7SK |
7SK-GSE69141 |
ChIRP-seq |
Human |
GSE69141 |
PRJNA284635 |
v1 |
v1 |
no |
10.1038/nsmb.3176 |
Flynn |
2016 |
download |
single_RNA |
H1 cell line |
RN7SK |
|
7SK |
ENSG00000202198 |
|
Rn7sk |
Rn7sk-GSE69141 |
ChIRP-seq |
Mouse |
GSE69141 |
PRJNA284635 |
v1 |
v1 |
no |
10.1038/nsmb.3176 |
Flynn |
2016 |
download |
single_RNA |
mES cell line |
Rn7sk |
|
7sk |
ENSMUSG00002076161 |
|
CDKN2B-AS1 |
CDKN2B-AS1-GSE162221 |
ChIRP-seq |
Human |
GSE162221 |
PRJNA681143 |
v1 |
v1 |
experimental |
10.1093/nar/gkab245 |
Alfeghaly |
2021 |
download |
single_RNA |
HEK293 cell line |
CDKN2B-AS1 |
|
ANRIL |
ENSG00000240498 |
low quality in replicate 2 |
AC087482.1 |
AC087482.1-GSE58989 |
ChIRP-seq |
Human |
GSE58989 |
PRJNA254057 |
v1 |
v1 |
computational |
10.1093/hmg/ddv343 |
Merry |
2015 |
download |
single_RNA |
HCT116 cell line |
AC087482.1 |
|
DACOR1 |
ENSG00000259347 |
triplex evidence in other papers (10.3390/ijms21030830) |
Z85996.1 |
Z85996.1-GSE76418 |
ChIRP-seq |
Human |
GSE76418 |
PRJNA307254 |
v1 |
v1 |
no |
10.1038/ng.3673 |
Schmitt |
2016 |
download |
single_RNA |
U2OS cell line |
Z85996.1 |
|
DINO |
ENSG00000285244 |
|
Bloodlinc |
Bloodlinc-GSE97119 |
ChIRP-seq |
Mouse |
GSE97119 |
PRJNA380759 |
v1 |
v1 |
no |
10.1016/j.celrep.2017.05.082 |
Alvarez-Dominguez |
2017 |
download |
single_RNA |
MEL cell line |
Bloodlinc |
|
EC7 |
ENSMUSG00000087330 |
|
Eprn |
Eprn-GSE147208 |
ChIRP-seq |
Mouse |
GSE147208 |
PRJNA613423 |
v1 |
v1 |
computational |
10.1093/nar/gkaa628 |
Zapparoli |
2020 |
NA |
single_RNA |
NMuMG-EPR cell line |
Eprn |
|
Epr |
ENSMUSG00000113346 |
|
CPEB2-DT |
CPEB2-DT-GSE156121 |
ChIRP-seq |
Human |
GSE156121 |
PRJNA656806 |
v1 |
v1 |
no |
10.1172/jci.insight.143289 |
Reddy |
2021 |
download |
single_RNA |
THP1 cell line stably overexpressing DRAIR |
CPEB2-DT |
|
DRAIR |
ENSG00000247624 |
|
FA2H-2-MLKL |
FA2H-2-MLKL-NA |
ChIRP-seq |
Human |
NA |
NA |
|
|
no |
10.1038/s41418-018-0235-z |
Guo |
2019 |
NA |
single_RNA |
THP-1 cell line |
|
|
FA2H-2-MLKL |
|
no data available |
MIR503HG |
MIR503HG-PRJEB34589 |
ChIRP-seq |
Human |
PRJEB34589 |
NA |
v1 |
v1 |
no |
10.1172/JCI135439 |
Pachera |
2020 |
NA |
single_RNA |
BJ5TA |
MIR503HG |
|
H19X |
ENSG00000223749 |
|
Gm18840 |
Gm18840-NA |
ChIRP-seq |
Mouse |
NA |
NA |
|
|
no |
10.3389/fcell.2021.615950 |
Luo |
2021 |
download |
single_RNA |
Gm18840-transduced HL-1 cell line |
Gm18840 |
|
Gm18840 |
ENSMUSG00000107568 |
|
Gm4665 |
Gm4665-GSE145189 |
ChIRP-seq |
Mouse |
GSE145189 |
PRJNA606277 |
v1 |
v1 |
no |
10.1101/gr.264333.120 |
Li |
2021 |
download |
single_RNA |
male germ cells |
Gm4665 |
|
Gm4665 |
ENSMUSG00000098127 |
|
9530018H14Rik@GLIAL |
9530018H14Rik@GLIAL-GSE70986 |
ChIRP-seq |
Mouse |
GSE70986 |
PRJNA290073 |
v1 |
v1 |
no |
10.1371/journal.pgen.1005680 |
Carlson |
2015 |
download |
single_RNA |
Glial cell line |
9530018H14Rik |
|
HOTCHON |
ENSMUSG00000102373 |
|
9530018H14Rik@LIMB |
9530018H14Rik@LIMB-GSE70986 |
ChIRP-seq |
Mouse |
GSE70986 |
PRJNA290073 |
v1 |
v1 |
no |
10.1371/journal.pgen.1005680 |
Carlson |
2015 |
download |
single_RNA |
Limb Mesenchyme |
9530018H14Rik |
|
HOTCHON |
ENSMUSG00000102373 |
|
HAND2-AS1 |
HAND2-AS1-GSE126122 |
ChIRP-seq |
Human |
GSE126122 |
PRJNA521057 |
v1 |
v1 |
no |
10.15252/embj.2018101110 |
wang |
2019 |
NA |
single_RNA |
Hepatocellular carcinoma cells |
HAND2-AS1 |
|
HAND2-AS1 |
ENSG00000237125 |
|
Hmrhl |
Hmrhl-NA |
ChIRP-seq |
Human |
NA |
NA |
|
|
computational |
10.1093/narcan/zcab042 |
Choudhury |
2021 |
download |
single_RNA |
K562 cell line |
|
|
Hmrhl |
|
|
Lin28a |
Lin28a-GSE90574 |
ChIRP-seq |
Mouse |
GSE90574 |
PRJNA355091 |
v1 |
v1 |
no |
10.7554/eLife.23468 |
Li |
2017 |
download |
single_RNA |
mES cell line |
Lin28a |
|
Lin28a |
ENSMUSG00000050966 |
|
HOTAIR |
HOTAIR-GSE31332 |
ChIRP-seq |
Human |
GSE31332 |
PRJNA146003 |
v1 |
v1 |
experimental |
10.1016/j.molcel.2011.08.027 |
Chu |
2011 |
download |
single_RNA |
MDA-MB-231 cell line |
HOTAIR |
|
HOTAIR |
ENSG00000228630 |
triplex evidence in other papers (10.1093/nar/gkw802) |
DT926623.1 |
DT926623.1-GSE66819 |
ChIRP-seq |
Mouse |
GSE66819 |
PRJNA278066 |
v1 |
v1 |
no |
10.1016/j.stem.2015.02.002 |
Luo |
2015 |
download |
single_RNA |
HPC5 cell line |
|
DT926623.1 |
lincHSC2 |
|
|
HOTTIP |
HOTTIP-GSE114981 |
ChIRP-seq |
Human |
GSE114981 |
PRJNA473439 |
v1 |
v1 |
no |
10.1016/j.ccell.2019.10.011 |
Luo |
2019 |
download |
single_RNA |
MOLM13 cell line |
HOTTIP |
|
HOTTIP |
ENSG00000243766 |
|
lncSmad7 |
lncSmad7-GSE174636 |
ChIRP-seq |
Mouse |
GSE174636 |
PRJNA730846 |
v1 |
v1 |
experimental |
doi.org/10.1093/nar/gkac083 |
Maldotti |
2022 |
NA |
single_RNA |
mES cell line |
lncSmad7 |
|
lncSmad7 |
ENSMUSG00000025880 |
|
Linc-ASEN |
Linc-ASEN-GSE128396 |
ChIRP-seq |
Human |
GSE128396 |
PRJNA527315 |
|
|
no |
10.1038/s41418-019-0467-6 |
Lee |
2020 |
download |
single_RNA |
MCF7 cell line |
|
|
Linc-ASEN |
|
no input or negative control |
LINC01667 |
LINC01667-NA |
ChIRP-seq |
Human |
NA |
NA |
|
|
no |
10.3389/fonc.2021.650173 |
Zhang |
2021 |
NA |
single_RNA |
HepG2 cell line |
|
|
LINC01667 |
|
the raw data supporting the conclusions of this article will be made available by the authors, without undue reservation, to any qualified researcher. |
1200007C13Rik@4T1 |
1200007C13Rik@4T1-GSE142169 |
ChIRP-seq |
Mouse |
GSE142169 |
PRJNA596185 |
v1 |
v1 |
no |
10.1038/s41467-020-20207 |
Chang |
2020 |
download |
single_RNA |
4T1 cell line |
1200007C13Rik |
|
MaTAR25 |
ENSMUSG00000087684 |
the number of peaks provided by the authors is equal to the maximum number of rows in xls files |
LINC01605 |
LINC01605-GSE112602 |
ChIRP-seq |
Human |
GSE112602 |
PRJNA448439 |
|
|
no |
10.1038/s41598-018-25530-5 |
Forrest |
2018 |
download |
single_RNA |
VACO 703 cell line |
LINC01605 |
|
lncDUSP |
ENSG00000253161 |
small number of reads in fastqs (3543) |
MALAT1 |
MALAT1-GSE58444 |
CHART-seq |
Human |
GSE58444 |
PRJNA252626 |
v1 |
v1 |
no |
10.1016/j.molcel.2014.07.012 |
West |
2014 |
download |
single_RNA |
MCF7 cell line |
MALAT1 |
|
MALAT1 |
ENSG00000251562 |
|
MEG3 |
MEG3-PRJEB7307 |
ChOP-seq |
Human |
PRJEB7307 |
NA |
v1 |
v1 |
experimental |
10.1038/ncomms8743 |
Mondal |
2015 |
download |
single_RNA |
BT-549 cell line |
MEG3 |
|
MEG3 |
ENST00000451743 |
|
NEAT1 |
NEAT1-GSE58444 |
CHART-seq |
Human |
GSE58444 |
PRJNA252626 |
v1 |
v1 |
experimental |
10.1016/j.molcel.2014.07.012 |
West |
2014 |
download |
single_RNA |
MCF-7 cell line |
NEAT1 |
|
NEAT1 |
ENSG00000245532 |
triplex evidence in other papers (10.1093/nar/gky1305) |
1200007C13Rik@NDL |
1200007C13Rik@NDL-GSE142169 |
ChIRP-seq |
Mouse |
GSE142169 |
PRJNA596185 |
v1 |
v1 |
no |
10.1038/s41467-020-20207 |
Chang |
2020 |
download |
single_RNA |
NDL cell line |
1200007C13Rik |
|
MaTAR25 |
ENSMUSG00000087684 |
the number of peaks provided by the authors is equal to the maximum number of rows in xls files |
NFKBMARL-1 |
NFKBMARL-1-GSE167504 |
ChIRP-seq |
Human |
GSE167504 |
PRJNA704835 |
|
|
no |
10.1038/s43587-021-00056-0 |
Cai |
2021 |
download |
single_RNA |
IMR90 cell line |
|
|
NFKBMARL-1 |
|
unclear positive control, negative control and input definition |
NRAD1 |
NRAD1-NA |
ChIRP-seq |
Human |
NA |
NA |
|
|
no |
10.1038/s41418-019-0362-1 |
Vidovic |
2020 |
NA |
single_RNA |
MDA-MB-468 cell line |
|
|
NRAD1 |
ENSG00000233725 |
no data available |
Meg3 |
Meg3-GSE99798 |
ChIRP-seq |
Mouse |
GSE99798 |
PRJNA389664 |
v1 |
v1 |
experimental |
10.1128/MCB.00278-17 |
Iyer |
2017 |
download |
single_RNA |
MIN6-4N cell line |
Meg3 |
|
Meg3 |
ENSMUSG00000021268 |
|
AK156552.1 |
AK156552.1-GSE73805 |
ChIRP-seq |
Mouse |
GSE73805 |
PRJNA297950 |
v1 |
v1 |
poor |
10.1016/j.celrep.2017.11.045 |
Wang |
2018 |
download |
single_RNA |
mES cell line |
|
AK156552.1 |
Panct1 |
|
|
PCGEM1 |
PCGEM1-GSE47804 |
ChIRP-seq |
Human |
GSE47804 |
PRJNA207830 |
|
|
no |
10.1038/nature12451 |
Yang |
2013 |
download |
single_RNA |
LNCaP cell line |
|
|
PCGEM1 |
ENSG00000227418 |
no input or negative control |
Rmrp |
Rmrp-GSE73912 |
ChIRP-seq |
Mouse |
GSE73912 |
PRJNA298543 |
|
|
no |
10.1038/nature16193 |
Huang |
2015 |
download |
single_RNA |
|
Rmrp |
|
RMRP |
ENSMUSG00000115420 |
Retracted article |
AL109615.3 |
AL109615.3-GSE136185 |
CHART-seq |
Human |
GSE136185 |
PRJNA561525 |
v1 |
v1 |
no |
10.1158/0008-5472.CAN-20-2612. |
Zagorac |
2021 |
NA |
single_RNA |
MDA-MB-231 sphere-derived cell |
AL109615.3 |
|
SCIRT |
ENSG00000237686 |
|
AC018781.1 |
AC018781.1-GSE104479 |
ChIRP-seq |
Human |
GSE104479 |
PRJNA412810 |
v1 |
v1 |
no |
10.1002/art.41200 |
Fan |
2020 |
download |
single_RNA |
Jurkat cell line |
AC018781.1 |
|
SLEAR |
ENSG00000248599 |
|
SNHG11 |
SNHG11-NA |
ChIRP-seq |
Human |
NA |
NA |
|
|
no |
10.1038/s41388-020-01512-8 |
Xu |
2020 |
download |
single_RNA |
hypoxia-treated HCT-116 cell line |
|
|
SNHG11 |
ENSG00000174365 |
no data available |
SRA1 |
SRA1-GSE58641 |
ChIRP-seq |
Human |
GSE58641 |
PRJNA253062 |
v1 |
v1 |
no |
10.1371/journal.pgen.1005615 |
Wongtrakoongate |
2015 |
download |
single_RNA |
NTERA2 pluripotent stem cell line |
SRA1 |
|
SRA |
ENSG00000213523 |
|
Tug1 |
Tug1-GSE77493 |
ChIRP-seq |
Mouse |
GSE77493 |
PRJNA310632 |
v1 |
v1 |
speculated |
10.1172/JCI87927 |
Long |
2016 |
download |
single_RNA |
Conditionally immortalized mouse podocytes |
Tug1 |
|
Tug1 |
ENSMUSG00000056579 |
|
ROX2 |
ROX2-GSE31332 |
ChIRP-seq |
Drosophila |
GSE31332 |
PRJNA146003 |
|
|
no |
10.1016/j.molcel.2011.08.027 |
Chu |
2011 |
download |
single_RNA |
S2 cell line |
|
|
ROX2 |
|
|
TERC |
TERC-GSE31332 |
ChIRP-seq |
Human |
GSE31332 |
PRJNA146003 |
v1 |
v1 |
experimental |
10.1016/j.molcel.2011.08.027 |
Chu |
2011 |
download |
single_RNA |
cell line V703 (Patient-derived colon cancer) |
TERC |
|
TERC |
ENSG00000277925 |
triplex evidence in other papers (10.1093/nar/gkz584) |
Xist |
Xist-GSE137305 |
RAP-seq |
Mouse |
GSE137305 |
PRJNA565139 |
|
|
experimental |
10.1126/science.1237973 |
Engreitz |
2013 |
|
single_RNA |
ES cell line |
Xist |
|
Xist |
ENSMUSG00000086503 |
chrX only; triplex evidence in other papers (10.1186/s13100-019-0173-4) |
GSE93281@Mouse |
GSE93281@Mouse-GSE93281 |
ChIRP-seq |
Mouse |
GSE93281 |
PRJNA360462 |
|
|
no |
10.1093/nar/gkx055 |
Hu |
2017 |
|
ERV-9 assoc. lncRNAs |
day 5 Tg mouse spleen |
|
|
NA |
|
|
GSE93281@Human |
GSE93281@Human-GSE93281 |
ChIRP-seq |
Human |
GSE93281 |
PRJNA360462 |
|
|
no |
10.1093/nar/gkx055 |
Hu |
2017 |
|
ERV-9 assoc. lncRNAs |
day 13 erythroblast |
|
|
NA |
|
|
GSE132192 |
GSE132192-GSE132192 |
RADICL-seq |
Mouse |
GSE132192 |
PRJNA546280 |
|
|
NA |
10.1038/s41467-020-14337-6 |
Bonetti |
2020 |
|
all_RNAs |
mES cell line |
|
|
NA |
|
|
GSE82312@Drosophila |
GSE82312@Drosophila-GSE82312 |
GRID-seq |
Drosophila |
GSE82312 |
PRJNA324602 |
|
|
NA |
10.1038/nbt.3968 |
Li |
2017 |
|
all_RNAs |
S2 cell line |
|
|
NA |
|
|
GSE82312@Human |
GSE82312@Human-GSE82312 |
GRID-seq |
Human |
GSE82312 |
PRJNA324602 |
|
|
NA |
10.1038/nbt.3968 |
Li |
2017 |
|
all_RNAs |
MDA-MB-231 breast cancer cell line (HTB-26, ATCC) |
|
|
NA |
|
|
GSE82312@Mouse |
GSE82312@Mouse-GSE82312 |
GRID-seq |
Mouse |
GSE82312 |
PRJNA324602 |
|
|
NA |
10.1038/nbt.3968 |
Li |
2017 |
|
all_RNAs |
mES cell line |
|
|
NA |
|
|
GSE92345@ES |
GSE92345@ES-GSE92345 |
MARGI-seq |
Human |
GSE92345 |
PRJNA357269 |
|
|
NA |
10.1016/j.cub.2017.01.011 |
Sridhar |
2017 |
|
all_RNAs |
ES cell line |
|
|
NA |
|
|
GSE92345@H9 |
GSE92345@H9-GSE92345 |
MARGI-seq |
Human |
GSE92345 |
PRJNA357269 |
|
|
NA |
10.1016/j.cub.2017.01.011 |
Sridhar |
2017 |
|
all_RNAs |
H9 cell line |
|
|
NA |
|
|
GSE97131 |
GSE97131-GSE97131 |
ChAR-seq |
Drosophila |
GSE97131 |
PRJNA380782 |
|
|
NA |
10.7554/eLife.27024.001 |
Bell |
2018 |
|
all_RNAs |
CME-W1-cl8+ cell line |
|
|
NA |
|
|