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RGD DISEASE ONTOLOGY - ANNOTATIONS

RGD uses the Human Disease Ontology (DO, https://disease-ontology.org/) for disease curation across species. RGD automatically downloads each new release of the ontology on a monthly basis. Some additional terms which are required for RGD's curation purposes but are not currently covered in the official version of DO have been added. As corresponding terms are added to DO, these custom terms are retired and the DO terms substituted in existing annotations and subsequently used for curation.

Term:encephalitis
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Accession:DOID:9588 term browser browse the term
Definition:Inflammation of the BRAIN due to infection, autoimmune processes, toxins, and other conditions. Viral infections (see ENCEPHALITIS, VIRAL) are a relatively frequent cause of this condition.
Synonyms:exact_synonym: Brain Inflammation;   Brain Inflammations;   Rasmussen Encephalitis;   Rasmussen Syndrome;   Rasmussen's Syndrome
 primary_id: MESH:D004660;   RDO:0000312
 xref: NCI:C26760
For additional species annotation, visit the Alliance of Genome Resources.


show annotations for term's descendants           Sort by:
 
encephalitis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Abcb1a ATP binding cassette subfamily B member 1A IEP mRNA:decreased expression:brain, liver (rat) RGD PMID:12746221 RGD:8657083 NCBI chr 4:22,339,829...22,517,642
Ensembl chr 4:22,133,521...22,425,515
JBrowse link
G Abcd1 ATP binding cassette subfamily D member 1 ISO ClinVar Annotator: match by term: Encephalitis ClinVar PMID:11748843, PMID:25741868, PMID:28492532 NCBI chr  X:157,073,860...157,095,652
Ensembl chr  X:157,072,736...157,095,274
JBrowse link
G Anxa1 annexin A1 ISO associated with Sepsis RGD PMID:22964301 RGD:7421580 NCBI chr 1:237,893,983...237,910,002
Ensembl chr 1:237,893,966...237,910,012
JBrowse link
G Cxcl10 C-X-C motif chemokine ligand 10 IEP RGD PMID:18405324 RGD:2311377 NCBI chr14:17,210,733...17,212,930
Ensembl chr14:17,210,733...17,212,930
JBrowse link
G Fcer2 Fc fragment of IgE receptor II ISO CTD Direct Evidence: marker/mechanism CTD PMID:11500085 NCBI chr12:2,233,772...2,245,324
Ensembl chr12:2,233,778...2,245,324
JBrowse link
G Il1b interleukin 1 beta IEP protein:increased expression:brain (rat) RGD PMID:16006567 RGD:5147676 NCBI chr 3:121,876,256...121,882,637
Ensembl chr 3:121,876,263...121,882,726
JBrowse link
G Il1rn interleukin 1 receptor antagonist IEP protein:increased expression:right hippocampus, plasma (rat) RGD PMID:15020061 RGD:8551849 NCBI chr 3:1,449,778...1,468,624
Ensembl chr 3:1,452,644...1,468,614
JBrowse link
G Mbp myelin basic protein IEP associated with maternal Periapical Abscess;protein:decreased expression:brain: RGD PMID:23245577 RGD:7327204 NCBI chr18:79,326,738...79,437,310
Ensembl chr18:79,326,738...79,437,310
JBrowse link
G Nfkbia NFKB inhibitor alpha IEP RGD PMID:16006567 RGD:5147676 NCBI chr 6:76,267,227...76,270,457
Ensembl chr 6:76,267,228...76,270,457
JBrowse link
G Ngb neuroglobin IEP protein:increased expression:cerebrospinal fluid, frontal cortex, serum RGD PMID:19842562 RGD:9743961 NCBI chr 6:111,126,259...111,131,699
Ensembl chr 6:111,126,261...111,132,320
JBrowse link
G Rela RELA proto-oncogene, NF-kB subunit IDA RGD PMID:16006567 RGD:5147676 NCBI chr 1:220,992,770...221,003,249
Ensembl chr 1:220,992,770...221,003,249
JBrowse link
G Syf2 SYF2 pre-mRNA-splicing factor IEP RGD PMID:24301298 RGD:10059414 NCBI chr 5:153,269,638...153,277,562
Ensembl chr 5:153,269,526...153,277,563
JBrowse link
G Tnf tumor necrosis factor IEP RGD PMID:16006567 RGD:5147676 NCBI chr20:5,189,382...5,192,000
Ensembl chr20:5,189,390...5,192,000
JBrowse link
Anti-N-Methyl-D-Aspartate Receptor Encephalitis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Nefh neurofilament heavy treatment ISO RGD PMID:31313506 RGD:27226816 NCBI chr14:85,181,572...85,191,557
Ensembl chr14:85,181,572...85,191,557
JBrowse link
G Nefl neurofilament light treatment ISO RGD PMID:31313506 RGD:27226816 NCBI chr15:44,799,378...44,803,251
Ensembl chr15:44,799,334...44,804,574
JBrowse link
Herpes Simplex Encephalitis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Apoe apolipoprotein E susceptibility ISO DNA:polymorphism:exon: RGD PMID:11118260 RGD:7771554 NCBI chr 1:80,612,894...80,616,820
Ensembl chr 1:80,612,895...80,617,057
JBrowse link
G Aqp4 aquaporin 4 ISO RGD PMID:17454447 RGD:8698664 NCBI chr18:6,766,009...6,782,757
Ensembl chr18:6,765,945...6,782,996
JBrowse link
G Calca calcitonin-related polypeptide alpha treatment IDA RGD PMID:22761571 RGD:7240516 NCBI chr 1:184,184,018...184,188,922
Ensembl chr 1:184,184,020...184,188,911
JBrowse link
G Calcr calcitonin receptor treatment IDA RGD PMID:22761571 RGD:7240516 NCBI chr 4:28,627,439...28,702,559
Ensembl chr 4:28,627,442...28,702,559
JBrowse link
G Ccr2 C-C motif chemokine receptor 2 ISO RGD PMID:22377584 RGD:8661752
G Ccr5 C-C motif chemokine receptor 5 ISO RGD PMID:23391218 RGD:8551839 NCBI chr 8:133,192,398...133,215,599
Ensembl chr 8:133,197,032...133,215,614
JBrowse link
G Cx3cr1 C-X3-C motif chemokine receptor 1 ISO RGD PMID:22377584 RGD:8661752 NCBI chr 8:128,740,756...128,754,514
Ensembl chr 8:128,740,756...128,754,514
JBrowse link
G Gdnf glial cell derived neurotrophic factor ISO mRNA:increased expression:brain: RGD PMID:15950786 RGD:8657070 NCBI chr 2:56,884,181...56,912,964
Ensembl chr 2:56,887,987...56,910,238
JBrowse link
G Irf3 interferon regulatory factor 3 ISO CTD Direct Evidence: marker/mechanism CTD NCBI chr 1:100,992,244...100,997,202
Ensembl chr 1:100,992,405...100,997,198
JBrowse link
G Lta lymphotoxin alpha ISO RGD PMID:11145686 RGD:8548806 NCBI chr20:4,851,889...4,854,677
Ensembl chr20:4,852,496...4,854,677
JBrowse link
G Mmp2 matrix metallopeptidase 2 ISO protein:increased activity:brain RGD PMID:15364410 RGD:8547868 NCBI chr19:15,542,771...15,570,589
Ensembl chr19:15,542,765...15,570,611
JBrowse link
G Mmp9 matrix metallopeptidase 9 treatment ISO protein:increased activity:brain RGD PMID:20483026, PMID:15364410 RGD:8547867, RGD:8547868 NCBI chr 3:161,413,410...161,421,473
Ensembl chr 3:161,413,298...161,421,520
JBrowse link
G Stat4 signal transducer and activator of transcription 4 susceptibility ISO RGD PMID:17266445 RGD:8661706 NCBI chr 9:54,340,649...54,457,753
Ensembl chr 9:54,287,541...54,484,533
JBrowse link
G Ticam1 toll-like receptor adaptor molecule 1 ISO CTD Direct Evidence: marker/mechanism CTD NCBI chr 9:10,780,185...10,790,280 JBrowse link
G Tlr2 toll-like receptor 2 disease_progression ISO
IEP
RGD PMID:14739339, PMID:20806060 RGD:8553026, RGD:5130178 NCBI chr 2:182,840,171...182,846,061
Ensembl chr 2:182,840,727...182,846,061
JBrowse link
G Tlr3 toll-like receptor 3 susceptibility ISO ClinVar Annotator: match by term: HERPES SIMPLEX ENCEPHALITIS, SUSCEPTIBILITY TO, 2
CTD Direct Evidence: marker/mechanism
ClinVar
CTD
OMIM
PMID:17872438, PMID:19625408, PMID:20472559, PMID:20855885, PMID:21911422, PMID:22174453, PMID:24033266, PMID:25339207, PMID:26513235, PMID:28046022, PMID:28492532, PMID:29305044 NCBI chr16:50,016,466...50,031,011
Ensembl chr16:50,016,857...50,031,214
JBrowse link
G Tlr4 toll-like receptor 4 IEP RGD PMID:20806060 RGD:5130178 NCBI chr 5:82,587,424...82,601,056
Ensembl chr 5:82,587,420...82,601,052
JBrowse link
G Tlr9 toll-like receptor 9 resistance IEP mRNA:increased expression:cheek (rat) RGD PMID:20806060 RGD:5130178 NCBI chr 8:114,916,122...114,920,171
Ensembl chr 8:114,916,122...114,920,171
JBrowse link
G Traf3 Tnf receptor-associated factor 3 ISO CTD Direct Evidence: marker/mechanism CTD NCBI chr 6:135,610,698...135,720,247
Ensembl chr 6:135,610,743...135,718,564
JBrowse link
G Unc93b1 unc-93 homolog B1, TLR signaling regulator ISO CTD Direct Evidence: marker/mechanism CTD NCBI chr 1:219,172,987...219,183,941
Ensembl chr 1:219,144,205...219,183,963
JBrowse link
Herpes Simplex Encephalitis 1 term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Tlr3 toll-like receptor 3 ISO ClinVar Annotator: match by term: Herpes simplex encephalitis 1
ClinVar Annotator: match by term: HERPES SIMPLEX ENCEPHALITIS, SUSCEPTIBILITY TO, 1
ClinVar PMID:17434873, PMID:17872438, PMID:19625408, PMID:20472559, PMID:20855885, PMID:21911422, PMID:24033266, PMID:25339207, PMID:26193622, PMID:26513235, PMID:28046022, PMID:28492532, PMID:29305044 NCBI chr16:50,016,466...50,031,011
Ensembl chr16:50,016,857...50,031,214
JBrowse link
G Unc93b1 unc-93 homolog B1, TLR signaling regulator susceptibility ISO ClinVar Annotator: match by term: Herpes simplex encephalitis 1 ClinVar
OMIM
PMID:16973841, PMID:24033266, PMID:25741868, PMID:28492532 NCBI chr 1:219,172,987...219,183,941
Ensembl chr 1:219,144,205...219,183,963
JBrowse link
Herpes Simplex Encephalitis 3 term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Amn amnion associated transmembrane protein ISO ClinVar Annotator: match by term: Herpes simplex encephalitis, susceptibility to, 3 ClinVar PMID:28492532 NCBI chr 6:135,724,455...135,731,896
Ensembl chr 6:135,724,455...135,731,896
JBrowse link
G Traf3 Tnf receptor-associated factor 3 susceptibility ISO ClinVar Annotator: match by term: Herpes simplex encephalitis, susceptibility to, 3 ClinVar
OMIM
PMID:28492532 NCBI chr 6:135,610,698...135,720,247
Ensembl chr 6:135,610,743...135,718,564
JBrowse link
Herpes Simplex Encephalitis 4 term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ticam1 toll-like receptor adaptor molecule 1 susceptibility ISO ClinVar Annotator: match by term: Herpes simplex encephalitis, susceptibility to, 4 ClinVar
OMIM
PMID:22105173, PMID:26513235, PMID:28492532 NCBI chr 9:10,780,185...10,790,280 JBrowse link
Herpes Simplex Encephalitis 7 term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Irf3 interferon regulatory factor 3 susceptibility ISO ClinVar Annotator: match by term: Herpes simplex encephalitis, susceptibility to, 7 OMIM
ClinVar
PMID:26216125, PMID:26513235, PMID:28492532 NCBI chr 1:100,992,244...100,997,202
Ensembl chr 1:100,992,405...100,997,198
JBrowse link
HIV Encephalitis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G App amyloid beta precursor protein ISO RGD PMID:29632166 RGD:13782045 NCBI chr11:24,425,013...24,641,872
Ensembl chr11:24,425,005...24,641,858
JBrowse link
G Bace1 beta-secretase 1 ISO RGD PMID:29632166 RGD:13782045 NCBI chr 8:50,140,092...50,162,388
Ensembl chr 8:50,139,997...50,162,361
JBrowse link
G Cdk5 cyclin-dependent kinase 5 IDA protein:increased tyrosine phosphorylation:hippocampus RGD PMID:28107387 RGD:13506927 NCBI chr 4:7,282,945...7,287,427
Ensembl chr 4:7,282,948...7,288,383
JBrowse link
G Mfn1 mitofusin 1 ISO associated with HIV Infections;protein:increased expression:frontal cortex, membrane (human) RGD PMID:26611103 RGD:12910851 NCBI chr 2:118,929,738...118,971,689
Ensembl chr 2:118,929,738...118,973,698
JBrowse link
Japanese encephalitis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Camk2n1 calcium/calmodulin-dependent protein kinase II inhibitor 1 ISO RGD PMID:17010311 RGD:18337278 NCBI chr 5:156,876,706...156,878,486
Ensembl chr 5:156,876,706...156,878,486
JBrowse link
G Pik3cg phosphatidylinositol-4,5-bisphosphate 3-kinase, catalytic subunit gamma IMP RGD PMID:22251375 RGD:38599236 NCBI chr 6:51,465,696...51,501,234
Ensembl chr 6:51,465,908...51,498,337
JBrowse link
Lupus Vasculitis, Central Nervous System term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Fcgr3a Fc fragment of IgG receptor IIIa ISO CTD Direct Evidence: marker/mechanism CTD PMID:26773105 NCBI chr13:89,385,775...89,396,047
Ensembl chr13:89,385,859...89,396,051
JBrowse link
G Itgam integrin subunit alpha M ISO CTD Direct Evidence: marker/mechanism CTD PMID:26773105 NCBI chr 1:199,495,312...199,545,738
Ensembl chr 1:199,495,298...199,623,960
JBrowse link
G Selp selectin P ISO RGD PMID:20179168 RGD:6478687 NCBI chr13:82,428,914...82,464,629
Ensembl chr13:82,429,063...82,464,628
JBrowse link
meningoencephalitis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Aif1 allograft inflammatory factor 1 IEP protein:increased expression:brain (rat) RGD PMID:16150122 RGD:2313041 NCBI chr20:5,161,350...5,167,176
Ensembl chr20:5,161,333...5,166,448
JBrowse link
G Cnp 2',3'-cyclic nucleotide 3' phosphodiesterase ISO mRNA, protein:increased expression:brain, cerebrospinal fluid RGD PMID:19592007 RGD:6483338 NCBI chr10:88,490,798...88,497,357
Ensembl chr10:88,490,798...88,497,356
JBrowse link
G Plat plasminogen activator, tissue type ISO CTD Direct Evidence: therapeutic CTD PMID:1430592 NCBI chr16:74,098,263...74,122,897
Ensembl chr16:74,098,260...74,122,889
JBrowse link
Nasu-Hakola disease term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Trem2 triggering receptor expressed on myeloid cells 2 ISO ClinVar Annotator: match by OMIM:221770
ClinVar Annotator: match by term: Polycystic lipomembranous osteodysplasia with sclerosing leukoencephalopathy
ClinVar PMID:12080485, PMID:12754369, PMID:12925681, PMID:15883308, PMID:18546367, PMID:21834902, PMID:23399524, PMID:25615530, PMID:25741868, PMID:27995897, PMID:28492532, PMID:28768830, PMID:29142083 NCBI chr 9:14,611,541...14,618,076
Ensembl chr 9:14,611,561...14,618,013
JBrowse link
G Tyrobp transmembrane immune signaling adaptor Tyrobp ISO ClinVar Annotator: match by term: Polycystic lipomembranous osteodysplasia with sclerosing leukoencephalopathy 1
CTD Direct Evidence: marker/mechanism
ClinVar Annotator: match by OMIM:221770
ClinVar Annotator: match by null
OMIM
ClinVar
CTD
PMID:10888890, PMID:11109371, PMID:12370476, PMID:15883308, PMID:17125796, PMID:17430113, PMID:20500450, PMID:22082900, PMID:27658901, PMID:28492532, PMID:28620717 NCBI chr 1:88,875,370...88,879,305
Ensembl chr 1:88,875,375...88,879,303
JBrowse link
tick-borne encephalitis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cd40 CD40 molecule ISO protein:increased expression:cerebrospinal fluid (human) RGD PMID:16463218 RGD:11352252 NCBI chr 3:161,519,789...161,534,943
Ensembl chr 3:161,519,743...161,534,704
JBrowse link
G Cd40lg CD40 ligand ISO protein:increased expression:cerebrospinal fluid (human) RGD PMID:16463218 RGD:11352252 NCBI chr  X:159,703,703...159,714,886
Ensembl chr  X:159,703,578...159,716,562
JBrowse link
viral encephalitis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Adrb2 adrenoceptor beta 2 ISO CTD Direct Evidence: marker/mechanism CTD PMID:27400929 NCBI chr18:57,513,792...57,515,834
Ensembl chr18:57,513,793...57,515,834
JBrowse link
G Becn1 beclin 1 ISO associated with HIV infections;protein:increased expression:brain RGD PMID:21592995 RGD:6483316 NCBI chr10:89,209,944...89,225,297
Ensembl chr10:89,209,940...89,225,297
JBrowse link
G Ccr1 C-C motif chemokine receptor 1 ISO RGD PMID:18158733 RGD:5688146 NCBI chr 8:132,996,646...133,002,201
Ensembl chr 8:132,996,649...133,002,201
JBrowse link
G Cd274 CD274 molecule ISO RGD PMID:20876353 RGD:6893671 NCBI chr 1:247,519,890...247,539,659
Ensembl chr 1:247,519,939...247,537,943
JBrowse link
G E2f1 E2F transcription factor 1 ISO associated with HIV Infections; protein:increased expression:brain, neuron, cytoplasm: RGD PMID:11896158 RGD:10401094 NCBI chr 3:150,062,895...150,073,721
Ensembl chr 3:150,047,826...150,073,721
JBrowse link
G Il1rl1 interleukin 1 receptor-like 1 severity ISO mRNA:increased expression:brain RGD PMID:27334012, PMID:27334012 RGD:39457934, RGD:39457934 NCBI chr 9:47,133,483...47,184,316
Ensembl chr 9:47,134,034...47,182,170
JBrowse link
G Il33 interleukin 33 ISO mRNA,protein:increased expression:brain,F4/80+ cell RGD PMID:27334012 RGD:39457934 NCBI chr 1:248,112,611...248,147,030
Ensembl chr 1:248,132,090...248,147,029
JBrowse link
G Mmp9 matrix metallopeptidase 9 ISO associated with influenza; protein:increased expression:serum RGD PMID:17529876 RGD:5130920 NCBI chr 3:161,413,410...161,421,473
Ensembl chr 3:161,413,298...161,421,520
JBrowse link
G Oprm1 opioid receptor, mu 1 ISO CTD Direct Evidence: marker/mechanism CTD PMID:27400929 NCBI chr 1:43,454,803...43,704,948
Ensembl chr 1:43,454,803...43,704,948
JBrowse link
West Nile encephalitis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Sting1 stimulator of interferon response cGAMP interactor 1 severity ISO RGD PMID:31415679 RGD:39128224 NCBI chr18:28,529,537...28,535,828
Ensembl chr18:28,529,576...28,535,828
JBrowse link
West Nile fever term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ccr5 C-C motif chemokine receptor 5 susceptibility ISO ClinVar Annotator: match by term: West nile virus, susceptibility to
CTD Direct Evidence: marker/mechanism
OMIM
ClinVar
CTD
PMID:8639485, PMID:8751444, PMID:8756719, PMID:9055842, PMID:9132277, PMID:9140404, PMID:9207783, PMID:9466996, PMID:9511755, PMID:9585595, PMID:9600249, PMID:9768627, PMID:10520641, PMID:10615909, PMID:10803840, PMID:11081537, PMID:11403804, PMID:11403814, PMID:11517319, PMID:11781692, PMID:12874407, PMID:15744032, PMID:15863470, PMID:16216086, PMID:16248677, PMID:16418398, PMID:19017985, PMID:19073967, PMID:28492532 NCBI chr 8:133,192,398...133,215,599
Ensembl chr 8:133,197,032...133,215,614
JBrowse link
G S100b S100 calcium binding protein B ISO RGD PMID:19790244 RGD:5508797 NCBI chr20:13,130,633...13,142,856
Ensembl chr20:13,130,636...13,142,856
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  disease 16058
    disease of anatomical entity 15305
      Immune & Inflammatory Diseases 3506
        Inflammation 2164
          encephalitis 73
            Anti-N-Methyl-D-Aspartate Receptor Encephalitis 2
            Bilateral Atresia of External Auditory Canal with Congenital Vertical Talus 0
            Cerebral Ventriculitis 0
            Hashimoto's Encephalitis 0
            Infectious Encephalitis + 52
            Rasmussen Johnsen Thomsen Syndrome 0
            Rasmussen Subacute Encephalitis 0
            acute hemorrhagic encephalitis 0
            acute necrotizing encephalitis 0
            limbic encephalitis 0
            meningoencephalitis + 6
            post-vaccinal encephalitis 0
            postinfectious encephalitis 0
            syphilitic encephalitis 0
            von Economo's disease 0
Path 2
Term Annotations click to browse term
  disease 16058
    disease of anatomical entity 15305
      nervous system disease 10879
        central nervous system disease 9021
          brain disease 8346
            encephalitis 73
              Anti-N-Methyl-D-Aspartate Receptor Encephalitis 2
              Bilateral Atresia of External Auditory Canal with Congenital Vertical Talus 0
              Cerebral Ventriculitis 0
              Hashimoto's Encephalitis 0
              Infectious Encephalitis + 52
              Rasmussen Johnsen Thomsen Syndrome 0
              Rasmussen Subacute Encephalitis 0
              acute hemorrhagic encephalitis 0
              acute necrotizing encephalitis 0
              limbic encephalitis 0
              meningoencephalitis + 6
              post-vaccinal encephalitis 0
              postinfectious encephalitis 0
              syphilitic encephalitis 0
              von Economo's disease 0
paths to the root

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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.