Transcriptome-wide profiles of circular RNA and RNA-binding protein interactions reveal effects on circular RNA biogenesis and cancer pathway expression.
Trine Line Hauge Okholm, Shashank Sathe, Samuel S Park, Andreas Bjerregaard Kamstrup, Asta Mannstaedt Rasmussen, Archana Shankar, Zong Ming Chua, Niels Fristrup, Morten Muhlig Nielsen, Søren Vang, Lars Dyrskjøt, Stefan Aigner, Christian Kroun Damgaard, Gene W Yeo, Jakob Skou Pedersen
Genome medicine · 2020 · Vol. 12 (1) · pp. 112
Abstract
Circular RNAs (circRNAs) are stable, often highly expressed RNA transcripts with potential to modulate other regulatory RNAs. A few circRNAs have been shown to bind RNA-binding proteins (RBPs); however, little is known about the prevalence and distribution of these interactions in different biological contexts. We conduct an extensive screen of circRNA-RBP interactions in the ENCODE cell lines HepG2 and K562. We profile circRNAs in deep-sequenced total RNA samples and analyze circRNA-RBP interactions using a large set of eCLIP data with binding sites of 150 RBPs. We validate interactions for select circRNAs and RBPs by performing RNA immunoprecipitation and functionally characterize our most interesting candidates by conducting knockdown studies followed by RNA-Seq. We generate a comprehensive catalog of circRNA-RBP interactions in HepG2 and K562 cells. We show that KHSRP binding sites are enriched in flanking introns of circRNAs and that KHSRP depletion affects circRNA biogenesis. We identify circRNAs that are highly covered by RBP binding sites and experimentally validate individual circRNA-RBP interactions. We show that circCDYL, a highly expressed circRNA with clinical and functional implications in bladder cancer, is almost completely covered with GRWD1 binding sites in HepG2 cells, and that circCDYL depletion counteracts the effect of GRWD1 depletion. Furthermore, we confirm interactions between circCDYL and RBPs in bladder cancer cells and demonstrate that circCDYL depletion affects hallmarks of cancer and perturbs the expression of key cancer genes, e.g., TP53. Finally, we show that elevated levels of circCDYL are associated with overall survival of bladder cancer patients. Our study demonstrates transcriptome-wide and cell-type-specific circRNA-RBP interactions that could play important regulatory roles in tumorigenesis.
Linked datasets 2
Total RNA-Seq of KHSRP knockdown (KD) and control samples in HepG2 and K562
Homo sapiens
16 data files
| File | Type | Size |
|---|---|---|
| HepG2_KHSRP_1_S7_L005_R1_001.fastq.gz | RNA-Seq | 3.0 GB |
| HepG2_KHSRP_2_S8_L005_R1_001.fastq.gz | RNA-Seq | 3.0 GB |
| HepG2_NonTargeting_1_S5_L005_R1_001.fastq.gz | RNA-Seq | 4.6 GB |
| HepG2_NonTargeting_2_S6_L005_R1_001.fastq.gz | RNA-Seq | 4.4 GB |
| K562_KHSRP_1_S3_L005_R1_001.fastq.gz | RNA-Seq | 3.7 GB |
| K562_KHSRP_2_S4_L005_R1_001.fastq.gz | RNA-Seq | 4.0 GB |
| K562_NonTargeting_1_S1_L005_R1_001.fastq.gz | RNA-Seq | 3.5 GB |
| K562_NonTargeting_2_S2_L005_R1_001.fastq.gz | RNA-Seq | 3.1 GB |
| SRR11186531_GSM4340681 | RNA-Seq | 3.0 GB |
| SRR11186532_GSM4340682 | RNA-Seq | 3.0 GB |
| SRR11186533_GSM4340683 | RNA-Seq | 4.6 GB |
| SRR11186534_GSM4340684 | RNA-Seq | 4.4 GB |
| SRR11186535_GSM4340685 | RNA-Seq | 3.7 GB |
| SRR11186536_GSM4340686 | RNA-Seq | 4.0 GB |
| SRR11186537_GSM4340687 | RNA-Seq | 3.5 GB |
| SRR11186538_GSM4340688 | RNA-Seq | 3.1 GB |
RNA-Seq of circCDYL knockdown (KD) samples in HepG2, J82, and UMUC3 cells and of GRWD1, IGF2BP1, and IGF2BP2 knockdown (KD) samples in J82 and UMUC3 …
Homo sapiens
290 data files
| File | Type | Size |
|---|---|---|
| Cdyl_N205-178_N205-178_S13_L001_R1_001.fastq.gz | RNA-Seq | 98.2 MB |
| Cdyl_N205-178_N205-178_S13_L002_R1_001.fastq.gz | RNA-Seq | 96.3 MB |
| Cdyl_N205-178_N205-178_S13_L003_R1_001.fastq.gz | RNA-Seq | 99.0 MB |
| Cdyl_N205-178_N205-178_S13_L004_R1_001.fastq.gz | RNA-Seq | 97.3 MB |
| Cdyl_N205-179_N205-179_S14_L001_R1_001.fastq.gz | RNA-Seq | 92.4 MB |
| Cdyl_N205-179_N205-179_S14_L002_R1_001.fastq.gz | RNA-Seq | 90.8 MB |
| Cdyl_N205-179_N205-179_S14_L003_R1_001.fastq.gz | RNA-Seq | 93.2 MB |
| Cdyl_N205-179_N205-179_S14_L004_R1_001.fastq.gz | RNA-Seq | 91.7 MB |
| Cdyl_N205-180_N205-180_S15_L001_R1_001.fastq.gz | RNA-Seq | 100.3 MB |
| Cdyl_N205-180_N205-180_S15_L002_R1_001.fastq.gz | RNA-Seq | 98.3 MB |
| Cdyl_N205-180_N205-180_S15_L003_R1_001.fastq.gz | RNA-Seq | 101.6 MB |
| Cdyl_N205-180_N205-180_S15_L004_R1_001.fastq.gz | RNA-Seq | 99.2 MB |
| Cdyl_N205-181_N205-181_S16_L001_R1_001.fastq.gz | RNA-Seq | 124.3 MB |
| Cdyl_N205-181_N205-181_S16_L002_R1_001.fastq.gz | RNA-Seq | 122.1 MB |
| Cdyl_N205-181_N205-181_S16_L003_R1_001.fastq.gz | RNA-Seq | 125.6 MB |
| Cdyl_N205-181_N205-181_S16_L004_R1_001.fastq.gz | RNA-Seq | 123.0 MB |
| Cdyl_N205-182_N205-182_S17_L001_R1_001.fastq.gz | RNA-Seq | 95.2 MB |
| Cdyl_N205-182_N205-182_S17_L002_R1_001.fastq.gz | RNA-Seq | 93.7 MB |
| Cdyl_N205-182_N205-182_S17_L003_R1_001.fastq.gz | RNA-Seq | 96.6 MB |
| Cdyl_N205-182_N205-182_S17_L004_R1_001.fastq.gz | RNA-Seq | 94.6 MB |
| Cdyl_N205-183_N205-183_S18_L001_R1_001.fastq.gz | RNA-Seq | 92.4 MB |
| Cdyl_N205-183_N205-183_S18_L002_R1_001.fastq.gz | RNA-Seq | 90.6 MB |
| Cdyl_N205-183_N205-183_S18_L003_R1_001.fastq.gz | RNA-Seq | 93.4 MB |
| Cdyl_N205-183_N205-183_S18_L004_R1_001.fastq.gz | RNA-Seq | 91.5 MB |
| Cdyl_N205-200_N205-200_S35_L001_R1_001.fastq.gz | RNA-Seq | 94.5 MB |
| Cdyl_N205-200_N205-200_S35_L002_R1_001.fastq.gz | RNA-Seq | 92.7 MB |
| Cdyl_N205-200_N205-200_S35_L003_R1_001.fastq.gz | RNA-Seq | 95.6 MB |
| Cdyl_N205-200_N205-200_S35_L004_R1_001.fastq.gz | RNA-Seq | 93.5 MB |
| Cdyl_N205-201_N205-201_S36_L001_R1_001.fastq.gz | RNA-Seq | 98.0 MB |
| Cdyl_N205-201_N205-201_S36_L002_R1_001.fastq.gz | RNA-Seq | 96.4 MB |
| Cdyl_N205-201_N205-201_S36_L003_R1_001.fastq.gz | RNA-Seq | 99.6 MB |
| Cdyl_N205-201_N205-201_S36_L004_R1_001.fastq.gz | RNA-Seq | 97.5 MB |
| Cdyl_N205-202_N205-202_S37_L001_R1_001.fastq.gz | RNA-Seq | 132.6 MB |
| Cdyl_N205-202_N205-202_S37_L002_R1_001.fastq.gz | RNA-Seq | 130.0 MB |
| Cdyl_N205-202_N205-202_S37_L003_R1_001.fastq.gz | RNA-Seq | 134.8 MB |
| Cdyl_N205-202_N205-202_S37_L004_R1_001.fastq.gz | RNA-Seq | 131.5 MB |
| GRWD1_N205-169_N205-169_S4_L001_R1_001.fastq.gz | RNA-Seq | 86.3 MB |
| GRWD1_N205-169_N205-169_S4_L002_R1_001.fastq.gz | RNA-Seq | 84.8 MB |
| GRWD1_N205-169_N205-169_S4_L003_R1_001.fastq.gz | RNA-Seq | 87.2 MB |
| GRWD1_N205-169_N205-169_S4_L004_R1_001.fastq.gz | RNA-Seq | 85.6 MB |
| GRWD1_N205-170_N205-170_S5_L001_R1_001.fastq.gz | RNA-Seq | 101.5 MB |
| GRWD1_N205-170_N205-170_S5_L002_R1_001.fastq.gz | RNA-Seq | 100.2 MB |
| GRWD1_N205-170_N205-170_S5_L003_R1_001.fastq.gz | RNA-Seq | 102.7 MB |
| GRWD1_N205-170_N205-170_S5_L004_R1_001.fastq.gz | RNA-Seq | 100.8 MB |
| GRWD1_N205-171_N205-171_S6_L001_R1_001.fastq.gz | RNA-Seq | 79.8 MB |
| GRWD1_N205-171_N205-171_S6_L002_R1_001.fastq.gz | RNA-Seq | 77.6 MB |
| GRWD1_N205-171_N205-171_S6_L003_R1_001.fastq.gz | RNA-Seq | 80.2 MB |
| GRWD1_N205-171_N205-171_S6_L004_R1_001.fastq.gz | RNA-Seq | 77.7 MB |
| GRWD1_N205-191_N205-191_S26_L001_R1_001.fastq.gz | RNA-Seq | 100.8 MB |
| GRWD1_N205-191_N205-191_S26_L002_R1_001.fastq.gz | RNA-Seq | 99.1 MB |
| GRWD1_N205-191_N205-191_S26_L003_R1_001.fastq.gz | RNA-Seq | 102.2 MB |
| GRWD1_N205-191_N205-191_S26_L004_R1_001.fastq.gz | RNA-Seq | 100.0 MB |
| GRWD1_N205-192_N205-192_S27_L001_R1_001.fastq.gz | RNA-Seq | 114.6 MB |
| GRWD1_N205-192_N205-192_S27_L002_R1_001.fastq.gz | RNA-Seq | 113.1 MB |
| GRWD1_N205-192_N205-192_S27_L003_R1_001.fastq.gz | RNA-Seq | 116.2 MB |
| GRWD1_N205-192_N205-192_S27_L004_R1_001.fastq.gz | RNA-Seq | 114.1 MB |
| GRWD1_N205-193_N205-193_S28_L001_R1_001.fastq.gz | RNA-Seq | 99.1 MB |
| GRWD1_N205-193_N205-193_S28_L002_R1_001.fastq.gz | RNA-Seq | 97.2 MB |
| GRWD1_N205-193_N205-193_S28_L003_R1_001.fastq.gz | RNA-Seq | 100.1 MB |
| GRWD1_N205-193_N205-193_S28_L004_R1_001.fastq.gz | RNA-Seq | 98.3 MB |
| IGF2BP1_N205-166_N205-166_S1_L001_R1_001.fastq.gz | RNA-Seq | 171.5 MB |
| IGF2BP1_N205-166_N205-166_S1_L002_R1_001.fastq.gz | RNA-Seq | 168.5 MB |
| IGF2BP1_N205-166_N205-166_S1_L003_R1_001.fastq.gz | RNA-Seq | 173.1 MB |
| IGF2BP1_N205-166_N205-166_S1_L004_R1_001.fastq.gz | RNA-Seq | 170.2 MB |
| IGF2BP1_N205-167_N205-167_S2_L001_R1_001.fastq.gz | RNA-Seq | 107.3 MB |
| IGF2BP1_N205-167_N205-167_S2_L002_R1_001.fastq.gz | RNA-Seq | 105.4 MB |
| IGF2BP1_N205-167_N205-167_S2_L003_R1_001.fastq.gz | RNA-Seq | 108.4 MB |
| IGF2BP1_N205-167_N205-167_S2_L004_R1_001.fastq.gz | RNA-Seq | 106.5 MB |
| IGF2BP1_N205-168_N205-168_S3_L001_R1_001.fastq.gz | RNA-Seq | 88.6 MB |
| IGF2BP1_N205-168_N205-168_S3_L002_R1_001.fastq.gz | RNA-Seq | 87.1 MB |
| IGF2BP1_N205-168_N205-168_S3_L003_R1_001.fastq.gz | RNA-Seq | 89.3 MB |
| IGF2BP1_N205-168_N205-168_S3_L004_R1_001.fastq.gz | RNA-Seq | 87.9 MB |
| IGF2BP1_N205-188_N205-188_S23_L001_R1_001.fastq.gz | RNA-Seq | 113.4 MB |
| IGF2BP1_N205-188_N205-188_S23_L002_R1_001.fastq.gz | RNA-Seq | 111.6 MB |
| IGF2BP1_N205-188_N205-188_S23_L003_R1_001.fastq.gz | RNA-Seq | 114.8 MB |
| IGF2BP1_N205-188_N205-188_S23_L004_R1_001.fastq.gz | RNA-Seq | 112.6 MB |
| IGF2BP1_N205-189_N205-189_S24_L001_R1_001.fastq.gz | RNA-Seq | 116.3 MB |
| IGF2BP1_N205-189_N205-189_S24_L002_R1_001.fastq.gz | RNA-Seq | 114.5 MB |
| IGF2BP1_N205-189_N205-189_S24_L003_R1_001.fastq.gz | RNA-Seq | 118.4 MB |
| IGF2BP1_N205-189_N205-189_S24_L004_R1_001.fastq.gz | RNA-Seq | 115.8 MB |
| IGF2BP1_N205-190_N205-190_S25_L001_R1_001.fastq.gz | RNA-Seq | 83.2 MB |
| IGF2BP1_N205-190_N205-190_S25_L002_R1_001.fastq.gz | RNA-Seq | 81.8 MB |
| IGF2BP1_N205-190_N205-190_S25_L003_R1_001.fastq.gz | RNA-Seq | 84.0 MB |
| IGF2BP1_N205-190_N205-190_S25_L004_R1_001.fastq.gz | RNA-Seq | 82.5 MB |
| IGF2BP2_N205-175_N205-175_S10_L001_R1_001.fastq.gz | RNA-Seq | 86.1 MB |
| IGF2BP2_N205-175_N205-175_S10_L002_R1_001.fastq.gz | RNA-Seq | 84.5 MB |
| IGF2BP2_N205-175_N205-175_S10_L003_R1_001.fastq.gz | RNA-Seq | 87.0 MB |
| IGF2BP2_N205-175_N205-175_S10_L004_R1_001.fastq.gz | RNA-Seq | 85.2 MB |
| IGF2BP2_N205-176_N205-176_S11_L001_R1_001.fastq.gz | RNA-Seq | 102.4 MB |
| IGF2BP2_N205-176_N205-176_S11_L002_R1_001.fastq.gz | RNA-Seq | 100.7 MB |
| IGF2BP2_N205-176_N205-176_S11_L003_R1_001.fastq.gz | RNA-Seq | 103.4 MB |
| IGF2BP2_N205-176_N205-176_S11_L004_R1_001.fastq.gz | RNA-Seq | 101.6 MB |
| IGF2BP2_N205-177_N205-177_S12_L001_R1_001.fastq.gz | RNA-Seq | 106.1 MB |
| IGF2BP2_N205-177_N205-177_S12_L002_R1_001.fastq.gz | RNA-Seq | 104.3 MB |
| IGF2BP2_N205-177_N205-177_S12_L003_R1_001.fastq.gz | RNA-Seq | 107.1 MB |
| IGF2BP2_N205-177_N205-177_S12_L004_R1_001.fastq.gz | RNA-Seq | 105.2 MB |
| IGF2BP2_N205-197_N205-197_S32_L001_R1_001.fastq.gz | RNA-Seq | 101.2 MB |
| IGF2BP2_N205-197_N205-197_S32_L002_R1_001.fastq.gz | RNA-Seq | 99.5 MB |
| IGF2BP2_N205-197_N205-197_S32_L003_R1_001.fastq.gz | RNA-Seq | 102.5 MB |
| IGF2BP2_N205-197_N205-197_S32_L004_R1_001.fastq.gz | RNA-Seq | 100.4 MB |
| IGF2BP2_N205-198_N205-198_S33_L001_R1_001.fastq.gz | RNA-Seq | 95.9 MB |
| IGF2BP2_N205-198_N205-198_S33_L002_R1_001.fastq.gz | RNA-Seq | 93.9 MB |
| IGF2BP2_N205-198_N205-198_S33_L003_R1_001.fastq.gz | RNA-Seq | 96.5 MB |
| IGF2BP2_N205-198_N205-198_S33_L004_R1_001.fastq.gz | RNA-Seq | 94.7 MB |
| IGF2BP2_N205-199_N205-199_S34_L001_R1_001.fastq.gz | RNA-Seq | 93.4 MB |
| IGF2BP2_N205-199_N205-199_S34_L002_R1_001.fastq.gz | RNA-Seq | 91.5 MB |
| IGF2BP2_N205-199_N205-199_S34_L003_R1_001.fastq.gz | RNA-Seq | 94.5 MB |
| IGF2BP2_N205-199_N205-199_S34_L004_R1_001.fastq.gz | RNA-Seq | 92.5 MB |
| scramble_N205-172_N205-172_S7_L001_R1_001.fastq.gz | RNA-Seq | 88.8 MB |
| scramble_N205-172_N205-172_S7_L002_R1_001.fastq.gz | RNA-Seq | 87.1 MB |
| scramble_N205-172_N205-172_S7_L003_R1_001.fastq.gz | RNA-Seq | 89.5 MB |
| scramble_N205-172_N205-172_S7_L004_R1_001.fastq.gz | RNA-Seq | 87.9 MB |
| scramble_N205-173_N205-173_S8_L001_R1_001.fastq.gz | RNA-Seq | 95.0 MB |
| scramble_N205-173_N205-173_S8_L002_R1_001.fastq.gz | RNA-Seq | 93.3 MB |
| scramble_N205-173_N205-173_S8_L003_R1_001.fastq.gz | RNA-Seq | 95.7 MB |
| scramble_N205-173_N205-173_S8_L004_R1_001.fastq.gz | RNA-Seq | 94.1 MB |
| scramble_N205-174_N205-174_S9_L001_R1_001.fastq.gz | RNA-Seq | 161.6 MB |
| scramble_N205-174_N205-174_S9_L002_R1_001.fastq.gz | RNA-Seq | 158.5 MB |
| scramble_N205-174_N205-174_S9_L003_R1_001.fastq.gz | RNA-Seq | 162.8 MB |
| scramble_N205-174_N205-174_S9_L004_R1_001.fastq.gz | RNA-Seq | 160.0 MB |
| scramble_N205-184_N205-184_S19_L001_R1_001.fastq.gz | RNA-Seq | 91.7 MB |
| scramble_N205-184_N205-184_S19_L002_R1_001.fastq.gz | RNA-Seq | 90.0 MB |
| scramble_N205-184_N205-184_S19_L003_R1_001.fastq.gz | RNA-Seq | 92.6 MB |
| scramble_N205-184_N205-184_S19_L004_R1_001.fastq.gz | RNA-Seq | 90.8 MB |
| scramble_N205-185_N205-185_S20_L001_R1_001.fastq.gz | RNA-Seq | 88.4 MB |
| scramble_N205-185_N205-185_S20_L002_R1_001.fastq.gz | RNA-Seq | 86.9 MB |
| scramble_N205-185_N205-185_S20_L003_R1_001.fastq.gz | RNA-Seq | 89.3 MB |
| scramble_N205-185_N205-185_S20_L004_R1_001.fastq.gz | RNA-Seq | 87.7 MB |
| scramble_N205-186_N205-186_S21_L001_R1_001.fastq.gz | RNA-Seq | 97.6 MB |
| scramble_N205-186_N205-186_S21_L002_R1_001.fastq.gz | RNA-Seq | 95.8 MB |
| scramble_N205-186_N205-186_S21_L003_R1_001.fastq.gz | RNA-Seq | 98.9 MB |
| scramble_N205-186_N205-186_S21_L004_R1_001.fastq.gz | RNA-Seq | 96.9 MB |
| scramble_N205-194_N205-194_S29_L001_R1_001.fastq.gz | RNA-Seq | 85.1 MB |
| scramble_N205-194_N205-194_S29_L002_R1_001.fastq.gz | RNA-Seq | 83.5 MB |
| scramble_N205-194_N205-194_S29_L003_R1_001.fastq.gz | RNA-Seq | 85.9 MB |
| scramble_N205-194_N205-194_S29_L004_R1_001.fastq.gz | RNA-Seq | 84.3 MB |
| scramble_N205-195_N205-195_S30_L001_R1_001.fastq.gz | RNA-Seq | 101.9 MB |
| scramble_N205-195_N205-195_S30_L002_R1_001.fastq.gz | RNA-Seq | 100.5 MB |
| scramble_N205-195_N205-195_S30_L003_R1_001.fastq.gz | RNA-Seq | 103.4 MB |
| scramble_N205-195_N205-195_S30_L004_R1_001.fastq.gz | RNA-Seq | 101.6 MB |
| scramble_N205-196_N205-196_S31_L001_R1_001.fastq.gz | RNA-Seq | 111.1 MB |
| scramble_N205-196_N205-196_S31_L002_R1_001.fastq.gz | RNA-Seq | 109.2 MB |
| scramble_N205-196_N205-196_S31_L003_R1_001.fastq.gz | RNA-Seq | 112.5 MB |
| scramble_N205-196_N205-196_S31_L004_R1_001.fastq.gz | RNA-Seq | 110.3 MB |
| SRR11281549_GSM4404824 | RNA-Seq | 124.0 MB |
| SRR11281550_GSM4404824 | RNA-Seq | 122.0 MB |
| SRR11281551_GSM4404824 | RNA-Seq | 125.0 MB |
| SRR11281552_GSM4404824 | RNA-Seq | 122.0 MB |
| SRR11281553_GSM4404825 | RNA-Seq | 95.0 MB |
| SRR11281554_GSM4404825 | RNA-Seq | 93.0 MB |
| SRR11281555_GSM4404825 | RNA-Seq | 96.0 MB |
| SRR11281556_GSM4404825 | RNA-Seq | 94.0 MB |
| SRR11281557_GSM4404826 | RNA-Seq | 92.0 MB |
| SRR11281558_GSM4404826 | RNA-Seq | 90.0 MB |
| SRR11281559_GSM4404826 | RNA-Seq | 93.0 MB |
| SRR11281560_GSM4404826 | RNA-Seq | 91.0 MB |
| SRR11281561_GSM4404827 | RNA-Seq | 91.0 MB |
| SRR11281562_GSM4404827 | RNA-Seq | 90.0 MB |
| SRR11281563_GSM4404827 | RNA-Seq | 92.0 MB |
| SRR11281564_GSM4404827 | RNA-Seq | 90.0 MB |
| SRR11281565_GSM4404828 | RNA-Seq | 88.0 MB |
| SRR11281566_GSM4404828 | RNA-Seq | 86.0 MB |
| SRR11281567_GSM4404828 | RNA-Seq | 89.0 MB |
| SRR11281568_GSM4404828 | RNA-Seq | 87.0 MB |
| SRR11281569_GSM4404829 | RNA-Seq | 97.0 MB |
| SRR11281570_GSM4404829 | RNA-Seq | 95.0 MB |
| SRR11281571_GSM4404829 | RNA-Seq | 98.0 MB |
| SRR11281572_GSM4404829 | RNA-Seq | 96.0 MB |
| SRR11281573_GSM4404830 | RNA-Seq | 94.0 MB |
| SRR11281574_GSM4404830 | RNA-Seq | 92.0 MB |
| SRR11281575_GSM4404830 | RNA-Seq | 95.0 MB |
| SRR11281576_GSM4404830 | RNA-Seq | 93.0 MB |
| SRR11281577_GSM4404831 | RNA-Seq | 97.0 MB |
| SRR11281578_GSM4404831 | RNA-Seq | 96.0 MB |
| SRR11281579_GSM4404831 | RNA-Seq | 99.0 MB |
| SRR11281580_GSM4404831 | RNA-Seq | 97.0 MB |
| SRR11281581_GSM4404832 | RNA-Seq | 132.0 MB |
| SRR11281582_GSM4404832 | RNA-Seq | 130.0 MB |
| SRR11281583_GSM4404832 | RNA-Seq | 134.0 MB |
| SRR11281584_GSM4404832 | RNA-Seq | 131.0 MB |
| SRR11281585_GSM4404833 | RNA-Seq | 100.0 MB |
| SRR11281586_GSM4404833 | RNA-Seq | 99.0 MB |
| SRR11281587_GSM4404833 | RNA-Seq | 102.0 MB |
| SRR11281588_GSM4404833 | RNA-Seq | 99.0 MB |
| SRR11281589_GSM4404834 | RNA-Seq | 114.0 MB |
| SRR11281590_GSM4404834 | RNA-Seq | 113.0 MB |
| SRR11281591_GSM4404834 | RNA-Seq | 116.0 MB |
| SRR11281592_GSM4404834 | RNA-Seq | 114.0 MB |
| SRR11281593_GSM4404835 | RNA-Seq | 99.0 MB |
| SRR11281594_GSM4404835 | RNA-Seq | 97.0 MB |
| SRR11281595_GSM4404835 | RNA-Seq | 100.0 MB |
| SRR11281596_GSM4404835 | RNA-Seq | 98.0 MB |
| SRR11281597_GSM4404836 | RNA-Seq | 113.0 MB |
| SRR11281598_GSM4404836 | RNA-Seq | 111.0 MB |
| SRR11281599_GSM4404836 | RNA-Seq | 114.0 MB |
| SRR11281600_GSM4404836 | RNA-Seq | 112.0 MB |
| SRR11281601_GSM4404837 | RNA-Seq | 116.0 MB |
| SRR11281602_GSM4404837 | RNA-Seq | 114.0 MB |
| SRR11281603_GSM4404837 | RNA-Seq | 118.0 MB |
| SRR11281604_GSM4404837 | RNA-Seq | 115.0 MB |
| SRR11281605_GSM4404838 | RNA-Seq | 83.0 MB |
| SRR11281606_GSM4404838 | RNA-Seq | 81.0 MB |
| SRR11281607_GSM4404838 | RNA-Seq | 83.0 MB |
| SRR11281608_GSM4404838 | RNA-Seq | 82.0 MB |
| SRR11281609_GSM4404839 | RNA-Seq | 101.0 MB |
| SRR11281610_GSM4404839 | RNA-Seq | 99.0 MB |
| SRR11281611_GSM4404839 | RNA-Seq | 102.0 MB |
| SRR11281612_GSM4404839 | RNA-Seq | 100.0 MB |
| SRR11281613_GSM4404840 | RNA-Seq | 95.0 MB |
| SRR11281614_GSM4404840 | RNA-Seq | 93.0 MB |
| SRR11281615_GSM4404840 | RNA-Seq | 96.0 MB |
| SRR11281616_GSM4404840 | RNA-Seq | 94.0 MB |
| SRR11281617_GSM4404841 | RNA-Seq | 93.0 MB |
| SRR11281618_GSM4404841 | RNA-Seq | 91.0 MB |
| SRR11281619_GSM4404841 | RNA-Seq | 94.0 MB |
| SRR11281620_GSM4404841 | RNA-Seq | 92.0 MB |
| SRR11281621_GSM4404842 | RNA-Seq | 85.0 MB |
| SRR11281622_GSM4404842 | RNA-Seq | 83.0 MB |
| SRR11281623_GSM4404842 | RNA-Seq | 85.0 MB |
| SRR11281624_GSM4404842 | RNA-Seq | 84.0 MB |
| SRR11281625_GSM4404843 | RNA-Seq | 101.0 MB |
| SRR11281626_GSM4404843 | RNA-Seq | 100.0 MB |
| SRR11281627_GSM4404843 | RNA-Seq | 103.0 MB |
| SRR11281628_GSM4404843 | RNA-Seq | 101.0 MB |
| SRR11281629_GSM4404844 | RNA-Seq | 111.0 MB |
| SRR11281630_GSM4404844 | RNA-Seq | 109.0 MB |
| SRR11281631_GSM4404844 | RNA-Seq | 112.0 MB |
| SRR11281632_GSM4404844 | RNA-Seq | 110.0 MB |
| SRR11281633_GSM4404845 | RNA-Seq | 98.0 MB |
| SRR11281634_GSM4404845 | RNA-Seq | 96.0 MB |
| SRR11281635_GSM4404845 | RNA-Seq | 98.0 MB |
| SRR11281636_GSM4404845 | RNA-Seq | 97.0 MB |
| SRR11281637_GSM4404846 | RNA-Seq | 92.0 MB |
| SRR11281638_GSM4404846 | RNA-Seq | 90.0 MB |
| SRR11281639_GSM4404846 | RNA-Seq | 93.0 MB |
| SRR11281640_GSM4404846 | RNA-Seq | 91.0 MB |
| SRR11281641_GSM4404847 | RNA-Seq | 100.0 MB |
| SRR11281642_GSM4404847 | RNA-Seq | 98.0 MB |
| SRR11281643_GSM4404847 | RNA-Seq | 101.0 MB |
| SRR11281644_GSM4404847 | RNA-Seq | 99.0 MB |
| SRR11281645_GSM4404848 | RNA-Seq | 86.0 MB |
| SRR11281645.lite | RNA-Seq | 86.3 MB |
| SRR11281646_GSM4404848 | RNA-Seq | 84.0 MB |
| SRR11281647_GSM4404848 | RNA-Seq | 87.0 MB |
| SRR11281648_GSM4404848 | RNA-Seq | 85.0 MB |
| SRR11281649_GSM4404849 | RNA-Seq | 101.0 MB |
| SRR11281650_GSM4404849 | RNA-Seq | 100.0 MB |
| SRR11281651_GSM4404849 | RNA-Seq | 102.0 MB |
| SRR11281652_GSM4404849 | RNA-Seq | 100.0 MB |
| SRR11281653_GSM4404850 | RNA-Seq | 79.0 MB |
| SRR11281653.lite | RNA-Seq | 79.8 MB |
| SRR11281654_GSM4404850 | RNA-Seq | 77.0 MB |
| SRR11281655_GSM4404850 | RNA-Seq | 80.0 MB |
| SRR11281656_GSM4404850 | RNA-Seq | 77.0 MB |
| SRR11281657_GSM4404851 | RNA-Seq | 171.0 MB |
| SRR11281658_GSM4404851 | RNA-Seq | 168.0 MB |
| SRR11281659_GSM4404851 | RNA-Seq | 173.0 MB |
| SRR11281660_GSM4404851 | RNA-Seq | 170.0 MB |
| SRR11281661_GSM4404852 | RNA-Seq | 107.0 MB |
| SRR11281662_GSM4404852 | RNA-Seq | 105.0 MB |
| SRR11281663_GSM4404852 | RNA-Seq | 108.0 MB |
| SRR11281664_GSM4404852 | RNA-Seq | 106.0 MB |
| SRR11281665_GSM4404853 | RNA-Seq | 88.0 MB |
| SRR11281666_GSM4404853 | RNA-Seq | 87.0 MB |
| SRR11281667_GSM4404853 | RNA-Seq | 89.0 MB |
| SRR11281668_GSM4404853 | RNA-Seq | 87.0 MB |
| SRR11281669_GSM4404854 | RNA-Seq | 86.0 MB |
| SRR11281670_GSM4404854 | RNA-Seq | 84.0 MB |
| SRR11281671_GSM4404854 | RNA-Seq | 87.0 MB |
| SRR11281672_GSM4404854 | RNA-Seq | 85.0 MB |
| SRR11281673_GSM4404855 | RNA-Seq | 102.0 MB |
| SRR11281674_GSM4404855 | RNA-Seq | 100.0 MB |
| SRR11281675_GSM4404855 | RNA-Seq | 103.0 MB |
| SRR11281676_GSM4404855 | RNA-Seq | 101.0 MB |
| SRR11281677_GSM4404856 | RNA-Seq | 106.0 MB |
| SRR11281678_GSM4404856 | RNA-Seq | 104.0 MB |
| SRR11281679_GSM4404856 | RNA-Seq | 107.0 MB |
| SRR11281680_GSM4404856 | RNA-Seq | 105.0 MB |
| SRR11281681_GSM4404857 | RNA-Seq | 88.0 MB |
| SRR11281682_GSM4404857 | RNA-Seq | 87.0 MB |
| SRR11281683_GSM4404857 | RNA-Seq | 89.0 MB |
| SRR11281684_GSM4404857 | RNA-Seq | 87.0 MB |
| SRR11281685_GSM4404858 | RNA-Seq | 94.0 MB |
| SRR11281686_GSM4404858 | RNA-Seq | 93.0 MB |
| SRR11281687_GSM4404858 | RNA-Seq | 95.0 MB |
| SRR11281688_GSM4404858 | RNA-Seq | 94.0 MB |
| SRR11281689_GSM4404859 | RNA-Seq | 161.0 MB |
| SRR11281690_GSM4404859 | RNA-Seq | 158.0 MB |
| SRR11281691_GSM4404859 | RNA-Seq | 162.0 MB |
| SRR11281692_GSM4404859 | RNA-Seq | 159.0 MB |
Potentially related datasets 2
These accessions were text-mined from the PMC full text. They may be referenced for comparison, cited from other studies, or otherwise mentioned without being primary data for this paper.
Analysis pipelines 2
| Pipeline | Assay | Steps | Dataset |
|---|---|---|---|
| GSE145984 RNA-seq Data Processing geo_data_processing | RNA-seq | 5 | GSE145984 |
| GSE146726 RNA-seq Data Processing geo_data_processing | RNA-seq | 4 | GSE146726 |
Funding 1 grant
| Grant | Funder |
|---|---|
| R01 HG004659 | NHGRI NIH HHS (United States) |