Karsten SL. (2011) Puromycin-sensitive aminopeptidase (PSA/NPEPPS) impedes development of neuropathology in hPSA/TAUP301L double-transgenic mice. Human Molecular Genetics. Feb 11. [Epub ahead of print] PMID: 21320871.
  3. Kelly TK, Karsten SL, Geschwind DH, Kornblum HI. (2008) Regional differences between mouse and embryonic brain and spinal cord-derived neural stem/progenitor cells are maintained in vitro. PLOS One. In press.
  4. Kudo L, Karsten SL, Chen J, Levitt P, Geschwind DH. (2007) Genetic analysis of anterior-posterior expression gradients in the developing mammalian forebrain. Cerebral Cortex 17(9): 2108-22
  5. Karsten SL, Sang T-K, Gehman LT, Liu J, Chatterjee S, Lawless G, Sengupta S, Berry RW, Wiedau-Pazos M, Pomakian J, Schulz C, Vinters HV, Binder LI, Geschwind DH, Jackson GR. (2006) A genomic screen for modifiers of tauopathy identifies puromycin-sensitive aminopeptidase as an inhibitor of tau-induced neurodegeneration. Neuron. 51(5): 549-560.
  6. Hedlund E, Karsten S, Kudo L, Geschwind D, Carpenter E. (2004) Identification of a Hoxd10-regulated transcriptional network and combinatorial interactions with other Hox genes during spinal cord development. Journal of Neuroscience Research 75(3): 307-19.
  7. Jen JC, Chan W-M, Bosley TM, Wan J, Carr JR, Rüb U, Shattuck D, Lin D, Salamon G, Kudo LC, Ou J, Salih MAM, Kansu T, Dhalaan H, Al Zayed Z, MacDonald D, Stigsby B, Dretakis EK, Plaitakis A, Gottlob I, Pieh C, Traboulsi EI, Mousawi A, El-Ameri F, Andrews C, Yamada K, Demer JL, Karim S, Hageman N, Alger J, Kornblum H, Geschwind DH, Deller T, Sicotte NL, Nelson SF, Baloh RW, Engle EC (2004). Mutations in a human robo gene disrupt hindbrain axon pathway crossing and morphogenesis. Science. 304:1509-1513.
  8. Teramitsu I, Kudo LC, London SE, Geschwind DH & White SA (2004). Parallel FoxP1 and FoxP2 expression in human and songbird brain predicts functional interaction. Journal of Neuroscience. 24: 3152-3163.
  9. Caceres M, Lachuer J, Zapala MA, Redmond JC, Kudo LC, Geschwind DH, Lockhart DJ, Preuss TM, Barlow C (2003). Elevated gene expression levels distinguish human from non-human primate brains. Proceedings of National Academy of Sciences USA. 100:13030-5.
  10. Karsten S, Kudo L, Sabatti C, Jackson R, Kornblum H, Geschwind D (2003) Global analysis of gene expression in neural progenitors reveals specific cell-cycle, signaling and metabolic networks. Developmental Biology 261(1): 165-182.

Epilepsy/Neurophysiology

  1. Winden KD, Karsten SL, Bragin A, Kudo LC, Gehman L, Ruidera J, Geschwind DH, Engel J. (2011) A Systems Level, Functional Genomics Analysis of Chronic Epilepsy. PLoS ONE 6(6):e20763. doi:10.1371/journal.pone.0020763
  2. Karsten SL, Kudo LC, Bragin A. (2011) Use of peripheral blood biomarkers for epilepsy prediction. in New Strategies for Preventing Epileptogenesis, Special Issue, Neuroscience Letters 497(3):213-7. Epub 2011 Mar 17.
  3. Bragin A, Engel J Jr, Staba RJ. (2010) High-frequency oscillations in epileptic brain. Curr Opin Neurol. 23(2):151-6
  4. Bragin A, Azizyan A, Almajano J, Engel J Jr. (2009) The cause of the imbalance in the neuronal network leading to seizure activity can be predicted by the electrographic pattern of the seizure onset. Journal of Neuroscience 29(11):3660-71.
  5. Le Van Quyen M, Bragin A, Staba R, Crépon B, Wilson CL, Engel J Jr. (2008) Cell type-specific firing during ripple oscillations in the hippocampal formation of humans. Journal of Neuroscience 28(24):6104-10.
  6. Bragin A, Wilson CL, Engel J Jr. (2007) Voltage depth profiles of high-frequency oscillations after kainic acid-induced status epilepticus. Epilepsia. 48 Suppl 5:35-40.
  7. Bragin A, Claeys P, Vonck K, Van Roost D, Wilson C, Boon P, Engel J Jr. (2007) Analysis of initial slow waves (ISWs) at the seizure onset in patients with drug resistant temporal lobe epilepsy. Epilepsia. 48(10):1883-94.
  8. Bragin A, Azizyan A, Almajano J, Wilson CL, Engel J Jr. (2005) Analysis of chronic seizure onsets after intrahippocampal kainic acid injection in freely moving rats. Epilepsia. 46(10):1592-8.
  9. Bragin A, Wilson CL, Fields T, Fried I, Engel J Jr. (2005) Analysis of seizure onset on the basis of wideband EEG recordings. Epilepsia. 46 Suppl 5:59-63.
  10. Bragin A, Wilson CL, Almajano J, Mody I, Engel J Jr. (2004) High-frequency oscillations after status epilepticus: epileptogenesis and seizure genesis. Epilepsia. 45(9):1017-23.
  11. Staba RJ, Wilson CL, Bragin A, Jhung D, Fried I, Engel J Jr. (2004) High-frequency oscillations recorded in human medial temporal lobe during sleep. Ann Neurol. 56(1):108-15.
  12. Engel J Jr, Wilson C, Bragin A. (2003) Advances in understanding the process of epileptogenesis based on patient material: what can the patient tell us? Epilepsia. 44 Suppl 12:60-71.
  13. Bragin A, Wilson CL, Engel J. (2003) Spatial stability over time of brain areas generating fast ripples in the epileptic rat. Epilepsia. 44(9):1233-7.
  14. Bragin A, Wilson CL, Staba RJ, Reddick M, Fried I, Engel J Jr. (2002) Interictal high-frequency oscillations (80-500 Hz) in the human epileptic brain: entorhinal cortex. Ann Neurol. 52(4):407-15.
  15. Bragin A, Wilson CL, Engel J Jr. (2002) Rate of interictal events and spontaneous seizures in epileptic rats after electrical stimulation of hippocampus and its afferents. Epilepsia. 43 Suppl 5:81-5.
  16. Staba RJ, Wilson CL, Bragin A, Fried I, Engel J Jr. (2002) Sleep states differentiate single neuron activity recorded from human epileptic hippocampus, entorhinal cortex, and subiculum. Journal of Neuroscience 22(13):5694-704.
  17. Bragin A, Wilson CL, Engel J Jr. (2002) Increased after discharge threshold during kindling in epileptic rats. Experimental Brain Research 144(1):30-7.
  18. Bragin A, Mody I, Wilson CL, Engel J Jr. (2002) Local generation of fast ripples in epileptic brain. Journal of Neuroscience 22(5):2012-21.
  19. Bragin A, Wilson CL, Engel J Jr. (2000) Chronic epileptogenesis requires development of a network of pathologically interconnected neuron clusters: a hypothesis. Epilepsia. 41 Suppl 6:S144-52.
  20. Bragin A, Engel J Jr, Wilson CL, Vizentin E, Mathern GW. (1999) Electrophysiologic analysis of a chronic seizure model after unilateral hippocampal KA injection. Epilepsia. 40(9):1210-21.
  21. Kocsis B, Bragin A, Buzsáki G. (1999) Interdependence of multiple theta generators in the hippocampus: a partial coherence analysis. Journal of Neuroscience 19(14):6200-12.
  22. Bragin A, Engel J Jr, Wilson CL, Fried I, Mathern GW. (1999) Hippocampal and entorhinal cortex high-frequency oscillations (100–500 Hz) in human epileptic brain and in kainic acid–treated rats with chronic seizures. Epilepsia. 40(2):127-37.