majorVersion:3 minorVersion:0 projectID:local projectVersionID:undef fileName:12960230.csml convertedTime:2009.07.01.10:41

Entity

G010237:HLA-DRA G010361:PCNA G011389:CD14 G024648:CD69 MO000000100:M-CSF MO000018132:CD14 e1: e10: e11:CD16 e12:gp120 e13:CD45 e2: e3: e4: e5:SIV RNA e50: e51: e52: e53: e54: e55: e56: e57: e58: e59: e6:HIV protein e60: e61: e62: e7: e8: e9:

Process

p1 p10 p11 p2 p3 p4 p5 p6 p7 p8 p9
261.0, 669.0
30.0, 30.0

HLA-DRA

--

G010237

cso30:c:mRNA

cso30:i:CC_Nucleoplasm

--

p11

--

true true true true

csml-variable:Double

m93226

10

false

infinite

0

unit false false false
TRANSFACG010237

--

Go back
267.0, 434.0
27.0, 27.0

PCNA

--

G010361

cso30:c:mRNA

cso30:i:CC_CellComponent

--

p1 p3

p2

true true true true

csml-variable:Double

m93337

10

false

infinite

0

unit false false false
TRANSFACG010361

--

Go back
383.0, 575.0
25.5, 25.5

CD14

--

G011389

cso30:c:mRNA

cso30:i:CC_CellComponent

--

p7

p6

true true true true

csml-variable:Double

m94268

10

false

infinite

0

unit false false false
TRANSFACG011389

--

Go back
261.0, 625.0
29.0, 29.0

CD69

--

G024648

cso30:c:mRNA

cso30:i:CC_CellComponent

--

p9

--

true true true true

csml-variable:Double

m103353

10

false

infinite

0

unit false false false
TRANSFACG024648

--

Go back
644.0, 536.0
31.0, 31.0

M-CSF

--

MO000000100

cso30:c:Protein

cso30:i:CC_CellComponent

--

--

p5

true true true true

csml-variable:Double

m89

10

false

infinite

0

unit false false false
InterProIPR008001
TRANSPATHMO000000100

--

Go back
477.0, 629.0
30.0, 30.0

CD14

--

MO000018132

cso30:c:Protein

cso30:i:CC_CellComponent

--

p6

--

true true true true

csml-variable:Double

m2828

10

false

infinite

0

unit false false false
InterProIPR001611
TRANSPATHMO000018132

--

Go back
75.15499651538497, 98.33664771361464
498.12847478313256, 723.2825453851079

--

e1

cso30:c:EntityBiologicalCompartment

cso30:i:CC_PlasmaMembrane

--

--

--

true true true true

csml-variable:Double

m1

0

false

infinite

0

unit false true false

--

Go back
78.95442968637441, 132.3916865078456
482.8390321947132, 679.2187514123439

--

e10

cso30:c:EntityBiologicalCompartment

cso30:i:CC_Cytosol

--

--

--

true true true true

csml-variable:Double

m10

0

false

infinite

0

unit false true false

--

Go back
256.0, 504.0
39.39446366782008, 21.010380622837378

CD16

--

e11

cso30:c:mRNA

cso30:i:CC_Nucleoplasm

--

p4 p5 p8

--

true true true true

csml-variable:Double

m11

0

false

infinite

0

unit false false false

--

Go back
644.0, 503.5
32.00000000000001, 24.000000000000004

gp120

--

e12

cso30:c:Protein

cso30:i:CC_Cytosol

--

--

p4

true true true true

csml-variable:Double

m12

0

false

infinite

0

unit false false false

--

Go back
256.0, 593.0
40.640138408304495, 21.67474048442907

CD45

--

e13

cso30:c:mRNA

cso30:i:CC_Nucleoplasm

--

p10

--

true true true true

csml-variable:Double

m13

0

false

infinite

0

unit false false false

--

Go back
75.15499651538497, 98.33664771361464
498.12847478313256, 723.2825453851079

--

e2

cso30:c:EntityBiologicalCompartment

cso30:i:CC_PlasmaMembrane_ExternalSideOfPlasmaMembrane_

--

--

--

true true true true

csml-variable:Double

m2

0

false

infinite

0

unit false true false

--

Go back
85.11756601104761, 108.29921720927734
478.20333579180704, 703.3574063937831

--

e3

cso30:c:EntityBiologicalCompartment

cso30:i:CC_PlasmaMembrane_IntegralToPlasmaMembrane_

--

--

--

true true true true

csml-variable:Double

m3

0

false

infinite

0

unit false true false

--

Go back
103.54831957802361, 125.73371382668687
441.3418286578555, 668.4884131589633

--

e4

cso30:c:EntityBiologicalCompartment

cso30:i:CC_PlasmaMembrane_InternalSideOfPlasmaMembrane_

--

--

--

true true true true

csml-variable:Double

m4

0

false

infinite

0

unit false true false

--

Go back
460.5, 431.0
31.630188679245283, 34.505660377358495

SIV RNA

--

e5

cso30:c:RnaOther

cso30:i:CC_Cytosol

--

--

p1

true true true true

csml-variable:Double

m5

0

false

infinite

0

unit false false false

--

Go back
121.85482399673313, 413.1074142660329
335.7110303716731, 304.4530200949816

--

e50

cso30:c:EntityBiologicalCompartment

cso30:i:CC_NuclearEnvelopeLumen

--

--

--

true true true true

csml-variable:Double

m50

0

false

infinite

0

unit false true false

--

Go back
158.11411591769576, 420.322508237211
196.30030453762646, 295.07561701197363

--

e51

cso30:c:EntityBiologicalCompartment

cso30:i:CC_NuclearPore

--

--

--

true true true true

csml-variable:Double

m51

0

false

infinite

0

unit false true false

--

Go back
126.23094543546993, 417.1709556020027
326.95878749419944, 296.32593742304147

--

e52

cso30:c:EntityBiologicalCompartment

cso30:i:CC_NuclearInnerMembrane

--

--

--

true true true true

csml-variable:Double

m52

0

false

infinite

0

unit false true false

--

Go back
126.85610564100391, 417.7961158075365
325.70846708313144, 295.07561701197363

--

e53

cso30:c:EntityBiologicalCompartment

cso30:i:CC_NuclearLumen

--

--

--

true true true true

csml-variable:Double

m53

0

false

infinite

0

unit false true false

--

Go back
121.85482399673313, 413.1074142660329
335.7110303716731, 304.4530200949816

--

e54

cso30:c:EntityBiologicalCompartment

cso30:i:CC_NuclearOuterMembrane

--

--

--

true true true true

csml-variable:Double

m54

0

false

infinite

0

unit false true false

--

Go back
121.85482399673313, 413.1074142660329
335.7110303716731, 304.4530200949816

--

e55

cso30:c:EntityBiologicalCompartment

cso30:i:CC_Nucleus

--

--

--

true true true true

csml-variable:Double

m55

0

false

infinite

0

unit false true false

--

Go back
126.85610564100391, 417.7961158075365
325.70846708313144, 295.07561701197363

--

e56

cso30:c:EntityBiologicalCompartment

cso30:i:CC_Nucleoplasm

--

--

--

true true true true

csml-variable:Double

m56

0

false

infinite

0

unit false true false

--

Go back
366.91762456599906, 538.1394553728013
20.973380611998117, 18.986428764545693

--

e57

cso30:c:EntityBiologicalCompartment

cso30:i:CC_NuclearBody

--

--

--

true true true true

csml-variable:Double

m57

0

false

infinite

0

unit false true false

--

Go back
311.90352647902114, 625.6618841475394
59.39021952571497, 53.763777675910504

--

e58

cso30:c:EntityBiologicalCompartment

cso30:i:CC_Nucleolus

--

--

--

true true true true

csml-variable:Double

m58

0

false

infinite

0

unit false true false

--

Go back
121.85482399673313, 413.1074142660329
335.7110303716731, 304.4530200949816

--

e59

cso30:c:EntityBiologicalCompartment

cso30:i:CC_NuclearEnvelope

--

--

--

true true true true

csml-variable:Double

m59

0

false

infinite

0

unit false true false

--

Go back
596.0, 471.5
32.32, 24.240000000000002

HIV protein

--

e6

cso30:c:Protein

cso30:i:CC_Extracellular

--

--

p3 p6

true true true true

csml-variable:Double

m6

0

false

infinite

0

unit false false false

--

Go back
200.98002493938537, 548.4038206802264
10.631475056327332, 5.118858360453906

--

e60

cso30:c:EntityBiologicalCompartment

cso30:i:CC_Chromatin

--

--

--

true true true true

csml-variable:Double

m60

0

false

infinite

0

unit false true false

--

Go back
200.62500989399715, 533.1381737285301
36.38904215230004, 65.50027587414016

--

e61

cso30:c:EntityBiologicalCompartment

cso30:i:CC_NuclearChromosome

--

--

--

true true true true

csml-variable:Double

m61

0

false

infinite

0

unit false true false

--

Go back
215.89065684569414, 575.7399791751253
5.680240726212684, 5.68024072621269

--

e62

cso30:c:EntityBiologicalCompartment

cso30:i:CC_NuclearCentromere

--

--

--

true true true true

csml-variable:Double

m62

0

false

infinite

0

unit false true false

--

Go back
79.69967811218879, 102.24719385404529
488.50884249814953, 692.2044115102934

--

e7

cso30:c:EntityBiologicalCompartment

cso30:i:CC_Cell

--

--

--

true true true true

csml-variable:Double

m7

0

false

infinite

0

unit false true false

--

Go back
85.44492653800312, 111.46393283474572
468.63235356766586, 680.4541773802512

--

e8

cso30:c:EntityBiologicalCompartment

cso30:i:CC_Cell_WithoutCellWall_

--

--

--

true true true true

csml-variable:Double

m8

0

false

infinite

0

unit false true false

--

Go back
87.09892234017474, 124.68067181544622
466.49278981266565, 671.5301913502982

--

e9

cso30:c:EntityBiologicalCompartment

cso30:i:CC_Cytoplasm

--

--

--

true true true true

csml-variable:Double

m9

0

false

infinite

0

unit false true false

--

Go back
324.0, 435.0
25.0, 25.0

p1

p1

cso30:i:ME_GeneExpression

cso30:i:CC_Nucleoplasm

--

true true true true

--

and

mass

coefficient1:0.1
coefficient2:1.0
stoichiometry:c1 : 1
stoichiometry:c2 : 1

m5*0.1

nodelay

--

true

0

false

PMID: 12960230, 12163382 We have recently reported that CNS perivascular macrophages that are productively infected with SIV also strongly express the proliferation cellular nuclear antigen (PCNA). PMID: 12960230, 12163382, 7522384 In our studies, we demonstrated that expression of PNCA correlates well with SIV RNA in the same cell and that the cells that are PCNA-positive are not undergoing significant, detectable cell proliferation but are more likely undergoing DNA repair, a process that might be induced by viral infection.

Go back
319.0, 591.0
25.0, 25.0

p10

p10

cso30:i:ME_GeneExpression

cso30:i:CC_Nucleoplasm

--

--

e13

true true true true

--

and

mass

coefficient1:0.1
coefficient2:1.0
stoichiometry:c16 : 1

1.0*0.1

nodelay

--

true

0

false

PMID: 12960230, 3276004, 8083615, 11596124 In addition to CD14 and CD45 markers used to differentiate between parenchymal microglia and perivascular macrophages, CD16, CD69, and human leukocyte antigen-DR are expressed on perivascular macrophages.

Go back
331.0, 671.0
25.0, 25.0

p11

p11

cso30:i:ME_GeneExpression

cso30:i:CC_Nucleoplasm

--

--

G010237

true true true true

--

and

mass

coefficient1:0.1
coefficient2:1.0
stoichiometry:c17 : 1

1.0*0.1

nodelay

--

true

0

false

PMID: 12960230, 3276004, 8083615, 11596124 In addition to CD14 and CD45 markers used to differentiate between parenchymal microglia and perivascular macrophages, CD16, CD69, and human leukocyte antigen-DR are expressed on perivascular macrophages.

Go back
201.0, 453.0
30.0, 30.0

p2

p2

cso30:i:CE_DnaRepair

cso30:i:CC_Nucleoplasm

--

G010361

--

true true true true

--

and

mass

coefficient1:0.1
coefficient2:1.0
stoichiometry:c3 : 1

m93337*0.1

nodelay

--

true

0

false

PMID: 12960230, 12163382, 7522384 In our studies, we demonstrated that expression of PNCA correlates well with SIV RNA in the same cell and that the cells that are PCNA-positive are not undergoing significant, detectable cell proliferation but are more likely undergoing DNA repair, a process that might be induced by viral infection.

Go back
324.0, 470.0
23.0, 23.0

p3

p3

cso30:i:ME_GeneExpression

cso30:i:CC_Nucleoplasm

--

true true true true

--

and

mass

coefficient1:0.1
coefficient2:1.0
stoichiometry:c5 : 1
stoichiometry:c4 : 1

m6*0.1

nodelay

--

true

0

false

PMID: 12960230 Our group and others have found similar PCNA expression in the BM of HIVinfected humans and SIV-infected rhesus macaques in monocyte/ macrophage populations that are infected with HIV or SIV. PMID: 12960230, 7522384, 8888951 The frequency of BM macrophages in HIV infected patients significantly increases, as does PCNA expression in these infected cells.

Go back
323.0, 502.0
25.0, 25.0

p4

p4

cso30:i:ME_GeneExpression

cso30:i:CC_Nucleoplasm

--

true true true true

--

and

mass

coefficient1:0.1
coefficient2:1.0
stoichiometry:c7 : 1
stoichiometry:c6 : 1

m12*0.1

nodelay

--

true

0

false

PMID: 12960230, 8145026, 9241535 In vitro, macrophage-CSF and HIV-envelope gp120 mimic this immune activation, resulting in increased CD16 expression on CD14-positive monocytes.

Go back
323.0, 537.0
25.0, 25.0

p5

p5

cso30:i:ME_GeneExpression

cso30:i:CC_Nucleoplasm

--

true true true true

--

and

mass

coefficient1:0.1
coefficient2:1.0
stoichiometry:c9 : 1
stoichiometry:c8 : 1

m89*0.1

nodelay

--

true

0

false

PMID: 12960230, 8145026, 9241535 In vitro, macrophage-CSF and HIV-envelope gp120 mimic this immune activation, resulting in increased CD16 expression on CD14-positive monocytes.

Go back
479.0, 575.0
25.0, 25.0

p6

p6

cso30:i:ME_Translation

cso30:i:CC_Nucleoplasm

--

true true true true

--

and

mass

coefficient1:0.1
coefficient2:1.0
stoichiometry:c11 : 1
stoichiometry:c12 : 1
stoichiometry:c10 : 1

m94268*m6*0.1

nodelay

--

true

0

false

PMID: 12960230, 11704885, 7527738, 9731066 In addition, plasma and CSF levels of soluble CD14 (shed from activated monocytes) increase in HIV-infected patients and even more in patients with AIDS and dementia [45, 78, 87, 88], which indicates immune activation following HIV infection and AIDS and the potential usefulness of soluble CD14 levels to evaluate HIV dementia.

Go back
383.0, 623.0
25.0, 25.0

p7

p7

cso30:i:ME_GeneExpression

cso30:i:CC_Nucleoplasm

--

--

G011389

true true true true

--

and

mass

coefficient1:0.1
coefficient2:1.0
stoichiometry:c13 : 1

1.0*0.1

nodelay

--

true

0

false

PMID: 12960230, 3276004, 8083615, 11596124 In addition to CD14 and CD45 markers used to differentiate between parenchymal microglia and perivascular macrophages, CD16, CD69, and human leukocyte antigen-DR are expressed on perivascular macrophages.

Go back
262.0, 550.0
27.0, 27.0

p8

p8

cso30:i:ME_GeneExpression

cso30:i:CC_Nucleoplasm

--

--

e11

true true true true

--

and

mass

coefficient1:0.1
coefficient2:1.0
stoichiometry:c14 : 1

1.0*0.1

nodelay

--

true

0

false

PMID: 12960230, 3276004, 8083615, 11596124 In addition to CD14 and CD45 markers used to differentiate between parenchymal microglia and perivascular macrophages, CD16, CD69, and human leukocyte antigen-DR are expressed on perivascular macrophages.

Go back
331.0, 627.0
25.0, 25.0

p9

p9

cso30:i:ME_GeneExpression

cso30:i:CC_Nucleolus

--

--

G024648

true true true true

--

and

mass

coefficient1:0.1
coefficient2:1.0
stoichiometry:c15 : 1

1.0*0.1

nodelay

--

true

0

false

PMID: 12960230, 3276004, 8083615, 11596124 In addition to CD14 and CD45 markers used to differentiate between parenchymal microglia and perivascular macrophages, CD16, CD69, and human leukocyte antigen-DR are expressed on perivascular macrophages.

Go back
357.0, 448.0

c1

c1

cso30:c:InputAssociation

--

true true true true

cso30:c:InputAssociation

threshold

--

0

1,

--

Go back
492.0, 600.0

c10

c10

cso30:c:OutputProcess

--

true true true true

cso30:c:OutputProcess

threshold

--

0

1,

--

Go back
409.0, 588.0

c11

c11

cso30:c:InputAssociation

--

true true true true

cso30:c:InputAssociation

threshold

--

0

1,

--

Go back
511.9999981747588, 496.0

c12

c12

cso30:c:InputAssociation

--

true true true true

cso30:c:InputAssociation

threshold

--

0

1,

--

Go back
396.0, 609.0

c13

c13

cso30:c:OutputProcess

--

true true true true

cso30:c:OutputProcess

threshold

--

0

1,

--

Go back
276.0, 533.0

c14

c14

cso30:c:OutputProcess

--

true true true true

cso30:c:OutputProcess

threshold

--

0

1,

--

Go back
298.0, 640.0

c15

c15

cso30:c:OutputProcess

--

true true true true

cso30:c:OutputProcess

threshold

--

0

1,

--

Go back
305.0, 604.0

c16

c16

cso30:c:OutputProcess

--

true true true true

cso30:c:OutputProcess

threshold

--

0

1,

--

Go back
299.0, 684.0

c17

c17

cso30:c:OutputProcess

--

true true true true

cso30:c:OutputProcess

threshold

--

0

1,

--

Go back
302.0, 448.0

c2

c2

cso30:c:OutputProcess

--

true true true true

cso30:c:OutputProcess

threshold

--

0

1,

--

Go back
238.65081256841071, 453.0

c3

c3

cso30:c:InputAssociation

--

true true true true

cso30:c:InputAssociation

threshold

--

0

1,

--

Go back
300.7585526044338, 460.2804166494748

c4

c4

cso30:c:OutputProcess

--

true true true true

cso30:c:OutputProcess

threshold

--

0

1,

--

Go back
354.99974195213207, 482.0642549554388

c5

c5

cso30:c:InputAssociation

--

true true true true

cso30:c:InputAssociation

threshold

--

0

1,

--

Go back
303.0, 515.0

c6

c6

cso30:c:OutputProcess

--

true true true true

cso30:c:OutputProcess

threshold

--

0

1,

--

Go back
355.99995434662895, 515.0270268727927

c7

c7

cso30:c:InputAssociation

--

true true true true

cso30:c:InputAssociation

threshold

--

0

1,

--

Go back
299.9601774867889, 528.9441005758471

c8

c8

cso30:c:OutputProcess

--

true true true true

cso30:c:OutputProcess

threshold

--

0

1,

--

Go back
355.99981739120506, 550.0540528202108

c9

c9

cso30:c:InputAssociation

--

true true true true

cso30:c:InputAssociation

threshold

--

0

1,

--

Go back