US 11,530,452 B2Granted

Broad range gene and genotype papillomavirus transcriptome as a biomarker of papillomavirus-associated cancer stages

AssigneesInstitut Pasteur, Ecole Nationale Veterinaire D'Alfort, Pathoquest, L'assistance Publique—Hopitaux De Paris

InventorsMarc Eloit, Nicolas Torno, Jean Deregnaucourt, Marion Mouton, Isabelle Heard, Philippe Perot

Life of this patent

Estimating the term…

Abstract

The present invention provides compositions, kits, and method for determining the levels of expression of human polyoma or papillomavirus species and RNA transcripts. These levels can be used for the prognosis of risk of developing virally-induced cancers. The ratio (R) between early and late transcripts is indicative of HPV infections associated with higher risk of developing genital neoplasia and cancer.

Claims10

Dependent claims

A composition of primers comprising at least one group of HPV primers, wherein the group of HPV primers comprises a pair of primers for amplifying a target from each member of a set of HPV species, wherein the set comprises HPV 16, HPV18, HPV 31, HPV33, HPV35, HPV39, HPV45, HPV51, HPV 52, HPV56, HPV58, HPV66, HPV68, HPV73, and HPV82,

wherein at least one group of HPV primers is selected from:
SD1-SA1 group consisting of the pairs of primers of SEQ ID NO:
397-398;
521-522;
609-610;
695-696;
819-820;
865-866;
947-948;
1067-1068;
1119-1120;
1267-1268;
1325-1326;
1507-1508;
1597-1598;
1655-1656;
and 1755-1756;
SD1-SA2 group consisting of the pairs of primers of SEQ ID NO:
459-460;
633-634;
687-688;
1111-1112;
1235-1236;
1341-1342;
1503-1504;
1657-1658;
and 1797-1798;
SD1-SA3 group consisting of the pairs of primers of SEQ ID NO:
381-382;
541-542;
599-600;
903-904;
941-942;
1047-1048;
1135-1136;
1287-1288;
1459-1460;
1473-1474;
1621-1622;
1717-1718;
and 1745-1746;
SD1-SA4 group consisting of the pairs of primers of SEQ ID NO:
413-414;
551-552;
637-638;
713-714;
793-794;
857-858;
981-982;
1093-1094;
1179-1180;
1227-1228;
1319-1320;
1413-1414;
1509-1510;
1563-1564;
1709-1710;
and 1791-1792;
SD1-SA5 group consisting of the pairs of primers of SEQ ID NO:
453-454;
549-550;
613-614;
747-748;
761-762;
949-950;
1163-1164;
1249-1250;
1329-1330;
1453-1454;
and 1501-1502;
SD1-SA6 group consisting of the pairs of primers of SEQ ID NO:
431-432;
595-596;
719-720;
827-828;
1089-1090;
1137-1138;
1285-1286;
1353-1354;
1561-1562;
1719-1720;
and 1763-1764;
SD1-SA7 group consisting of the pairs of primers of SEQ ID NO:
919-920;
and 1449-1450;
SD1-SA8 group consisting of the pairs of primers of SEQ ID NO:
489-490;
963-964;
and 1519-1520;
SD2-SA4 group consisting of the pairs of primers of SEQ ID NO:
387-388;
473-474;
615-616;
745-746;
815-816;
849-850;
933-934;
1091-1092;
1177-1178;
1209-1210;
1367-1368;
1437-1438;
1521-1522;
1603-1604;
1651-1652;
and 1779-1780;
SD2-SA5 group consisting of the pairs of primers of SEQ ID NO:
455-456;
529-530;
629-630;
717-718;
777-778;
975-976;
1153-1154;
1273-1274;
1347-1348;
1451-1452;
and 1531-1532;
SD2-SA6 group consisting of the pairs of primers of SEQ ID NO:
399-400;
645-646;
727-728;
811-812;
1079-1080;
1127-1128;
1253-1254;
1369-1370;
1615-1616;
1659-1660;
and 1781-1782;
SD2-SA7 group consisting of the pairs of primers of SEQ ID NO:
531-532;
899-900;
943-944;
1411-1412;
and 1495-1496;
SD2-SA9 group consisting of the pairs of primers of SEQ ID NO:
437-438;
505-506;
607-608;
739-740;
785-786;
887-888;
979-980;
1063-1064;
1185-1186;
1233-1234;
1297-1298;
1423-1424;
1491-1492;
1607-1608;
1693-1694;
and 1775-1776;
SD2-SA10 group consisting of the pairs of primers of SEQ ID NO:
545-546;
831-832;
1149-1150;
1269-1270;
1427-1428;
and 1671-1672;
SD3-SA4 group consisting of the pairs of primers of SEQ ID NO:
379-380;
483-484;
611-612;
721-722;
833-834;
911-912;
937-938;
1053-1054;
1139-1140;
1251-1252;
1335-1336;
1435-1436;
1487-1488;
1591-1592;
1715-1716;
and 1785-1786;
SD3-SA5 group consisting of the pairs of primers of SEQ ID NO:
415-416;
493-494;
593-594;
733-734;
817-818;
993-994;
1145-1146;
1243-1244;
1337-1338;
1401-1402;
and 1483-1484;
SD3-SA6 group consisting of the pairs of primers of SEQ ID NO:
435-436;
655-656;
673-674;
813-814;
1045-1046;
1173-1174;
1241-1242;
1303-1304;
1557-1558;
1627-1628;
1647-1648;
and 1773-1774;
SD3-SA7 group consisting of the pairs of primers of SEQ ID NO:
855-856;
and 1387-1388;
SD3-SA8 group consisting of the pairs of primers of SEQ ID NO:
511-512;
957-958;
and 1529-1530;
SD5-SA9 group consisting of the pairs of primers of SEQ ID NO:
419-420;
527-528;
567-568;
587-588;
683-684;
775-776;
891-892;
999-1000;
1041-1042;
1113-1114;
1247-1248;
1371-1372;
1403-1404;
1511-1512;
1617-1618;
1677-1678;
and 1733-1734;
and
SD5-SA10 group consisting of the pairs of primers of SEQ ID NO:
495-496;
837-838;
1183-1184;
1279-1280;
and 1433-1434.

231 more elements

Dependencies are inferred from the claim text.

Facts

Application: 17/011,990Filed 3 Sep 2020 · division
Priority: WO PCT/IB2014/0629267 Jul 2014
Published: US 2021/0032705 A14 Feb 2021
Granted: 20 Dec 2022
Term ends: Not estimatedThe source records don’t support an estimate.

Classification9 codes

C12Q 1/6886
For diseases caused by alterations of genetic material: for cancer
C12Q 1/70
Measuring or testing processes involving enzymes, nucleic acids or microorganisms ; Compositions therefor; Processes of preparing such…
C12Q 1/708
Specific hybridization probes: for papilloma
G16H 50/30
ICT specially adapted for medical diagnosis, medical simulation or medical data mining; ICT specially adapted for detecting, monitoring or…: for…

Family

PCT/IB2015/055136Parent of this division · filed 7 Jul 2015
US 2021/0032705 A1Pre-grant publication · published 4 Feb 2021
Application15/319,893Parent of this division
US 10,808,284 B2Parent of this division
US 2017/0107582 A1Published application
US 11,530,452 B2This patent

From the US filing history. Foreign family members aren’t listed.

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Abstract

wherein at least one group of HPV primers is selected from:
SD1-SA1 group consisting of the pairs of primers of SEQ ID NO:
397-398;
521-522;
609-610;
695-696;
819-820;
865-866;
947-948;
1067-1068;
1119-1120;
1267-1268;
1325-1326;
1507-1508;
1597-1598;
1655-1656;
and 1755-1756;
SD1-SA2 group consisting of the pairs of primers of SEQ ID NO:
459-460;
633-634;
687-688;
1111-1112;
1235-1236;
1341-1342;
1503-1504;
1657-1658;
and 1797-1798;
SD1-SA3 group consisting of the pairs of primers of SEQ ID NO:
381-382;
541-542;
599-600;
903-904;
941-942;
1047-1048;
1135-1136;
1287-1288;
1459-1460;
1473-1474;
1621-1622;
1717-1718;
and 1745-1746;
SD1-SA4 group consisting of the pairs of primers of SEQ ID NO:
413-414;
551-552;
637-638;
713-714;
793-794;
857-858;
981-982;
1093-1094;
1179-1180;
1227-1228;
1319-1320;
1413-1414;
1509-1510;
1563-1564;
1709-1710;
and 1791-1792;
SD1-SA5 group consisting of the pairs of primers of SEQ ID NO:
453-454;
549-550;
613-614;
747-748;
761-762;
949-950;
1163-1164;
1249-1250;
1329-1330;
1453-1454;
and 1501-1502;
SD1-SA6 group consisting of the pairs of primers of SEQ ID NO:
431-432;
595-596;
719-720;
827-828;
1089-1090;
1137-1138;
1285-1286;
1353-1354;
1561-1562;
1719-1720;
and 1763-1764;
SD1-SA7 group consisting of the pairs of primers of SEQ ID NO:
919-920;
and 1449-1450;
SD1-SA8 group consisting of the pairs of primers of SEQ ID NO:
489-490;
963-964;
and 1519-1520;
SD2-SA4 group consisting of the pairs of primers of SEQ ID NO:
387-388;
473-474;
615-616;
745-746;
815-816;
849-850;
933-934;
1091-1092;
1177-1178;
1209-1210;
1367-1368;
1437-1438;
1521-1522;
1603-1604;
1651-1652;
and 1779-1780;
SD2-SA5 group consisting of the pairs of primers of SEQ ID NO:
455-456;
529-530;
629-630;
717-718;
777-778;
975-976;
1153-1154;
1273-1274;
1347-1348;
1451-1452;
and 1531-1532;
SD2-SA6 group consisting of the pairs of primers of SEQ ID NO:
399-400;
645-646;
727-728;
811-812;
1079-1080;
1127-1128;
1253-1254;
1369-1370;
1615-1616;
1659-1660;
and 1781-1782;
SD2-SA7 group consisting of the pairs of primers of SEQ ID NO:
531-532;
899-900;
943-944;
1411-1412;
and 1495-1496;
SD2-SA9 group consisting of the pairs of primers of SEQ ID NO:
437-438;
505-506;
607-608;
739-740;
785-786;
887-888;
979-980;
1063-1064;
1185-1186;
1233-1234;
1297-1298;
1423-1424;
1491-1492;
1607-1608;
1693-1694;
and 1775-1776;
SD2-SA10 group consisting of the pairs of primers of SEQ ID NO:
545-546;
831-832;
1149-1150;
1269-1270;
1427-1428;
and 1671-1672;
SD3-SA4 group consisting of the pairs of primers of SEQ ID NO:
379-380;
483-484;
611-612;
721-722;
833-834;
911-912;
937-938;
1053-1054;
1139-1140;
1251-1252;
1335-1336;
1435-1436;
1487-1488;
1591-1592;
1715-1716;
and 1785-1786;
SD3-SA5 group consisting of the pairs of primers of SEQ ID NO:
415-416;
493-494;
593-594;
733-734;
817-818;
993-994;
1145-1146;
1243-1244;
1337-1338;
1401-1402;
and 1483-1484;
SD3-SA6 group consisting of the pairs of primers of SEQ ID NO:
435-436;
655-656;
673-674;
813-814;
1045-1046;
1173-1174;
1241-1242;
1303-1304;
1557-1558;
1627-1628;
1647-1648;
and 1773-1774;
SD3-SA7 group consisting of the pairs of primers of SEQ ID NO:
855-856;
and 1387-1388;
SD3-SA8 group consisting of the pairs of primers of SEQ ID NO:
511-512;
957-958;
and 1529-1530;
SD5-SA9 group consisting of the pairs of primers of SEQ ID NO:
419-420;
527-528;
567-568;
587-588;
683-684;
775-776;
891-892;
999-1000;
1041-1042;
1113-1114;
1247-1248;
1371-1372;
1403-1404;
1511-1512;
1617-1618;
1677-1678;
and 1733-1734;
and
SD5-SA10 group consisting of the pairs of primers of SEQ ID NO:
495-496;
837-838;
1183-1184;
1279-1280;
and 1433-1434.

231 more elements

Facts

Application

17/011,990Filed 3 Sep 2020 · division

Priority

WO PCT/IB2014/0629267 Jul 2014

Published

US 2021/0032705 A14 Feb 2021

Granted

20 Dec 2022

Term ends

Not estimatedThe source records don’t support an estimate.

Classification9 codes

C12Q 1/6886
For diseases caused by alterations of genetic material: for cancer
C12Q 1/70
Measuring or testing processes involving enzymes, nucleic acids or microorganisms ; Compositions therefor; Processes of preparing such…
C12Q 1/708
Specific hybridization probes: for papilloma
G16H 50/30
ICT specially adapted for medical diagnosis, medical simulation or medical data mining; ICT specially adapted for detecting, monitoring or…: for…

Family

PCT/IB2015/055136Parent of this division · filed 7 Jul 2015

US 2021/0032705 A1Pre-grant publication · published 4 Feb 2021

Application15/319,893Parent of this division

US 10,808,284 B2Parent of this division

US 2017/0107582 A1Published application

US 11,530,452 B2This patent

From the US filing history. Foreign family members aren’t listed.