undergraduate research in computer science program director: dr. fatma mili ph.d

29
Undergraduate Undergraduate Research in Computer Research in Computer Science Science Program Director: Program Director: Dr. Fatma Mili Ph.D. Dr. Fatma Mili Ph.D.

Post on 19-Dec-2015

214 views

Category:

Documents


1 download

TRANSCRIPT

Page 1: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

Undergraduate Research in Undergraduate Research in Computer ScienceComputer Science

Program Director:Program Director:

Dr. Fatma Mili Ph.D.Dr. Fatma Mili Ph.D.

Page 2: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

Application of a Coherence Application of a Coherence Network to Retinal Ganglion Network to Retinal Ganglion

Cell RegenerationCell RegenerationInvestigators:Investigators: Marianne Mara (MMarianne Mara (M22)) University of Michigan-DearbornUniversity of Michigan-Dearborn Noelle Nelson (NNoelle Nelson (N22) ) Oakland UniversityOakland University Advisors:Advisors: Dr. M. Zohdy PhD Dr. M. Zohdy PhD

Electrical and Computer Engineering Department Oakland UniversityElectrical and Computer Engineering Department Oakland University Dr. S. Chintala PhDDr. S. Chintala PhD Eye Research Institute Oakland UniversityEye Research Institute Oakland University

Page 3: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

Research ObjectivesResearch Objectives

• Understand the basic mechanisms of retinal Understand the basic mechanisms of retinal ganglion cell regenerationganglion cell regeneration

• Apply a new extended coherence network Apply a new extended coherence network simulation to retinal ganglion cell interactions simulation to retinal ganglion cell interactions

• Study the important protein kinases involved in Study the important protein kinases involved in regeneration of retinal ganglion cellsregeneration of retinal ganglion cells

• Compare computer simulation (in silico) results Compare computer simulation (in silico) results to actual laboratory experiments performed at to actual laboratory experiments performed at the Eye Research Institutethe Eye Research Institute

Page 4: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

Coherence NetworkCoherence Network

• A coherence network is made up of nodes A coherence network is made up of nodes (concepts) connected by arcs, that possibly (concepts) connected by arcs, that possibly carry real or complex weights (relationships), to carry real or complex weights (relationships), to arrive at coherent (consistent) solutions.arrive at coherent (consistent) solutions.

• We extended the basic coherence network to We extended the basic coherence network to include hierarchical classes of nodes and arcs in include hierarchical classes of nodes and arcs in order to better suit retinal ganglion cell protein order to better suit retinal ganglion cell protein interaction.interaction.

• Our additional contribution is to consider the Our additional contribution is to consider the Sigmoidal function for input/output relationships Sigmoidal function for input/output relationships again to suit retinal ganglion cell neuro-biologyagain to suit retinal ganglion cell neuro-biology

Page 5: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

Applying the Extended Coherence Applying the Extended Coherence Network to Protein Kinase Network to Protein Kinase

InteractionInteraction• Network: Nodes represent the proteins and Network: Nodes represent the proteins and

associated kinases involved in retinal ganglion associated kinases involved in retinal ganglion cell regenerationcell regeneration

• Coherence represents consistent relationships Coherence represents consistent relationships that will show the qualitative and quantitative that will show the qualitative and quantitative effects of protein interactionseffects of protein interactions

• The extended coherence network model that we The extended coherence network model that we are developing describes the significance of are developing describes the significance of protein kinase pathways that may promote protein kinase pathways that may promote retinal ganglion cell regenerationretinal ganglion cell regeneration

Page 6: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

Extended Coherent NetworkExtended Coherent Network

Class 3

Class 2

Class 1

Class 3

Class 1

Class 1

Class 2

Class 5

Class 4

Class 5

Class 5 Class 5

Class 4

Class 4

Legend

Class 1(Protein Kinase)

Class 2(Inhibitor)

Class 3(Protease)

Class 4Up Regulates

Class 5Down

Regulates

Active Node

Page 7: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

A Protein Kinase and Inhibitor Interaction in A Protein Kinase and Inhibitor Interaction in a Retinal Ganglion Cell Linea Retinal Ganglion Cell Line

Staurosporine

PKC PKA

Down Regulates

tPAUp

RegulatesIn the presence

Of cAMP

PlaminogenActivatorInhibitor

Up Regulates

UpRegulates

Forms ComplexesTo Inactivate

DownRegulates

NeuriteOutgrowth

Protease Inhibitors

Protein Kinase

Biochemical Path Functional Outcome

Protease

Legend

Page 8: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

Extended Coherent Network of the Extended Coherent Network of the Protein Kinase InteractionProtein Kinase Interaction

Legend

Class 1(Protein Kinase)

Class 2(Inhibitor)

Class 3(Protease)

Class 4Up Regulates

Class 5Down

Regulates

Active Node Staurosporine

PKC PKA

Down Regulates

tPA

UpRegulates

In the presenceOf cAMP

PlaminogenActivatorInhibitor

Up Regulates

UpRegulates

Forms ComplexesTo Inactivate

DownRegulates

Protease Inhibitors

Protein Kinase

Biochemical Path Functional Outcome

Protease

LegendProtein Kinase

CClass 1

PKAClass 1

Class 5(-1)

Class 4(1)

Class 5(-1)

StaurosporinClass 2

PlasminogenActivatorInhibitorClass 2

Class 4(1)

Class 4(1) tPA

Class 3

Class 5(-1)

Page 9: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

Sigmoidal Functions Sigmoidal Functions

Page 10: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

Anatomy of the Human EyeAnatomy of the Human Eye

Retinal Ganglion Cells

Bipolar Cells

Rod and Cone Cells

Horizontal CellsAmacrine Cells

Page 11: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

Importance of Retinal Ganglion CellsImportance of Retinal Ganglion Cells• Major eye diseases like glaucoma are prevalent in the US and the world

population.

• Irreversible loss of retinal ganglion cells occurs in glaucoma

Nor

mal

Gla

ucom

a

Vision

Cross section of retinas

Page 12: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

Laboratory Analysis Model for Retinal Laboratory Analysis Model for Retinal Ganglion CellsGanglion Cells

• Retinal ganglion cells in adult retina are terminally differentiated, do Retinal ganglion cells in adult retina are terminally differentiated, do not divide, survive for 1-3 generations in laboratory conditions, and not divide, survive for 1-3 generations in laboratory conditions, and cannot be used for long-term experiments. cannot be used for long-term experiments.

• RGC-5 cells are transformed cells, they take on many of the RGC-5 cells are transformed cells, they take on many of the characteristics of adult retinal ganglion cells, divide indefinitely characteristics of adult retinal ganglion cells, divide indefinitely under laboratory conditions, and therefore can be used to study the under laboratory conditions, and therefore can be used to study the mechanisms involved in regeneration of retinal ganglion cells. mechanisms involved in regeneration of retinal ganglion cells.

• Unlike adult retinal ganglion cells, RGC-5 cells divide in culture and Unlike adult retinal ganglion cells, RGC-5 cells divide in culture and appear as fibroblasts, and not like ganglion cells. appear as fibroblasts, and not like ganglion cells.

• However, RGC-5 cells can be programmed to behave like adult and However, RGC-5 cells can be programmed to behave like adult and differentiated ganglion cells after treatment with staurosporin (a differentiated ganglion cells after treatment with staurosporin (a chemical agent) that inhibits a number of intracellular protein chemical agent) that inhibits a number of intracellular protein kinases. kinases.

Page 13: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

Undifferentiated Differentiated

RGC-5 cells treated with staurosporine to induce differentiation

Page 14: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

As staurosporine inhibits a number of protein kinases, it is important to know which protein kinase (s) staurosporine inhibits, and which kinases

are responsible for inducing RGC-5 cells to differentiate.

CDK1/Cyclin B

AKT

cAMPPDE

Rho-Kinase

PKC

CAM

MLCK

PKA

PDGFR

EGFR

JAK-5

CDK5

CDK2/Cyclin A

MEK

cGMPPDE

Stauro-sporine

Protein Kinases

Protein Kinase Inhibitor

Known Protein Kinases Staurosporine Inhibits

Page 15: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

Research ToolsResearch Tools

1.1. Matlab, and Matlab Toolboxes for developing an Matlab, and Matlab Toolboxes for developing an extended coherence networkextended coherence network

2.2. Microsoft Office Visio Microsoft Office Visio 3.3. Pathway Studio software Pathway Studio software 4.4. Designed experiments from Dr. Chintala’s Eye Designed experiments from Dr. Chintala’s Eye

Research Institute laboratoryResearch Institute laboratory5.5. NCBI Protein databanks with gene sequences, NCBI Protein databanks with gene sequences,

and related scientific journal articles and related scientific journal articles

Page 16: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

Biochemical Biochemical PathsPaths

Staurosporine

PKC PKA

Down Regulates

tPA

UpRegulates

In the presenceOf cAMP

PlaminogenActivatorInhibitor

Up Regulates

UpRegulates

Forms ComplexesTo Inactivate

DownRegulates

Protease Inhibitors

Protein Kinase

Biochemical Path Functional Outcome

Protease

Legend

DownRegulates

DownRegulates

DownRegulates

DownRegulates

DownRegulates

DownRegulates

DownRegulates

DownRegulates

DownRegulates

DownRegulates

DownRegulates

DownRegulates

DownRegulates

Staurosporine

CDK1CDK2

CDK5

JAK-5

EGFR

PDGFR

MLCK

CAM

RhoKinase

PKCcAMPPDE

cGMPPDE

MEK

AKT

DownRegulates

DownRegulates

PKA

DownRegulates

DownRegulates

DownRegulates

DownRegulates

DownRegulates

DownRegulates

DownRegulates

DownRegulates

DownRegulates

DownRegulates

DownRegulates

DownRegulates

DownRegulates

DownRegulates

Stauro-sporine

CDK1CDK2

CDK5

JAK-5

EGFR

PDGFR

MLCK

CAM

RhoKinase

PKCcAMPPDE

cGMPPDE

MEK

AKT

DownRegulates

DownRegulates

PKA

DownRegulates Up

Regulates

PlasminogenActivatorInhibitor

tPA

Up Regulates

Inactivates

Up Regulates

Page 17: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

Qualitative Analysis of a Coherent Qualitative Analysis of a Coherent NetworkNetwork

Legend

Class 1(Protein Kinase)

Class 2(Inhibitor)

Class 3(Protease)

Class 4Up Regulates

Class 5Down

Regulates

Active Node

Inactive Node

Protein Kinase

CClass 1

PKAClass 1

Class 5(-1)

Class 4(1)

Class 5(-1)

StaurosporinClass 2

PlasminogenActivatorInhibitorClass 2

Class 4(1)

Class 4(1) tPA

Class 3

Class 5(-1)

Page 18: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

Qualitative Evaluation with an Qualitative Evaluation with an Extended Coherent NetworkExtended Coherent Network

Class 5(-1)

Class 4(1)

Class 4(1)

Class 4(1)

Class 5(-1)

Class 4(1)

Class 5(-1)

Class 4(1)

Class 5(-1)

PlasminogenActivatorInhibitorClass 2

Alpha-2Anti-plasmin

Class 2

MatrixMetallorotein

InhibitorClass2

UrokinasePlasminogen

ActivatorClass 3

PlasminogenClass 3

PlasminClass 3

Active MatrixMetalloProtein

Class 3

Active MatrixMetalloProtein

Class 3

Tissue Plasminogen

ActivatorClass 3

Legend

Class 1(Protein Kinase)

Class 2(Inhibitor)

Class 3(Protease)

Class 4Up Regulates

Class 5Down

Regulates

Active Node

Inactive Node

Page 19: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

Qualitative Analysis of Staurosporine Qualitative Analysis of Staurosporine and the Protein Kinases it Inhibitsand the Protein Kinases it Inhibits

StaurosporineClass 2

MEKClass 1

MLCKClass 1

PDGFClass 1

EGFRClass 1

JAK-5Class 1

CDK2Class 1

AKTClass 1

CDK5Class 1

PKAClass 1

PKCClass 1

CAMClass 1

RhoKinase Class 1

cAMPPDE

Class 1

cGMPPDE

Class 1Cla

ss 5

(-1)

Class

5(-1

)

Class

5(-1

)

Class

5(-1

)

Class

5(-1

)Class

5(-1

)

Class

5(-1

)

Class

5(-1

)

Class

5(-1

)

Class

5(-1

)Cla

ss 5

(-1)

CDK1Class1

Class

5(-1

)

Legend

Class 1(Protei

n Kinase)

Class 2(Inhibit

or)

Class 3(Proteas

e)

Class 4Up

Regulate

Class 5Down

Regulate

Active Node

Inactive Node

Class

5(-1

)Cla

ss 5

(-1)

Class

5(-1

)

Class

5(-1

)

Page 20: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

Qualitative Analysis of RGC-5 Cell Line Qualitative Analysis of RGC-5 Cell Line

Exposed to StaurosporineExposed to Staurosporine

StaurosporineClass 2

MEKClass 1

MLCKClass 1

PDGFClass 1

EGFRClass 1

JAK-5Class 1

CDK2Class 1

AKTClass 1

CDK5Class 1

PKAClass 1

PKCClass 1

CAMClass 1

RhoKinase Class 1

cAMPPDE

Class 1

cGMPPDE

Class 1

Class

5(-1

)

Class

5(-1

)

Class

5(-1

)

Class

5(-1

)

Class

5(-1

)Class

5(-1

)

Class

5(-1

)

Class

5(-1

)

Class

5(-1

)

Class

5(-1

)Cla

ss 5

(-1)

CDK1Class1

Class

5(-1

)

Legend

Class 1(Protei

n Kinase)

Class 2(Inhibit

or)

Class 3(Proteas

e)

Class 4Up

Regulate

Class 5Down

Regulate

Active Node

Inactive Node

Class

5(-1

)Cla

ss 5

(-1)

Class

5(-1

)

Class

5(-1

)

tPAClass 3

PlasminogenActivatorInhibitorClass 3

Class

4(1)

Class

5(-1

)

Class

4(1)

Class

4(1)

Page 21: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

Results from a Quantitative Results from a Quantitative Extended Coherence Network Extended Coherence Network

Simulation ISimulation I

Page 22: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

Results from a Quantitative Results from a Quantitative Extended Coherence Network Extended Coherence Network

Simulation IISimulation II

Page 23: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

ConclusionConclusion

We have gained a much better We have gained a much better understanding of RGC differentiation, understanding of RGC differentiation, regeneration, and neurite formation.regeneration, and neurite formation.Although it needs more work, our Although it needs more work, our coherence network was able to achieve coherence network was able to achieve some similarity to the laboratory generated some similarity to the laboratory generated data.data.At this point the At this point the in silicoin silico results seem to results seem to agree with cell line laboratory researchagree with cell line laboratory research

Page 24: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

Further Research Further Research

As new data is discovered in relation to As new data is discovered in relation to the interaction of staurosporine and the interaction of staurosporine and protein kinases, the extended coherent protein kinases, the extended coherent network can be further explored.network can be further explored.

The extended coherent network may be The extended coherent network may be tested with well researched biochemical tested with well researched biochemical paths such as glycolysis and the Kreb’s paths such as glycolysis and the Kreb’s cycle.cycle.

Page 25: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

Conference OpportunitiesConference Opportunities

American Chemical Society – Division of Biological American Chemical Society – Division of Biological Chemistry, XXVI Midwest Enzyme Chemistry Chemistry, XXVI Midwest Enzyme Chemistry Conference, September 30, 2006 Northwestern Conference, September 30, 2006 Northwestern University, Evanston, IL. University, Evanston, IL. www.midwestenzyme.orgwww.midwestenzyme.org

2006 Huntsville Simulation Conference, October 18 - 2006 Huntsville Simulation Conference, October 18 - 19, 2006 Huntsville, Alabama. www.scs.org.hsc19, 2006 Huntsville, Alabama. www.scs.org.hsc

Page 26: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

ReferencesReferences20062006S. Chintala. Data from axon lengthening experiments with staurosporine, tissue plasminogen activator,and urokinase S. Chintala. Data from axon lengthening experiments with staurosporine, tissue plasminogen activator,and urokinase

plasminogen activator. Received June 29, 2006.plasminogen activator. Received June 29, 2006. The advisor provided data related to varying concentrations of staurosporine and the generationThe advisor provided data related to varying concentrations of staurosporine and the generation of tissue plasminogen activator and urokinase plasminogen activator.of tissue plasminogen activator and urokinase plasminogen activator.

S. Chintala. The emerging role of proteases in retinal ganglion cell death. Experimental Eye Research. Vol. 82, No.1, S. Chintala. The emerging role of proteases in retinal ganglion cell death. Experimental Eye Research. Vol. 82, No.1, pp. 5-12. , 2006.pp. 5-12. , 2006.

The article is a review of the known and proposed interplay of protein kinases, proteases, and inhibitors which The article is a review of the known and proposed interplay of protein kinases, proteases, and inhibitors which results in the destruction of retinal ganglion cells.results in the destruction of retinal ganglion cells.

L. Frassetto, C. Schlieve, C. Lievenen, A. Utter, M. Jones, N. Agarwal, & L. Levin. Kinase-dependent differentiation of L. Frassetto, C. Schlieve, C. Lievenen, A. Utter, M. Jones, N. Agarwal, & L. Levin. Kinase-dependent differentiation of

a retinal ganglion cell precursor. Inv. Ophth. & Vis. Sci. Vol. 47, No. 1, pp. 427-438, Jan. 2006.a retinal ganglion cell precursor. Inv. Ophth. & Vis. Sci. Vol. 47, No. 1, pp. 427-438, Jan. 2006. The authors report the effects of staurosporine induced differentiation in the RGC-5 cell line.The authors report the effects of staurosporine induced differentiation in the RGC-5 cell line.

K. Hu, J. Yang, S. Tanaka, S. Gonias, W. Mars, & Y. Liu. Tissue-type plasminogen activator acts as a cytokine that K. Hu, J. Yang, S. Tanaka, S. Gonias, W. Mars, & Y. Liu. Tissue-type plasminogen activator acts as a cytokine that triggers intracellular signal transduction and induces matrix metalloproteinase-9 gene expression. Jour. Of Bio. triggers intracellular signal transduction and induces matrix metalloproteinase-9 gene expression. Jour. Of Bio. Chem. Vol. 281, No. 4, pp. 2120-2127, Jan. 27, 2006.Chem. Vol. 281, No. 4, pp. 2120-2127, Jan. 27, 2006.

The articale describes the activation of matrix metalloproteins in light of the protein kinases inhibited.The articale describes the activation of matrix metalloproteins in light of the protein kinases inhibited.

Y. Yin, M. Henzl, B. Lorber, T. Nakazawa, T. Thomas, F. Jiang, R. Langer, & L. Benowitz. Oncomodulin is a Y. Yin, M. Henzl, B. Lorber, T. Nakazawa, T. Thomas, F. Jiang, R. Langer, & L. Benowitz. Oncomodulin is a macrophage-derived signal for axon regeneration in retinal ganglion cells. Nature Neuroscience. Vol. 9, No. 6, pp. macrophage-derived signal for axon regeneration in retinal ganglion cells. Nature Neuroscience. Vol. 9, No. 6, pp. June 2006.June 2006.

Tissue macrophages release oncomodulin which induces axon lengthening.Tissue macrophages release oncomodulin which induces axon lengthening.

Page 27: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

References ContinuedReferences Continued20052005A. Davy, & P. Soriano. Ephrin signaling in vivo: Look both ways. Dev. Dynamics. Vol. 232, pp. 1-10, 2005.A. Davy, & P. Soriano. Ephrin signaling in vivo: Look both ways. Dev. Dynamics. Vol. 232, pp. 1-10, 2005. The authors describe embronic extension of the gangalion into the developing brain.The authors describe embronic extension of the gangalion into the developing brain. F. Mann, W. Harris, & C. Holt. New views on retinal axon development: a navigation guide. Int. Jour. Dev. Bio. Vol. 48, pp. F. Mann, W. Harris, & C. Holt. New views on retinal axon development: a navigation guide. Int. Jour. Dev. Bio. Vol. 48, pp.

957-964, 2004. 957-964, 2004. The authors describe the cell marker which assist in the “direction” of axon lengthening into the central nervous system.The authors describe the cell marker which assist in the “direction” of axon lengthening into the central nervous system.

X. Wang, S. Lee, K. Arai, S. Lee, K. Tsuji, G. Rebeck, & E. Lo. Lipoprotein receptor-mediated induction of matrix X. Wang, S. Lee, K. Arai, S. Lee, K. Tsuji, G. Rebeck, & E. Lo. Lipoprotein receptor-mediated induction of matrix metalloproteinase by tissue plasminogen activator. Nat. Med. Vol. 9, No. 10, pp. 1313-1317, Oct. 2003.metalloproteinase by tissue plasminogen activator. Nat. Med. Vol. 9, No. 10, pp. 1313-1317, Oct. 2003.

The article describes tPA as a signaling agent in combination with a lipoprotein receptor in retinal ganglion cell The article describes tPA as a signaling agent in combination with a lipoprotein receptor in retinal ganglion cell degradation by matrix metalloproteins. degradation by matrix metalloproteins.

20022002M. Aon, & S. Cortassa. Coherent and robust modulation of a metabolic network by cytosketal organization and dynamics. M. Aon, & S. Cortassa. Coherent and robust modulation of a metabolic network by cytosketal organization and dynamics.

Biophysical Chem. Vol. 97, Issue 2-3, pp. 213-231, June 2002.Biophysical Chem. Vol. 97, Issue 2-3, pp. 213-231, June 2002.

B. Patel & D. Vactor. Axon guidance: the cytoplasmic tail. Current Opinion in Cell Biology. Vol. 14, pp. 221-229, Jan. 30, B. Patel & D. Vactor. Axon guidance: the cytoplasmic tail. Current Opinion in Cell Biology. Vol. 14, pp. 221-229, Jan. 30, 2002.2002.

The Rho-kinase is investigated in light of the signaling necessary for axon lengthening .The Rho-kinase is investigated in light of the signaling necessary for axon lengthening .

Page 28: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D

References ContinuedReferences ContinuedR. Krishnamoorthy, P. Agarwal, G. Prasanna, K. Vopat, W. Lambert, H. Sheedlo, I. Pang, D. Shade, R. Wordinger, T. R. Krishnamoorthy, P. Agarwal, G. Prasanna, K. Vopat, W. Lambert, H. Sheedlo, I. Pang, D. Shade, R. Wordinger, T.

Yorio, A. Clark & N. Agarwal. Characterization of a transformed rat ganglion cell line. Mol. Brain Res. Vol. 86, Yorio, A. Clark & N. Agarwal. Characterization of a transformed rat ganglion cell line. Mol. Brain Res. Vol. 86, pp. 1-12, 2001.pp. 1-12, 2001.

The authors describe a cell line, RGC-5, which can be transformed for use in place of harvesting rat retinal The authors describe a cell line, RGC-5, which can be transformed for use in place of harvesting rat retinal ganglion cells.ganglion cells.

P. Thagard. Coherent and creative conceptual combinations. P. Thagard. Coherent and creative conceptual combinations. Creative Creative thought: An investigation of conceptual thought and structures.thought: An investigation of conceptual thought and structures. Washington, DC. American Psychological Association. pp. 29-141, 1997.Washington, DC. American Psychological Association. pp. 29-141, 1997.

F. Meggio, A. Donella Deana, M. Ruzzene, A. Brunati, L. Cesaro, B. Guerra, T. Meyer, H. Mett, D. Fabbro, P. Furet, G. F. Meggio, A. Donella Deana, M. Ruzzene, A. Brunati, L. Cesaro, B. Guerra, T. Meyer, H. Mett, D. Fabbro, P. Furet, G. Dobrowolska, & L. Pinna. Different susceptibility of protein kinases to staurosporine inhibition kinetic studies Dobrowolska, & L. Pinna. Different susceptibility of protein kinases to staurosporine inhibition kinetic studies and molecular bases for the resistance of protein kinase CK2. Eur. Jour. Biochem. Vol. 234, pp. 3317-322, and molecular bases for the resistance of protein kinase CK2. Eur. Jour. Biochem. Vol. 234, pp. 3317-322, 1995.1995.

The author describe the relative sensitivities of protein kinases to the inhibitory effects of staurosporine.The author describe the relative sensitivities of protein kinases to the inhibitory effects of staurosporine.

P. Leprince, C. Bonvoisin, B. Rogister, C. Mazy-Servais, & . Moonen. Protein kinase- and staurosporine-dependent P. Leprince, C. Bonvoisin, B. Rogister, C. Mazy-Servais, & . Moonen. Protein kinase- and staurosporine-dependent induction of neurite outgrowth and plasminogen activator activity in PC12 cells. Vol. 52, pp. 1399-1405, 1996.induction of neurite outgrowth and plasminogen activator activity in PC12 cells. Vol. 52, pp. 1399-1405, 1996.Protein kinase A and Protein kinase C interactions are studied to understand the effect of staurosporine on Protein kinase A and Protein kinase C interactions are studied to understand the effect of staurosporine on neurite lengthening in PC12 cell line.neurite lengthening in PC12 cell line.

N. Yanagihara, E. Tachikawa, F. Izumi, S. Yasugawa, H. Yammamoto, & E. Miyamoto. Staurosporine: An effictive N. Yanagihara, E. Tachikawa, F. Izumi, S. Yasugawa, H. Yammamoto, & E. Miyamoto. Staurosporine: An effictive Inhibitor for Ca+2/calmodulin-dependent protein kinase 2. Jour. Of Neurochem. Vol. 56, No. 1, pp. 294-298, Inhibitor for Ca+2/calmodulin-dependent protein kinase 2. Jour. Of Neurochem. Vol. 56, No. 1, pp. 294-298, 1991.1991.

The authors investigated the inhibitory role of staurosporine on the protein kinase CaThe authors investigated the inhibitory role of staurosporine on the protein kinase Ca +2+2/calmodulin-dependent /calmodulin-dependent protein kinase II.protein kinase II.

Page 29: Undergraduate Research in Computer Science Program Director: Dr. Fatma Mili Ph.D