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PMC:7463108 / 49413-53331 JSONTXT

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LitCovid-PD-FMA-UBERON

Id Subject Object Predicate Lexical cue fma_id
T493 11-14 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T494 40-47 Body_part denotes Neurons http://purl.org/sig/ont/fma/fma54527
T495 69-72 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T496 160-163 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T497 203-212 Body_part denotes dendritic http://purl.org/sig/ont/fma/fma67314
T498 256-263 Body_part denotes neurons http://purl.org/sig/ont/fma/fma54527
T499 299-303 Body_part denotes glia http://purl.org/sig/ont/fma/fma54541
T500 443-452 Body_part denotes dendritic http://purl.org/sig/ont/fma/fma67314
T501 830-837 Body_part denotes neurons http://purl.org/sig/ont/fma/fma54527
T502 1176-1184 Body_part denotes proteins http://purl.org/sig/ont/fma/fma67257
T503 1343-1350 Body_part denotes neurons http://purl.org/sig/ont/fma/fma54527
T504 1363-1370 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T505 1493-1496 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T506 2133-2136 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T507 2209-2216 Body_part denotes neurons http://purl.org/sig/ont/fma/fma54527
T508 2290-2299 Body_part denotes dendrites http://purl.org/sig/ont/fma/fma67314
T509 2387-2400 Body_part denotes aspartic acid http://purl.org/sig/ont/fma/fma82760
T510 3006-3013 Body_part denotes protein http://purl.org/sig/ont/fma/fma67257
T511 3149-3157 Body_part denotes Neuronal http://purl.org/sig/ont/fma/fma54527
T512 3260-3264 Body_part denotes glia http://purl.org/sig/ont/fma/fma54541
T513 3348-3356 Body_part denotes Neuronal http://purl.org/sig/ont/fma/fma54527
T514 3379-3382 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T515 3404-3413 Body_part denotes microglia http://purl.org/sig/ont/fma/fma68923
T516 3561-3564 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T517 3595-3598 Body_part denotes HIV http://purl.org/sig/ont/fma/fma278683
T518 3664-3671 Body_part denotes neurons http://purl.org/sig/ont/fma/fma54527
T519 3773-3777 Body_part denotes IL-1 http://purl.org/sig/ont/fma/fma86583

LitCovid-PD-MONDO

Id Subject Object Predicate Lexical cue mondo_id
T134 81-94 Disease denotes neurotoxicity http://purl.obolibrary.org/obo/MONDO_0005527
T135 213-219 Disease denotes injury http://purl.obolibrary.org/obo/MONDO_0021178
T136 2177-2183 Disease denotes injury http://purl.obolibrary.org/obo/MONDO_0021178
T137 3119-3125 Disease denotes injury http://purl.obolibrary.org/obo/MONDO_0021178
T138 3357-3363 Disease denotes injury http://purl.obolibrary.org/obo/MONDO_0021178

LitCovid-PD-CLO

Id Subject Object Predicate Lexical cue
T591 479-480 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T592 614-615 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T593 648-656 http://purl.obolibrary.org/obo/UBERON_0000158 denotes membrane
T594 750-751 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T595 1160-1170 http://purl.obolibrary.org/obo/CLO_0001658 denotes activating
T596 1569-1570 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T597 1819-1820 http://purl.obolibrary.org/obo/CLO_0001021 denotes b
T598 2516-2524 http://purl.obolibrary.org/obo/CLO_0001658 denotes activity
T599 2530-2531 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T600 3024-3025 http://purl.obolibrary.org/obo/CLO_0001020 denotes a
T601 3026-3027 http://purl.obolibrary.org/obo/CLO_0001021 denotes b
T602 3404-3413 http://purl.obolibrary.org/obo/CL_0000129 denotes microglia
T603 3513-3523 http://purl.obolibrary.org/obo/CLO_0001658 denotes activation
T604 3751-3761 http://purl.obolibrary.org/obo/CLO_0001658 denotes activation
T605 3789-3799 http://purl.obolibrary.org/obo/CLO_0001658 denotes activation
T606 3869-3879 http://purl.obolibrary.org/obo/CLO_0001658 denotes activation

LitCovid-PD-CHEBI

Id Subject Object Predicate Lexical cue chebi_id
T19918 126-134 Chemical denotes morphine http://purl.obolibrary.org/obo/CHEBI_17303|http://purl.obolibrary.org/obo/CHEBI_58097
T97552 183-186 Chemical denotes ion http://purl.obolibrary.org/obo/CHEBI_24870
T32116 370-378 Chemical denotes morphine http://purl.obolibrary.org/obo/CHEBI_17303|http://purl.obolibrary.org/obo/CHEBI_58097
T64562 541-543 Chemical denotes Na http://purl.obolibrary.org/obo/CHEBI_26708
T5757 580-582 Chemical denotes Na http://purl.obolibrary.org/obo/CHEBI_26708
T9480 595-598 Chemical denotes ATP http://purl.obolibrary.org/obo/CHEBI_15422|http://purl.obolibrary.org/obo/CHEBI_30616
T12334 806-814 Chemical denotes morphine http://purl.obolibrary.org/obo/CHEBI_17303|http://purl.obolibrary.org/obo/CHEBI_58097
T12 927-935 Chemical denotes morphine http://purl.obolibrary.org/obo/CHEBI_17303|http://purl.obolibrary.org/obo/CHEBI_58097
T64066 978-981 Chemical denotes ion http://purl.obolibrary.org/obo/CHEBI_24870
T15 1024-1033 Chemical denotes ryanodine http://purl.obolibrary.org/obo/CHEBI_8925
T80163 1101-1109 Chemical denotes morphine http://purl.obolibrary.org/obo/CHEBI_17303|http://purl.obolibrary.org/obo/CHEBI_58097
T11885 1176-1184 Chemical denotes proteins http://purl.obolibrary.org/obo/CHEBI_36080
T19 1226-1228 Chemical denotes Al http://purl.obolibrary.org/obo/CHEBI_28984
T22795 1363-1370 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T56524 1445-1453 Chemical denotes Morphine http://purl.obolibrary.org/obo/CHEBI_17303
T22 1525-1534 Chemical denotes ryanodine http://purl.obolibrary.org/obo/CHEBI_8925
T54050 1536-1539 Chemical denotes RyR http://purl.obolibrary.org/obo/CHEBI_8925
T24 1628-1637 Chemical denotes ryanodine http://purl.obolibrary.org/obo/CHEBI_8925
T4899 1647-1656 Chemical denotes ryanodine http://purl.obolibrary.org/obo/CHEBI_8925
T26 1661-1669 Chemical denotes pyruvate http://purl.obolibrary.org/obo/CHEBI_15361
T553 1697-1705 Chemical denotes morphine http://purl.obolibrary.org/obo/CHEBI_17303|http://purl.obolibrary.org/obo/CHEBI_58097
T61869 1736-1746 Chemical denotes Nimodipine http://purl.obolibrary.org/obo/CHEBI_7575
T41653 1781-1791 Chemical denotes dantrolene http://purl.obolibrary.org/obo/CHEBI_4317
T31 1860-1869 Chemical denotes ryanodine http://purl.obolibrary.org/obo/CHEBI_8925
T4654 1909-1917 Chemical denotes morphine http://purl.obolibrary.org/obo/CHEBI_17303|http://purl.obolibrary.org/obo/CHEBI_58097
T47424 1982-1992 Chemical denotes nimodipine http://purl.obolibrary.org/obo/CHEBI_7575
T96207 1994-2004 Chemical denotes dantrolene http://purl.obolibrary.org/obo/CHEBI_4317
T9447 2009-2017 Chemical denotes pyruvate http://purl.obolibrary.org/obo/CHEBI_15361
T14570 2081-2083 Chemical denotes TM http://purl.obolibrary.org/obo/CHEBI_55460|http://purl.obolibrary.org/obo/CHEBI_74861
T32988 2085-2087 Chemical denotes TM http://purl.obolibrary.org/obo/CHEBI_55460|http://purl.obolibrary.org/obo/CHEBI_74861
T39702 2101-2109 Chemical denotes Morphine http://purl.obolibrary.org/obo/CHEBI_17303
T69404 2147-2155 Chemical denotes morphine http://purl.obolibrary.org/obo/CHEBI_17303|http://purl.obolibrary.org/obo/CHEBI_58097
T44 2235-2243 Chemical denotes morphine http://purl.obolibrary.org/obo/CHEBI_17303|http://purl.obolibrary.org/obo/CHEBI_58097
T46 2306-2311 Chemical denotes amino http://purl.obolibrary.org/obo/CHEBI_46882
T68016 2314-2321 Chemical denotes hydroxy http://purl.obolibrary.org/obo/CHEBI_43176
T48 2324-2330 Chemical denotes methyl http://purl.obolibrary.org/obo/CHEBI_32875|http://purl.obolibrary.org/obo/CHEBI_29309
T50651 2352-2356 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T52793 2376-2400 Chemical denotes N-methyl-D-aspartic acid http://purl.obolibrary.org/obo/CHEBI_31882
T29928 2378-2384 Chemical denotes methyl http://purl.obolibrary.org/obo/CHEBI_32875|http://purl.obolibrary.org/obo/CHEBI_29309
T65599 2385-2400 Chemical denotes D-aspartic acid http://purl.obolibrary.org/obo/CHEBI_17364
T6522 2387-2400 Chemical denotes aspartic acid http://purl.obolibrary.org/obo/CHEBI_22660
T67050 2396-2400 Chemical denotes acid http://purl.obolibrary.org/obo/CHEBI_37527
T85819 2449-2451 Chemical denotes Na http://purl.obolibrary.org/obo/CHEBI_26708
T58 2492-2494 Chemical denotes Na http://purl.obolibrary.org/obo/CHEBI_26708
T79856 2546-2549 Chemical denotes ATP http://purl.obolibrary.org/obo/CHEBI_15422|http://purl.obolibrary.org/obo/CHEBI_30616
T12888 2599-2601 Chemical denotes Na http://purl.obolibrary.org/obo/CHEBI_26708
T38030 2607-2609 Chemical denotes Na http://purl.obolibrary.org/obo/CHEBI_26708
T87801 2721-2729 Chemical denotes morphine http://purl.obolibrary.org/obo/CHEBI_17303|http://purl.obolibrary.org/obo/CHEBI_58097
T3614 2768-2770 Chemical denotes Na http://purl.obolibrary.org/obo/CHEBI_26708
T82906 2790-2797 Chemical denotes calcium http://purl.obolibrary.org/obo/CHEBI_22984|http://purl.obolibrary.org/obo/CHEBI_29320
T40213 2854-2863 Chemical denotes ryanodine http://purl.obolibrary.org/obo/CHEBI_8925
T28773 2865-2868 Chemical denotes RyR http://purl.obolibrary.org/obo/CHEBI_8925
T21964 2903-2911 Chemical denotes morphine http://purl.obolibrary.org/obo/CHEBI_17303|http://purl.obolibrary.org/obo/CHEBI_58097
T33921 3006-3013 Chemical denotes protein http://purl.obolibrary.org/obo/CHEBI_36080
T3867 3705-3720 Chemical denotes methamphetamine http://purl.obolibrary.org/obo/CHEBI_6809
T74 3773-3775 Chemical denotes IL http://purl.obolibrary.org/obo/CHEBI_63895|http://purl.obolibrary.org/obo/CHEBI_74072
T37470 3845-3859 Chemical denotes glucocorticoid http://purl.obolibrary.org/obo/CHEBI_24261

LitCovid-PubTator

Id Subject Object Predicate Lexical cue tao:has_database_id
1795 11-14 Species denotes HIV Tax:12721
1839 1536-1539 Gene denotes RyR Gene:6262
1840 1572-1575 Gene denotes Tat Gene:6898
1841 2139-2142 Gene denotes Tat Gene:6898
1842 2424-2427 Gene denotes MOR Gene:4988
1843 2865-2868 Gene denotes RyR Gene:6262
1844 2932-2935 Gene denotes MOR Gene:4988
1845 2713-2716 Gene denotes Tat Gene:6898
1846 2227-2230 Gene denotes Tat Gene:6898
1847 2089-2092 Gene denotes Tat Gene:6898
1848 2056-2059 Gene denotes Tat Gene:6898
1849 1901-1904 Gene denotes Tat Gene:6898
1850 1689-1692 Gene denotes Tat Gene:6898
1851 1497-1500 Gene denotes Tat Gene:6898
1852 2133-2138 Species denotes HIV-1 Tax:11676
1853 1493-1496 Species denotes HIV Tax:12721
1854 1445-1453 Chemical denotes Morphine MESH:D009020
1855 1515-1519 Chemical denotes Ca2+ MESH:D000069285
1856 1525-1534 Chemical denotes ryanodine MESH:D012433
1857 1598-1602 Chemical denotes Ca2+ MESH:D000069285
1858 1628-1637 Chemical denotes ryanodine MESH:D012433
1859 1647-1656 Chemical denotes ryanodine MESH:D012433
1860 1661-1669 Chemical denotes pyruvate MESH:D019289
1861 1697-1705 Chemical denotes morphine MESH:D009020
1862 1728-1732 Chemical denotes Ca2+ MESH:D000069285
1863 1736-1746 Chemical denotes Nimodipine MESH:D009553
1864 1755-1759 Chemical denotes Ca2+ MESH:D000069285
1865 1781-1791 Chemical denotes dantrolene MESH:D003620
1866 1831-1835 Chemical denotes Ca2+ MESH:D000069285
1867 1860-1869 Chemical denotes ryanodine MESH:D012433
1868 1909-1917 Chemical denotes morphine MESH:D009020
1869 1940-1944 Chemical denotes Ca2+ MESH:D000069285
1870 1982-1992 Chemical denotes nimodipine MESH:D009553
1871 1994-2004 Chemical denotes dantrolene MESH:D003620
1872 2009-2017 Chemical denotes pyruvate MESH:D019289
1873 2101-2109 Chemical denotes Morphine MESH:D009020
1874 2147-2155 Chemical denotes morphine MESH:D009020
1875 2682-2686 Chemical denotes Ca2+ MESH:D000069285
1876 2721-2729 Chemical denotes morphine MESH:D009020
1877 2790-2797 Chemical denotes calcium MESH:D002118
1878 2854-2863 Chemical denotes ryanodine MESH:D012433
1879 2903-2911 Chemical denotes morphine MESH:D009020
1880 2976-2980 Chemical denotes Ca2+ MESH:D000069285
1881 2168-2183 Disease denotes neuronal injury MESH:D009410
1910 383-386 Gene denotes Tat Gene:6898
1911 425-428 Gene denotes Tat Gene:6898
1912 481-484 Gene denotes MOR Gene:4988
1913 752-755 Gene denotes MOR Gene:18390
1914 843-846 Gene denotes MOR Gene:18390
1915 877-881 Gene denotes TLR4 Gene:21898
1916 948-951 Gene denotes Tat Gene:234724
1917 1037-1041 Gene denotes RyR2 Gene:6262
1918 1129-1132 Gene denotes MOR Gene:18390
1919 1255-1258 Gene denotes MOR Gene:18390
1920 164-167 Gene denotes Tat Gene:6898
1921 856-860 Species denotes mice Tax:10090
1922 69-72 Species denotes HIV Tax:12721
1923 160-163 Species denotes HIV Tax:12721
1924 126-134 Chemical denotes morphine MESH:D009020
1925 370-378 Chemical denotes morphine MESH:D009020
1926 557-561 Chemical denotes Ca2+ MESH:D000069285
1927 595-598 Chemical denotes ATP MESH:D000255
1928 704-712 Chemical denotes morphine MESH:D009020
1929 806-814 Chemical denotes morphine MESH:D009020
1930 927-935 Chemical denotes morphine MESH:D009020
1931 1009-1013 Chemical denotes Ca2+ MESH:D000069285
1932 1024-1033 Chemical denotes ryanodine MESH:D012433
1933 1101-1109 Chemical denotes morphine MESH:D009020
1934 1299-1303 Chemical denotes Ca2+ MESH:D000069285
1935 81-104 Disease denotes neurotoxicity via glial MESH:D020258
1936 203-219 Disease denotes dendritic injury MESH:D007635
1937 437-474 Disease denotes focal dendritic varicosities/swelling MESH:D014647
1953 3763-3768 Gene denotes TNF-α Gene:7124
1954 3773-3778 Gene denotes IL-1β Gene:3552
1955 3784-3788 Gene denotes TLR3 Gene:7098
1956 3823-3829 Gene denotes CX3CL1 Gene:6376
1957 3830-3841 Gene denotes fractalkine Gene:6376
1958 3845-3868 Gene denotes glucocorticoid receptor Gene:2908
1959 3379-3382 Species denotes HIV Tax:12721
1960 3561-3564 Species denotes HIV Tax:12721
1961 3595-3598 Species denotes HIV Tax:12721
1962 3705-3720 Chemical denotes methamphetamine MESH:D008694
1963 3110-3125 Disease denotes neuronal injury MESH:D009410
1964 3236-3244 Disease denotes infected MESH:D007239
1965 3306-3321 Disease denotes neuronal damage MESH:D009410
1966 3348-3363 Disease denotes Neuronal injury MESH:D009410
1967 3395-3403 Disease denotes infected MESH:D007239

LitCovid-PD-GO-BP

Id Subject Object Predicate Lexical cue
T85 183-198 http://purl.obolibrary.org/obo/GO_0050801 denotes ion homeostasis
T86 187-198 http://purl.obolibrary.org/obo/GO_0042592 denotes homeostasis
T87 412-421 http://purl.obolibrary.org/obo/GO_0009058 denotes formation
T88 978-993 http://purl.obolibrary.org/obo/GO_0050801 denotes ion homeostasis
T89 982-993 http://purl.obolibrary.org/obo/GO_0042592 denotes homeostasis
T90 2689-2700 http://purl.obolibrary.org/obo/GO_0042592 denotes homeostasis
T91 2790-2810 http://purl.obolibrary.org/obo/GO_0051209 denotes calcium mobilization
T92 3845-3879 http://purl.obolibrary.org/obo/GO_0004883 denotes glucocorticoid receptor activation
T93 3845-3879 http://purl.obolibrary.org/obo/GO_0004879 denotes glucocorticoid receptor activation

LitCovid-sentences

Id Subject Object Predicate Lexical cue
T717 0-47 Sentence denotes Opioid and HIV Interactive Pathology in Neurons
T718 48-352 Sentence denotes Besides accentuating HIV-induced neurotoxicity via glial-mediated mechanisms, morphine appears to converge with HIV Tat to dysregulate ion homeostasis and dendritic injury through potential direct actions on neurons, even though some contributions of glia cannot be excluded in this study (Fitting et al.
T719 353-360 Sentence denotes 2014a).
T720 361-682 Sentence denotes Combined morphine and Tat exposure accelerates the formation of Tat-induced focal dendritic varicosities/swelling via a MOR-related mechanism that was caused by focal increases in Na+ influx and [Ca2+]i, an overload of Na+/K+-ATPase, ATP depletion, and a collapse in mitochondrial inner membrane potential (Fitting et al.
T721 683-690 Sentence denotes 2014a).
T722 691-909 Sentence denotes Importantly, morphine’s additive effects were mediated via a MOR-related mechanism, as the exacerbating effects of morphine were absent in neurons from MOR knockout mice, thus excluding TLR4 involvement (Fitting et al.
T723 910-917 Sentence denotes 2014a).
T724 918-1074 Sentence denotes Further, morphine exacerbated Tat-dependent focal losses in ion homeostasis by mobilizing [Ca2+]i through ryanodine-2 (RyR2)-sensitive sites (Fitting et al.
T725 1075-1091 Sentence denotes 2014a) (Fig. 2).
T726 1092-1199 Sentence denotes Although morphine typically acts via MOR in an inhibitory manner by activating Gi/o-proteins (Sharma et al.
T727 1200-1219 Sentence denotes 1977; Moises et al.
T728 1220-1333 Sentence denotes 1994; Al-Hasani and Bruchas 2011), MOR-dependent stimulation of PI3-kinase and Ca2+ mobilization (Leopoldt et al.
T729 1334-1394 Sentence denotes 1998) in neurons via the Gβγ protein subunit (Mathews et al.
T730 1395-1437 Sentence denotes 2008) is presumed operative here (Fig. 2).
T731 1438-1735 Sentence denotes Fig. 2 Morphine exacerbates the excitotoxic effects of HIV Tat by mobilizing Ca2+ from ryanodine (RyR)-sensitive internal stores. (a) Tat-induced increases in [Ca2+]i were not attenuated by ryanodine, whereas ryanodine and pyruvate attenuate combined Tat and morphine-induced increases in [Ca2+]i.
T732 1736-2088 Sentence denotes Nimodipine (L-type Ca2+ channel blocker) and dantrolene did not show any effects. (b) Average [Ca2+]i over 10 min indicated ryanodine significantly blocked combined Tat and morphine-induced increases in [Ca2+]i, whereas no effects were noted for nimodipine, dantrolene, or pyruvate. *p < 0.05 vs. control, #p < 0.05 vs. Tat 50 nM, §p < 0.05 vs. TM, TM:
T733 2089-2217 Sentence denotes Tat 50 nM + Morphine 500 nM. (c) Summary of HIV-1 Tat and morphine interactive neuronal injury in striatal medium spiny neurons.
T734 2218-2663 Sentence denotes Combined Tat and morphine promotes structural and functional defects in dendrites via α-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid receptors (AMPAR), N-methyl-D-aspartic acid receptors (NMDAR), and MOR, causing influxes of Na+ and/or Ca2+, compensatory increases in Na+/K+-dependent ATPase activity, and a rapid loss in ATP mobilization with an inability to extrude excess Na+ via Na+/K+-ATPase caused by mitochondrial hyperpolarization.
T735 2664-3095 Sentence denotes Dysregulation of [Ca2+]i homeostasis by combined Tat and morphine appears to be mediated downstream of [Na+]i at the level of calcium mobilization, which in turn appears to be regulated via ryanodine (RyR)-sensitive sites, and enhanced by morphine exposure likely via MOR-dependent stimulation of PI3-kinase and Ca2+ mobilization via the Gβγ protein subunit. (a-b) Modified and reprinted with permission from Fitting et al. (2014a)
T736 3096-3148 Sentence denotes Glial-derived neuronal injury is not unidirectional.
T737 3149-3347 Sentence denotes Neuronal damage-associated molecular patterns (DAMPs) and dysfunction can trigger both infected and uninfected glia to become reactive, resulting in further neuronal damage and escalating pathology.
T738 3348-3439 Sentence denotes Neuronal injury can reactivate HIV in latently infected microglia (Alvarez-Carbonell et al.
T739 3440-3446 Sentence denotes 2019).
T740 3447-3905 Sentence denotes While the events underlying the disruption of neuronal-microglial activation that trigger the emergence of latent HIV are unclear, the induction of HIV expression appears to involve the production of DAMPs by injured neurons and can be turned “on”, e.g., by methamphetamine-induced sigma-1 (σ1) receptor activation, TNF-α and IL-1β, and TLR3 activation can be turned “off” by CX3CL1/fractalkine or glucocorticoid receptor activation (Alvarez-Carbonell et al.
T741 3906-3918 Sentence denotes 2017, 2019).

2_test

Id Subject Object Predicate Lexical cue
32876803-269396-62958101 1200-1204 269396 denotes 1977
32876803-7931552-62958102 1220-1224 7931552 denotes 1994
32876803-22020140-62958103 1248-1252 22020140 denotes 2011
32876803-31887215-62958104 3440-3444 31887215 denotes 2019
32876803-28166799-62958105 3906-3910 28166799 denotes 2017
32876803-31887215-62958106 3912-3916 31887215 denotes 2019