High-sensitivity in situ capture of endogenous RNA-protein interactions in fixed cells and primary tissues.
Qishan Liang, Tao Yu, Eric Kofman, Pratibha Jagannatha, Kevin Rhine, Brian A Yee, Kevin D Corbett, Gene W Yeo
Nature communications · 2024 · Vol. 15 (1) · pp. 7067
Abstract
RNA-binding proteins (RBPs) have pivotal functions in RNA metabolism, but current methods are limited in retrieving RBP-RNA interactions within endogenous biological contexts. Here, we develop INSCRIBE (IN situ Sensitive Capture of RNA-protein Interactions in Biological Environments), circumventing the challenges through in situ RNA labeling by precisely directing a purified APOBEC1-nanobody fusion to the RBP of interest. This method enables highly specific RNA-binding site identification across a diverse range of fixed biological samples such as HEK293T cells and mouse brain tissue and accurately identifies the canonical binding motifs of RBFOX2 (UGCAUG) and TDP-43 (UGUGUG) in native cellular environments. Applicable to any RBP with available primary antibodies, INSCRIBE enables sensitive capture of RBP-RNA interactions from ultra-low input equivalent to ~5 cells. The robust, versatile, and sensitive INSCRIBE workflow is particularly beneficial for precious tissues such as clinical samples, empowering the exploration of genuine RBP-RNA interactions in RNA-related disease contexts.
Linked datasets 13
Expanded repertoire for RNA-editing-based detection for RNA binding protein interactions (3)
Homo sapiens
48 data files
| File | Type | Size |
|---|---|---|
| Hugo-A1_S1_L001_R1_001.fastq.gz | RNA-Seq | 474.9 MB |
| Hugo-A2_S2_L001_R1_001.fastq.gz | RNA-Seq | 482.3 MB |
| Hugo-A3_S11_L001_R1_001.fastq.gz | RNA-Seq | 342.7 MB |
| Hugo-B2_S7_L001_R1_001.fastq.gz | RNA-Seq | 375.6 MB |
| Hugo-B3_S8_L001_R1_001.fastq.gz | RNA-Seq | 461.3 MB |
| Hugo-B4_S14_L001_R1_001.fastq.gz | RNA-Seq | 437.5 MB |
| Hugo-B5_S9_L001_R1_001.fastq.gz | RNA-Seq | 502.8 MB |
| Hugo-B6_S10_L001_R1_001.fastq.gz | RNA-Seq | 545.7 MB |
| Hugo-B7_S15_L001_R1_001.fastq.gz | RNA-Seq | 366.1 MB |
| Hugo-D4_S75_L002_R1_001.fastq.gz | RNA-Seq | 488.1 MB |
| Hugo-D5_S76_L002_R1_001.fastq.gz | RNA-Seq | 534.0 MB |
| Hugo-D6_S30_L002_R1_001.fastq.gz | RNA-Seq | 439.1 MB |
| Hugo-D7_S77_L002_R1_001.fastq.gz | RNA-Seq | 521.1 MB |
| Hugo-D8_S78_L002_R1_001.fastq.gz | RNA-Seq | 414.7 MB |
| Hugo-E1_S31_L002_R1_001.fastq.gz | RNA-Seq | 432.5 MB |
| Hugo-E2_S79_L002_R1_001.fastq.gz | RNA-Seq | 623.7 MB |
| Hugo-E3_S80_L002_R1_001.fastq.gz | RNA-Seq | 571.2 MB |
| Hugo-E4_S32_L002_R1_001.fastq.gz | RNA-Seq | 550.4 MB |
| Hugo-E5_S81_L002_R1_001.fastq.gz | RNA-Seq | 480.7 MB |
| Hugo-E6_S82_L002_R1_001.fastq.gz | RNA-Seq | 515.3 MB |
| Hugo-E7_S33_L002_R1_001.fastq.gz | RNA-Seq | 456.3 MB |
| Hugo-E8_S83_L002_R1_001.fastq.gz | RNA-Seq | 474.5 MB |
| Hugo-F1_S84_L002_R1_001.fastq.gz | RNA-Seq | 504.2 MB |
| Hugo-F2_S34_L002_R1_001.fastq.gz | RNA-Seq | 498.8 MB |
| SRR24557344_GSM7349672 | RNA-Seq | 498.0 MB |
| SRR24557345_GSM7349671 | RNA-Seq | 504.0 MB |
| SRR24557346_GSM7349670 | RNA-Seq | 474.0 MB |
| SRR24557347_GSM7349669 | RNA-Seq | 456.0 MB |
| SRR24557348_GSM7349668 | RNA-Seq | 515.0 MB |
| SRR24557349_GSM7349667 | RNA-Seq | 480.0 MB |
| SRR24557350_GSM7349666 | RNA-Seq | 550.0 MB |
| SRR24557351_GSM7349665 | RNA-Seq | 571.0 MB |
| SRR24557352_GSM7349664 | RNA-Seq | 623.0 MB |
| SRR24557353_GSM7349663 | RNA-Seq | 432.0 MB |
| SRR24557354_GSM7349662 | RNA-Seq | 414.0 MB |
| SRR24557355_GSM7349661 | RNA-Seq | 521.0 MB |
| SRR24557356_GSM7349660 | RNA-Seq | 366.0 MB |
| SRR24557357_GSM7349659 | RNA-Seq | 545.0 MB |
| SRR24557358_GSM7349658 | RNA-Seq | 502.0 MB |
| SRR24557359_GSM7349657 | RNA-Seq | 437.0 MB |
| SRR24557360_GSM7349656 | RNA-Seq | 461.0 MB |
| SRR24557361_GSM7349655 | RNA-Seq | 375.0 MB |
| SRR24557362_GSM7349654 | RNA-Seq | 439.0 MB |
| SRR24557363_GSM7349653 | RNA-Seq | 534.0 MB |
| SRR24557364_GSM7349652 | RNA-Seq | 488.0 MB |
| SRR24557365_GSM7349651 | RNA-Seq | 342.0 MB |
| SRR24557366_GSM7349650 | RNA-Seq | 482.0 MB |
| SRR24557367_GSM7349649 | RNA-Seq | 474.0 MB |
Expanded repertoire of RNA-editing-based detection for RNA binding protein interactions (1)
Homo sapiens
152 data files
| File | Type | Size |
|---|---|---|
| 10_S10_L001_R1_001.fastq.gz | RNA-Seq | 18.7 MB |
| 11_S11_L001_R1_001.fastq.gz | RNA-Seq | 19.1 MB |
| 12_S12_L001_R1_001.fastq.gz | RNA-Seq | 19.7 MB |
| 13_S13_L001_R1_001.fastq.gz | RNA-Seq | 19.2 MB |
| 14_S14_L001_R1_001.fastq.gz | RNA-Seq | 20.5 MB |
| 15_S15_L001_R1_001.fastq.gz | RNA-Seq | 18.6 MB |
| 16_S16_L001_R1_001.fastq.gz | RNA-Seq | 19.7 MB |
| 17_S17_L001_R1_001.fastq.gz | RNA-Seq | 21.5 MB |
| 18_S18_L001_R1_001.fastq.gz | RNA-Seq | 20.6 MB |
| 19_S19_L001_R1_001.fastq.gz | RNA-Seq | 20.4 MB |
| 1_S1_L001_R1_001.fastq.gz | RNA-Seq | 15.9 MB |
| 20_S20_L001_R1_001.fastq.gz | RNA-Seq | 20.4 MB |
| 21_S21_L001_R1_001.fastq.gz | RNA-Seq | 20.2 MB |
| 22_S22_L001_R1_001.fastq.gz | RNA-Seq | 19.9 MB |
| 23_S23_L001_R1_001.fastq.gz | RNA-Seq | 18.9 MB |
| 24_S24_L001_R1_001.fastq.gz | RNA-Seq | 16.6 MB |
| 25_S25_L001_R1_001.fastq.gz | RNA-Seq | 21.9 MB |
| 26_S26_L001_R1_001.fastq.gz | RNA-Seq | 21.1 MB |
| 27_S27_L001_R1_001.fastq.gz | RNA-Seq | 19.0 MB |
| 28_S28_L001_R1_001.fastq.gz | RNA-Seq | 18.9 MB |
| 29_S29_L001_R1_001.fastq.gz | RNA-Seq | 18.7 MB |
| 2_S2_L001_R1_001.fastq.gz | RNA-Seq | 17.6 MB |
| 30_S30_L001_R1_001.fastq.gz | RNA-Seq | 18.2 MB |
| 3_S3_L001_R1_001.fastq.gz | RNA-Seq | 20.2 MB |
| 4_S4_L001_R1_001.fastq.gz | RNA-Seq | 19.0 MB |
| 5_S5_L001_R1_001.fastq.gz | RNA-Seq | 20.1 MB |
| 6_S6_L001_R1_001.fastq.gz | RNA-Seq | 18.8 MB |
| 7_S7_L001_R1_001.fastq.gz | RNA-Seq | 16.4 MB |
| 8_S8_L001_R1_001.fastq.gz | RNA-Seq | 20.0 MB |
| 9_S9_L001_R1_001.fastq.gz | RNA-Seq | 18.7 MB |
| A10_S8_L001_R1_001.fastq.gz | RNA-Seq | 73.0 MB |
| A11_S9_L001_R1_001.fastq.gz | RNA-Seq | 84.0 MB |
| A12_S10_L001_R1_001.fastq.gz | RNA-Seq | 96.3 MB |
| A3_S1_L001_R1_001.fastq.gz | RNA-Seq | 83.2 MB |
| A4_S2_L001_R1_001.fastq.gz | RNA-Seq | 68.2 MB |
| A5_S3_L001_R1_001.fastq.gz | RNA-Seq | 79.7 MB |
| A6_S4_L001_R1_001.fastq.gz | RNA-Seq | 79.9 MB |
| A7_S5_L001_R1_001.fastq.gz | RNA-Seq | 75.8 MB |
| A8_S6_L001_R1_001.fastq.gz | RNA-Seq | 75.5 MB |
| A9_S7_L001_R1_001.fastq.gz | RNA-Seq | 83.8 MB |
| B10_S20_L001_R1_001.fastq.gz | RNA-Seq | 83.5 MB |
| B11_S21_L001_R1_001.fastq.gz | RNA-Seq | 94.7 MB |
| B12_S22_L001_R1_001.fastq.gz | RNA-Seq | 125.3 MB |
| B1_S11_L001_R1_001.fastq.gz | RNA-Seq | 94.4 MB |
| B2_S12_L001_R1_001.fastq.gz | RNA-Seq | 76.3 MB |
| B3_S13_L001_R1_001.fastq.gz | RNA-Seq | 70.7 MB |
| B4_S14_L001_R1_001.fastq.gz | RNA-Seq | 81.2 MB |
| B5_S15_L001_R1_001.fastq.gz | RNA-Seq | 41.7 MB |
| B6_S16_L001_R1_001.fastq.gz | RNA-Seq | 44.8 MB |
| B7_S17_L001_R1_001.fastq.gz | RNA-Seq | 76.3 MB |
| B8_S18_L001_R1_001.fastq.gz | RNA-Seq | 78.7 MB |
| B9_S19_L001_R1_001.fastq.gz | RNA-Seq | 86.7 MB |
| C10_S8_L001_R1_001.fastq.gz | RNA-Seq | 321.2 MB |
| C11_S9_L001_R1_001.fastq.gz | RNA-Seq | 304.0 MB |
| C12_S10_L001_R1_001.fastq.gz | RNA-Seq | 696.3 KB |
| C1_S23_L001_R1_001.fastq.gz | RNA-Seq | 107.5 MB |
| C2_S24_L001_R1_001.fastq.gz | RNA-Seq | 123.1 MB |
| C3_S1_L001_R1_001.fastq.gz | RNA-Seq | 291.9 MB |
| C4_S2_L001_R1_001.fastq.gz | RNA-Seq | 367.6 MB |
| C5_S3_L001_R1_001.fastq.gz | RNA-Seq | 301.4 MB |
| C6_S4_L001_R1_001.fastq.gz | RNA-Seq | 289.3 MB |
| C7_S5_L001_R1_001.fastq.gz | RNA-Seq | 292.9 MB |
| C8_S6_L001_R1_001.fastq.gz | RNA-Seq | 295.3 MB |
| C9_S7_L001_R1_001.fastq.gz | RNA-Seq | 283.4 MB |
| D10_S18_L001_R1_001.fastq.gz | RNA-Seq | 273.6 MB |
| D11_S19_L001_R1_001.fastq.gz | RNA-Seq | 124.6 MB |
| D12_S20_L001_R1_001.fastq.gz | RNA-Seq | 406.1 MB |
| D1_S11_L001_R1_001.fastq.gz | RNA-Seq | 253.5 MB |
| D2_S12_L001_R1_001.fastq.gz | RNA-Seq | 270.0 MB |
| D3_S13_L001_R1_001.fastq.gz | RNA-Seq | 243.5 MB |
| D4_S14_L001_R1_001.fastq.gz | RNA-Seq | 314.6 MB |
| D5_S15_L001_R1_001.fastq.gz | RNA-Seq | 269.5 MB |
| D8_S16_L001_R1_001.fastq.gz | RNA-Seq | 280.6 MB |
| D9_S17_L001_R1_001.fastq.gz | RNA-Seq | 235.0 MB |
| H1_S21_L001_R1_001.fastq.gz | RNA-Seq | 300.6 MB |
| H2_S22_L001_R1_001.fastq.gz | RNA-Seq | 118.0 MB |
| SRR24557267_GSM7349587 | RNA-Seq | 300.0 MB |
| SRR24557268_GSM7349586 | RNA-Seq | 406.0 MB |
| SRR24557269_GSM7349585 | RNA-Seq | 124.0 MB |
| SRR24557270_GSM7349584 | RNA-Seq | 273.0 MB |
| SRR24557271_GSM7349583 | RNA-Seq | 235.0 MB |
| SRR24557272_GSM7349582 | RNA-Seq | 280.0 MB |
| SRR24557273_GSM7349581 | RNA-Seq | 269.0 MB |
| SRR24557274_GSM7349580 | RNA-Seq | 314.0 MB |
| SRR24557275_GSM7349579 | RNA-Seq | 243.0 MB |
| SRR24557276_GSM7349578 | RNA-Seq | 270.0 MB |
| SRR24557277_GSM7349577 | RNA-Seq | 253.0 MB |
| SRR24557278_GSM7349576 | RNA-Seq | |
| SRR24557279_GSM7349575 | RNA-Seq | 303.0 MB |
| SRR24557280_GSM7349574 | RNA-Seq | 321.0 MB |
| SRR24557281_GSM7349573 | RNA-Seq | 283.0 MB |
| SRR24557282_GSM7349572 | RNA-Seq | 295.0 MB |
| SRR24557283_GSM7349571 | RNA-Seq | 292.0 MB |
| SRR24557284_GSM7349570 | RNA-Seq | 289.0 MB |
| SRR24557285_GSM7349569 | RNA-Seq | 301.0 MB |
| SRR24557286_GSM7349568 | RNA-Seq | 367.0 MB |
| SRR24557287_GSM7349567 | RNA-Seq | 291.0 MB |
| SRR24557288_GSM7349566 | RNA-Seq | 123.0 MB |
| SRR24557289_GSM7349565 | RNA-Seq | 107.0 MB |
| SRR24557290_GSM7349564 | RNA-Seq | 125.0 MB |
| SRR24557291_GSM7349618 | RNA-Seq | 18.0 MB |
| SRR24557292_GSM7349617 | RNA-Seq | 18.0 MB |
| SRR24557293_GSM7349616 | RNA-Seq | 18.0 MB |
| SRR24557294_GSM7349615 | RNA-Seq | 18.0 MB |
| SRR24557295_GSM7349614 | RNA-Seq | 21.0 MB |
| SRR24557296_GSM7349613 | RNA-Seq | 21.0 MB |
| SRR24557297_GSM7349612 | RNA-Seq | 16.0 MB |
| SRR24557298_GSM7349611 | RNA-Seq | 18.0 MB |
| SRR24557299_GSM7349610 | RNA-Seq | 19.0 MB |
| SRR24557300_GSM7349609 | RNA-Seq | 20.0 MB |
| SRR24557301_GSM7349608 | RNA-Seq | 20.0 MB |
| SRR24557302_GSM7349607 | RNA-Seq | 20.0 MB |
| SRR24557303_GSM7349606 | RNA-Seq | 20.0 MB |
| SRR24557304_GSM7349605 | RNA-Seq | 21.0 MB |
| SRR24557305_GSM7349604 | RNA-Seq | 19.0 MB |
| SRR24557306_GSM7349603 | RNA-Seq | 18.0 MB |
| SRR24557307_GSM7349602 | RNA-Seq | 20.0 MB |
| SRR24557308_GSM7349601 | RNA-Seq | 19.0 MB |
| SRR24557309_GSM7349600 | RNA-Seq | 19.0 MB |
| SRR24557310_GSM7349599 | RNA-Seq | 19.0 MB |
| SRR24557311_GSM7349598 | RNA-Seq | 18.0 MB |
| SRR24557312_GSM7349597 | RNA-Seq | 18.0 MB |
| SRR24557313_GSM7349596 | RNA-Seq | 20.0 MB |
| SRR24557314_GSM7349595 | RNA-Seq | 16.0 MB |
| SRR24557315_GSM7349594 | RNA-Seq | 18.0 MB |
| SRR24557316_GSM7349593 | RNA-Seq | 20.0 MB |
| SRR24557317_GSM7349592 | RNA-Seq | 18.0 MB |
| SRR24557318_GSM7349591 | RNA-Seq | 20.0 MB |
| SRR24557319_GSM7349590 | RNA-Seq | 17.0 MB |
| SRR24557320_GSM7349589 | RNA-Seq | 15.0 MB |
| SRR24557321_GSM7349588 | RNA-Seq | 117.0 MB |
| SRR24557322_GSM7349563 | RNA-Seq | 94.0 MB |
| SRR24557323_GSM7349562 | RNA-Seq | 83.0 MB |
| SRR24557324_GSM7349561 | RNA-Seq | 86.0 MB |
| SRR24557325_GSM7349560 | RNA-Seq | 78.0 MB |
| SRR24557326_GSM7349559 | RNA-Seq | 76.0 MB |
| SRR24557327_GSM7349558 | RNA-Seq | 44.0 MB |
| SRR24557328_GSM7349557 | RNA-Seq | 41.0 MB |
| SRR24557329_GSM7349556 | RNA-Seq | 81.0 MB |
| SRR24557330_GSM7349555 | RNA-Seq | 70.0 MB |
| SRR24557331_GSM7349554 | RNA-Seq | 76.0 MB |
| SRR24557332_GSM7349553 | RNA-Seq | 94.0 MB |
| SRR24557333_GSM7349552 | RNA-Seq | 96.0 MB |
| SRR24557334_GSM7349551 | RNA-Seq | 83.0 MB |
| SRR24557335_GSM7349550 | RNA-Seq | 73.0 MB |
| SRR24557336_GSM7349549 | RNA-Seq | 83.0 MB |
| SRR24557337_GSM7349548 | RNA-Seq | 75.0 MB |
| SRR24557338_GSM7349547 | RNA-Seq | 75.0 MB |
| SRR24557339_GSM7349546 | RNA-Seq | 79.0 MB |
| SRR24557340_GSM7349545 | RNA-Seq | 79.0 MB |
| SRR24557341_GSM7349544 | RNA-Seq | 68.0 MB |
| SRR24557342_GSM7349543 | RNA-Seq | 83.0 MB |
Expanded repertoire of RNA-editing-based detection for RNA binding protein interactions (2)
Homo sapiens
60 data files
| File | Type | Size |
|---|---|---|
| A1_S1_L001_R1_001.fastq.gz | RNA-Seq | 1.3 GB |
| A2_S4_L001_R1_001.fastq.gz | RNA-Seq | 1.1 GB |
| A3_S8_L001_R1_001.fastq.gz | RNA-Seq | 1.6 GB |
| A4_S1_L001_R1_001.fastq.gz | RNA-Seq | 1.7 GB |
| B1_S2_L001_R1_001.fastq.gz | RNA-Seq | 1.4 GB |
| B2_S6_L001_R1_001.fastq.gz | RNA-Seq | 1.6 GB |
| B3_S9_L001_R1_001.fastq.gz | RNA-Seq | 1.9 GB |
| B4_S2_L001_R1_001.fastq.gz | RNA-Seq | 1.2 GB |
| B5_S5_L001_R1_001.fastq.gz | RNA-Seq | 1.1 GB |
| B6_S19_L002_R1_001.fastq.gz | RNA-Seq | 1.7 GB |
| B7_S12_L002_R1_001.fastq.gz | RNA-Seq | 1.5 GB |
| B8_S15_L002_R1_001.fastq.gz | RNA-Seq | 1.6 GB |
| C1_S3_L001_R1_001.fastq.gz | RNA-Seq | 1.2 GB |
| C2_S7_L001_R1_001.fastq.gz | RNA-Seq | 1.4 GB |
| C3_S10_L001_R1_001.fastq.gz | RNA-Seq | 1.8 GB |
| C4_S13_L002_R1_001.fastq.gz | RNA-Seq | 1.4 GB |
| HM-OT-10_S10_L001_R1_001.fastq.gz | RNA-Seq | 813.2 MB |
| HM-OT-11_S11_L001_R1_001.fastq.gz | RNA-Seq | 508.4 MB |
| HM-OT-12_S12_L001_R1_001.fastq.gz | RNA-Seq | 563.3 MB |
| HM-OT-13_S13_L001_R1_001.fastq.gz | RNA-Seq | 724.0 MB |
| HM-OT-14_S14_L001_R1_001.fastq.gz | RNA-Seq | 568.2 MB |
| HM-OT-1_S1_L001_R1_001.fastq.gz | RNA-Seq | 746.6 MB |
| HM-OT-2_S2_L001_R1_001.fastq.gz | RNA-Seq | 567.3 MB |
| HM-OT-3_S3_L001_R1_001.fastq.gz | RNA-Seq | 450.6 MB |
| HM-OT-4_S4_L001_R1_001.fastq.gz | RNA-Seq | 596.1 MB |
| HM-OT-5_S5_L001_R1_001.fastq.gz | RNA-Seq | 663.2 MB |
| HM-OT-6_S6_L001_R1_001.fastq.gz | RNA-Seq | 681.5 MB |
| HM-OT-7_S7_L001_R1_001.fastq.gz | RNA-Seq | 632.3 MB |
| HM-OT-8_S8_L001_R1_001.fastq.gz | RNA-Seq | 544.0 MB |
| HM-OT-9_S9_L001_R1_001.fastq.gz | RNA-Seq | 715.2 MB |
| SRR24557412_GSM7349648 | RNA-Seq | 568.0 MB |
| SRR24557413_GSM7349647 | RNA-Seq | 724.0 MB |
| SRR24557414_GSM7349646 | RNA-Seq | 563.0 MB |
| SRR24557415_GSM7349645 | RNA-Seq | 508.0 MB |
| SRR24557416_GSM7349644 | RNA-Seq | 813.0 MB |
| SRR24557417_GSM7349643 | RNA-Seq | 715.0 MB |
| SRR24557418_GSM7349642 | RNA-Seq | 544.0 MB |
| SRR24557419_GSM7349641 | RNA-Seq | 632.0 MB |
| SRR24557420_GSM7349640 | RNA-Seq | 681.0 MB |
| SRR24557421_GSM7349639 | RNA-Seq | 663.0 MB |
| SRR24557422_GSM7349638 | RNA-Seq | 596.0 MB |
| SRR24557423_GSM7349637 | RNA-Seq | 450.0 MB |
| SRR24557424_GSM7349636 | RNA-Seq | 567.0 MB |
| SRR24557425_GSM7349635 | RNA-Seq | 746.0 MB |
| SRR24557426_GSM7349634 | RNA-Seq | 1.4 GB |
| SRR24557427_GSM7349633 | RNA-Seq | 1.8 GB |
| SRR24557428_GSM7349632 | RNA-Seq | 1.4 GB |
| SRR24557429_GSM7349631 | RNA-Seq | 1.2 GB |
| SRR24557430_GSM7349630 | RNA-Seq | 1.6 GB |
| SRR24557431_GSM7349629 | RNA-Seq | 1.5 GB |
| SRR24557432_GSM7349628 | RNA-Seq | 1.7 GB |
| SRR24557433_GSM7349627 | RNA-Seq | 1.1 GB |
| SRR24557434_GSM7349626 | RNA-Seq | 1.2 GB |
| SRR24557435_GSM7349625 | RNA-Seq | 1.9 GB |
| SRR24557436_GSM7349624 | RNA-Seq | 1.6 GB |
| SRR24557437_GSM7349623 | RNA-Seq | 1.4 GB |
| SRR24557438_GSM7349622 | RNA-Seq | 1.7 GB |
| SRR24557439_GSM7349621 | RNA-Seq | 1.5 GB |
| SRR24557440_GSM7349620 | RNA-Seq | 1.1 GB |
| SRR24557441_GSM7349619 | RNA-Seq | 1.3 GB |
An in situ method for identification of transcriptome-wide protein-RNA interactions in cells [in_situ_STAMP - Long-Read]"
Homo sapiens
4 data files
| File | Type | Size |
|---|---|---|
| m64278e_230504_212705.reads.bam | RNA-Seq | 6.7 GB |
| m64278e_230505_212742.reads.bam | RNA-Seq | 7.4 GB |
| SRR25567593_GSM7696206 | RNA-Seq | 7.4 GB |
| SRR25567594_GSM7696205 | RNA-Seq | 6.7 GB |
Expanded repertoire of RNA-editing-based detection for RNA binding protein interactions (4)
Homo sapiens
48 data files
| File | Type | Size |
|---|---|---|
| SRR24557488_GSM7349701 | RNA-Seq | 2.9 GB |
| SRR24557489_GSM7349700 | RNA-Seq | 3.9 GB |
| SRR24557490_GSM7349699 | RNA-Seq | 4.2 GB |
| SRR24557491_GSM7349698 | RNA-Seq | 4.5 GB |
| SRR24557492_GSM7349697 | RNA-Seq | 3.1 GB |
| SRR24557493_GSM7349696 | RNA-Seq | 4.2 GB |
| SRR24557494_GSM7349695 | RNA-Seq | 3.4 GB |
| SRR24557495_GSM7349694 | RNA-Seq | 4.8 GB |
| SRR24557496_GSM7349693 | RNA-Seq | 2.0 GB |
| SRR24557497_GSM7349692 | RNA-Seq | 2.9 GB |
| SRR24557498_GSM7349691 | RNA-Seq | 3.4 GB |
| SRR24557499_GSM7349690 | RNA-Seq | 4.3 GB |
| SRR24557500_GSM7349689 | RNA-Seq | 6.5 GB |
| SRR24557501_GSM7349688 | RNA-Seq | 3.2 GB |
| SRR24557502_GSM7349687 | RNA-Seq | 3.2 GB |
| SRR24557503_GSM7349686 | RNA-Seq | 1.8 GB |
| SRR24557504_GSM7349685 | RNA-Seq | 3.2 GB |
| SRR24557505_GSM7349684 | RNA-Seq | 6.7 GB |
| SRR24557506_GSM7349683 | RNA-Seq | 6.1 GB |
| SRR24557507_GSM7349682 | RNA-Seq | 3.6 GB |
| SRR24557508_GSM7349681 | RNA-Seq | 3.0 GB |
| SRR24557509_GSM7349680 | RNA-Seq | 3.6 GB |
| SRR24557510_GSM7349679 | RNA-Seq | 5.1 GB |
| SRR24557511_GSM7349678 | RNA-Seq | 6.1 GB |
| Torin_RS_01_S1_L004_R1_001.fastq.gz | RNA-Seq | 2.0 GB |
| Torin_RS_02_S2_L004_R1_001.fastq.gz | RNA-Seq | 4.8 GB |
| Torin_RS_03_S3_L004_R1_001.fastq.gz | RNA-Seq | 3.4 GB |
| Torin_RS_04_S4_L004_R1_001.fastq.gz | RNA-Seq | 4.2 GB |
| Torin_RS_05_S5_L004_R1_001.fastq.gz | RNA-Seq | 3.9 GB |
| Torin_RS_06_S6_L004_R1_001.fastq.gz | RNA-Seq | 2.9 GB |
| Torin_RS_07_S7_L004_R1_001.fastq.gz | RNA-Seq | 4.3 GB |
| Torin_RS_08_S8_L004_R1_001.fastq.gz | RNA-Seq | 3.4 GB |
| Torin_RS_09_S9_L004_R1_001.fastq.gz | RNA-Seq | 2.9 GB |
| Torin_RS_10_S10_L004_R1_001.fastq.gz | RNA-Seq | 4.2 GB |
| Torin_RS_11_S11_L004_R1_001.fastq.gz | RNA-Seq | 3.1 GB |
| Torin_RS_12_S12_L004_R1_001.fastq.gz | RNA-Seq | 4.5 GB |
| Torin_RS_13_S13_L004_R1_001.fastq.gz | RNA-Seq | 3.0 GB |
| Torin_RS_14_S14_L004_R1_001.fastq.gz | RNA-Seq | 3.6 GB |
| Torin_RS_15_S15_L004_R1_001.fastq.gz | RNA-Seq | 6.1 GB |
| Torin_RS_16_S16_L004_R1_001.fastq.gz | RNA-Seq | 3.2 GB |
| Torin_RS_17_S17_L004_R1_001.fastq.gz | RNA-Seq | 3.2 GB |
| Torin_RS_18_S18_L004_R1_001.fastq.gz | RNA-Seq | 6.5 GB |
| Torin_RS_19_S19_L004_R1_001.fastq.gz | RNA-Seq | 6.1 GB |
| Torin_RS_20_S20_L004_R1_001.fastq.gz | RNA-Seq | 5.1 GB |
| Torin_RS_21_S21_L004_R1_001.fastq.gz | RNA-Seq | 3.6 GB |
| Torin_RS_22_S22_L004_R1_001.fastq.gz | RNA-Seq | 6.7 GB |
| Torin_RS_23_S23_L004_R1_001.fastq.gz | RNA-Seq | 3.2 GB |
| Torin_RS_24_S24_L004_R1_001.fastq.gz | RNA-Seq | 1.8 GB |
An in situ method for identification of transcriptome-wide protein-RNA interactions in cells [isstamp_lr]
Homo sapiens
12 data files
| File | Type | Size |
|---|---|---|
| APOBEC1_rep2.aligned.bam | OTHER | 916.8 MB |
| APOBEC1_rep3.aligned.bam | OTHER | 1.4 GB |
| BUFFER_rep1.aligned.bam | OTHER | 1.4 GB |
| BUFFER_rep2.aligned.bam | OTHER | 1.4 GB |
| RBFOX2_rep1.aligned.bam | OTHER | 1.4 GB |
| RBFOX2_rep2.aligned.bam | OTHER | 1.5 GB |
| SRR28642833_GSM8200406 | OTHER | 1.4 GB |
| SRR28642834_GSM8200405 | OTHER | 1.4 GB |
| SRR28642835_GSM8200404 | OTHER | 1.4 GB |
| SRR28642836_GSM8200403 | OTHER | 916.0 MB |
| SRR28642837_GSM8200402 | OTHER | 1.5 GB |
| SRR28642838_GSM8200401 | OTHER | 1.4 GB |
An in situ method for identification of transcriptome-wide protein-RNA interactions in cells [in_situ_STAMP II]
Homo sapiens
29 data files
| File | Type | Size |
|---|---|---|
| 100pg_19_S8_L001_R1_001.fastq.gz | RNA-Seq | 1.7 GB |
| 100pg_20_S9_L001_R1_001.fastq.gz | RNA-Seq | 1.8 GB |
| 100pg_21_S10_L001_R1_001.fastq.gz | RNA-Seq | 1.9 GB |
| 100pg_33_S11_L001_R1_001.fastq.gz | RNA-Seq | 1.8 GB |
| 100pg_34_S12_L001_R1_001.fastq.gz | RNA-Seq | 1.9 GB |
| 100pg_35_S13_L001_R1_001.fastq.gz | RNA-Seq | 1.8 GB |
| 100pg_36_S14_L001_R1_001.fastq.gz | RNA-Seq | 1.6 GB |
| 1ng_19_S1_L001_R1_001.fastq.gz | RNA-Seq | 1.8 GB |
| 1ng_20_S2_L001_R1_001.fastq.gz | RNA-Seq | 1.8 GB |
| 1ng_21_S3_L001_R1_001.fastq.gz | RNA-Seq | 1.9 GB |
| 1ng_33_S4_L001_R1_001.fastq.gz | RNA-Seq | 2.0 GB |
| 1ng_34_S5_L001_R1_001.fastq.gz | RNA-Seq | 1.8 GB |
| 1ng_35_S6_L001_R1_001.fastq.gz | RNA-Seq | 2.0 GB |
| 1ng_36_S7_L001_R1_001.fastq.gz | RNA-Seq | 2.0 GB |
| SRR26918582_GSM7914716 | RNA-Seq | 2.0 GB |
| SRR26918583_GSM7914715 | RNA-Seq | 2.0 GB |
| SRR26918584_GSM7914714 | RNA-Seq | 1.8 GB |
| SRR26918585_GSM7914713 | RNA-Seq | 2.0 GB |
| SRR26918586_GSM7914712 | RNA-Seq | 1.9 GB |
| SRR26918586.lite | RNA-Seq | 1.9 GB |
| SRR26918587_GSM7914711 | RNA-Seq | 1.8 GB |
| SRR26918588_GSM7914710 | RNA-Seq | 1.8 GB |
| SRR26918589_GSM7914709 | RNA-Seq | 1.6 GB |
| SRR26918590_GSM7914708 | RNA-Seq | 1.8 GB |
| SRR26918591_GSM7914707 | RNA-Seq | 1.9 GB |
| SRR26918592_GSM7914706 | RNA-Seq | 1.8 GB |
| SRR26918593_GSM7914705 | RNA-Seq | 1.9 GB |
| SRR26918594_GSM7914704 | RNA-Seq | 1.8 GB |
| SRR26918595_GSM7914703 | RNA-Seq | 1.7 GB |
Expanded repertoire of RNA-editing-based detection for RNA binding protein interactions (5)
Homo sapiens
72 data files
| File | Type | Size |
|---|---|---|
| 10_S10_L001_R1_001.fastq.gz | RNA-Seq | 15.7 MB |
| 11_S11_L001_R1_001.fastq.gz | RNA-Seq | 9.7 MB |
| 12_S12_L001_R1_001.fastq.gz | RNA-Seq | 12.0 MB |
| 13_S13_L001_R1_001.fastq.gz | RNA-Seq | 15.1 MB |
| 14_S14_L001_R1_001.fastq.gz | RNA-Seq | 12.2 MB |
| 15_S15_L001_R1_001.fastq.gz | RNA-Seq | 12.8 MB |
| 16_S16_L001_R1_001.fastq.gz | RNA-Seq | 13.9 MB |
| 17_S17_L001_R1_001.fastq.gz | RNA-Seq | 12.4 MB |
| 18_S18_L001_R1_001.fastq.gz | RNA-Seq | 9.8 MB |
| 19_S19_L001_R1_001.fastq.gz | RNA-Seq | 14.2 MB |
| 1_S1_L001_R1_001.fastq.gz | RNA-Seq | 15.8 MB |
| 20_S20_L001_R1_001.fastq.gz | RNA-Seq | 14.9 MB |
| 21_S21_L001_R1_001.fastq.gz | RNA-Seq | 8.8 MB |
| 22_S22_L001_R1_001.fastq.gz | RNA-Seq | 7.9 MB |
| 23_S23_L001_R1_001.fastq.gz | RNA-Seq | 11.1 MB |
| 24_S24_L001_R1_001.fastq.gz | RNA-Seq | 9.7 MB |
| 2_S2_L001_R1_001.fastq.gz | RNA-Seq | 15.8 MB |
| 3_S3_L001_R1_001.fastq.gz | RNA-Seq | 13.6 MB |
| 40_S40_L001_R1_001.fastq.gz | RNA-Seq | 19.7 MB |
| 41_S41_L001_R1_001.fastq.gz | RNA-Seq | 18.2 MB |
| 42_S42_L001_R1_001.fastq.gz | RNA-Seq | 17.6 MB |
| 43_S43_L001_R1_001.fastq.gz | RNA-Seq | 18.9 MB |
| 44_S44_L001_R1_001.fastq.gz | RNA-Seq | 17.4 MB |
| 45_S45_L001_R1_001.fastq.gz | RNA-Seq | 17.6 MB |
| 46_S46_L001_R1_001.fastq.gz | RNA-Seq | 17.4 MB |
| 47_S47_L001_R1_001.fastq.gz | RNA-Seq | 21.0 MB |
| 48_S48_L001_R1_001.fastq.gz | RNA-Seq | 19.4 MB |
| 49_S49_L001_R1_001.fastq.gz | RNA-Seq | 17.6 MB |
| 4_S4_L001_R1_001.fastq.gz | RNA-Seq | 18.2 MB |
| 50_S50_L001_R1_001.fastq.gz | RNA-Seq | 18.4 MB |
| 51_S51_L001_R1_001.fastq.gz | RNA-Seq | 19.7 MB |
| 5_S5_L001_R1_001.fastq.gz | RNA-Seq | 10.9 MB |
| 6_S6_L001_R1_001.fastq.gz | RNA-Seq | 14.1 MB |
| 7_S7_L001_R1_001.fastq.gz | RNA-Seq | 14.4 MB |
| 8_S8_L001_R1_001.fastq.gz | RNA-Seq | 15.7 MB |
| 9_S9_L001_R1_001.fastq.gz | RNA-Seq | 15.4 MB |
| SRR24557450_GSM7349737 | RNA-Seq | 9.0 MB |
| SRR24557451_GSM7349736 | RNA-Seq | 11.0 MB |
| SRR24557452_GSM7349735 | RNA-Seq | 7.0 MB |
| SRR24557453_GSM7349734 | RNA-Seq | 8.0 MB |
| SRR24557454_GSM7349733 | RNA-Seq | 14.0 MB |
| SRR24557455_GSM7349732 | RNA-Seq | 14.0 MB |
| SRR24557456_GSM7349731 | RNA-Seq | 9.0 MB |
| SRR24557457_GSM7349730 | RNA-Seq | 12.0 MB |
| SRR24557458_GSM7349729 | RNA-Seq | 13.0 MB |
| SRR24557459_GSM7349728 | RNA-Seq | 12.0 MB |
| SRR24557460_GSM7349727 | RNA-Seq | 12.0 MB |
| SRR24557461_GSM7349726 | RNA-Seq | 15.0 MB |
| SRR24557462_GSM7349725 | RNA-Seq | 11.0 MB |
| SRR24557463_GSM7349724 | RNA-Seq | 9.0 MB |
| SRR24557464_GSM7349723 | RNA-Seq | 15.0 MB |
| SRR24557465_GSM7349722 | RNA-Seq | 15.0 MB |
| SRR24557466_GSM7349721 | RNA-Seq | 15.0 MB |
| SRR24557467_GSM7349720 | RNA-Seq | 14.0 MB |
| SRR24557468_GSM7349719 | RNA-Seq | 14.0 MB |
| SRR24557469_GSM7349718 | RNA-Seq | 10.0 MB |
| SRR24557470_GSM7349717 | RNA-Seq | 18.0 MB |
| SRR24557471_GSM7349716 | RNA-Seq | 13.0 MB |
| SRR24557472_GSM7349715 | RNA-Seq | 15.0 MB |
| SRR24557473_GSM7349714 | RNA-Seq | 15.0 MB |
| SRR24557474_GSM7349713 | RNA-Seq | 19.0 MB |
| SRR24557475_GSM7349712 | RNA-Seq | 18.0 MB |
| SRR24557476_GSM7349711 | RNA-Seq | 17.0 MB |
| SRR24557477_GSM7349710 | RNA-Seq | 19.0 MB |
| SRR24557478_GSM7349709 | RNA-Seq | 20.0 MB |
| SRR24557479_GSM7349708 | RNA-Seq | 17.0 MB |
| SRR24557480_GSM7349707 | RNA-Seq | 17.0 MB |
| SRR24557481_GSM7349706 | RNA-Seq | 17.0 MB |
| SRR24557482_GSM7349705 | RNA-Seq | 18.0 MB |
| SRR24557483_GSM7349704 | RNA-Seq | 17.0 MB |
| SRR24557484_GSM7349703 | RNA-Seq | 18.0 MB |
| SRR24557485_GSM7349702 | RNA-Seq | 19.0 MB |
Expanded palette of RNA base editors for comprehensive RBP-RNA interactome studies
Homo sapiens
An in situ method for identification of transcriptome-wide protein-RNA interactions in cells
Mus musculus
An in situ method for identification of transcriptome-wide protein-RNA interactions in cells [in_situ_STAMP]
Mus musculus
104 data files
| File | Type | Size |
|---|---|---|
| isSTAMP08_09_S9_L002_R1_001.fastq.gz | RNA-Seq | 1.4 GB |
| isSTAMP08_10_S10_L002_R1_001.fastq.gz | RNA-Seq | 1.4 GB |
| isSTAMP08_11_S11_L002_R1_001.fastq.gz | RNA-Seq | 1.6 GB |
| isSTAMP08_12_S12_L002_R1_001.fastq.gz | RNA-Seq | 1.5 GB |
| isSTAMP08_13_S13_L002_R1_001.fastq.gz | RNA-Seq | 1.7 GB |
| isSTAMP08_14_S14_L002_R1_001.fastq.gz | RNA-Seq | 1.5 GB |
| isSTAMP10_01_S1_L004_R1_001.fastq.gz | RNA-Seq | 1.7 GB |
| isSTAMP10_02_S2_L004_R1_001.fastq.gz | RNA-Seq | 1.7 GB |
| isSTAMP10_03_S3_L004_R1_001.fastq.gz | RNA-Seq | 2.0 GB |
| isSTAMP10_08_S8_L004_R1_001.fastq.gz | RNA-Seq | 1.6 GB |
| isSTAMP10_09_S9_L004_R1_001.fastq.gz | RNA-Seq | 2.0 GB |
| isSTAMP10_13_S13_L004_R1_001.fastq.gz | RNA-Seq | 1.6 GB |
| isSTAMP10_14_S14_L004_R1_001.fastq.gz | RNA-Seq | 1.7 GB |
| isSTAMP10_15_S15_L004_R1_001.fastq.gz | RNA-Seq | 1.3 GB |
| isSTAMP10_16_S16_L004_R1_001.fastq.gz | RNA-Seq | 1.8 GB |
| isSTAMP10_17_S17_L004_R1_001.fastq.gz | RNA-Seq | 1.5 GB |
| isSTAMP10_18_S18_L004_R1_001.fastq.gz | RNA-Seq | 1.6 GB |
| isSTAMP10_20_S20_L004_R1_001.fastq.gz | RNA-Seq | 3.1 GB |
| isSTAMP10_21_S21_L004_R1_001.fastq.gz | RNA-Seq | 3.2 GB |
| isSTAMP10_25_S25_L004_R1_001.fastq.gz | RNA-Seq | 1.4 GB |
| isSTAMP10_25_S59_L001_R1_001.fastq.gz | RNA-Seq | 317.1 MB |
| isSTAMP10_25_S59_L002_R1_001.fastq.gz | RNA-Seq | 367.0 MB |
| isSTAMP10_26_S26_L004_R1_001.fastq.gz | RNA-Seq | 1.8 GB |
| isSTAMP10_27_S27_L004_R1_001.fastq.gz | RNA-Seq | 1.9 GB |
| isSTAMP10_32_S32_L004_R1_001.fastq.gz | RNA-Seq | 3.1 GB |
| isSTAMP10_33_S33_L004_R1_001.fastq.gz | RNA-Seq | 2.5 GB |
| isSTAMP10_34_S34_L004_R1_001.fastq.gz | RNA-Seq | 3.3 GB |
| isSTAMP10_35_S35_L004_R1_001.fastq.gz | RNA-Seq | 5.3 GB |
| isSTAMP10_36_S36_L004_R1_001.fastq.gz | RNA-Seq | 2.2 GB |
| isSTAMP10_36_S60_L001_R1_001.fastq.gz | RNA-Seq | 266.2 MB |
| isSTAMP10_36_S60_L002_R1_001.fastq.gz | RNA-Seq | 301.9 MB |
| isSTAMP12-01_S1_L001_R1_001.fastq.gz | RNA-Seq | 640.2 MB |
| isSTAMP12-01_S1_L002_R1_001.fastq.gz | RNA-Seq | 634.3 MB |
| isSTAMP12-02_S2_L001_R1_001.fastq.gz | RNA-Seq | 699.3 MB |
| isSTAMP12-02_S2_L002_R1_001.fastq.gz | RNA-Seq | 688.1 MB |
| isSTAMP12-03_S3_L001_R1_001.fastq.gz | RNA-Seq | 587.1 MB |
| isSTAMP12-03_S3_L002_R1_001.fastq.gz | RNA-Seq | 577.6 MB |
| isSTAMP12-04_S4_L001_R1_001.fastq.gz | RNA-Seq | 549.7 MB |
| isSTAMP12-04_S4_L002_R1_001.fastq.gz | RNA-Seq | 540.0 MB |
| isSTAMP12-05_S5_L001_R1_001.fastq.gz | RNA-Seq | 758.5 MB |
| isSTAMP12-05_S5_L002_R1_001.fastq.gz | RNA-Seq | 750.0 MB |
| isSTAMP12-06_S6_L001_R1_001.fastq.gz | RNA-Seq | 682.2 MB |
| isSTAMP12-06_S6_L002_R1_001.fastq.gz | RNA-Seq | 670.9 MB |
| isSTAMP12-07_S7_L001_R1_001.fastq.gz | RNA-Seq | 1.2 GB |
| isSTAMP12-07_S7_L002_R1_001.fastq.gz | RNA-Seq | 1.2 GB |
| isSTAMP12-08_S8_L001_R1_001.fastq.gz | RNA-Seq | 683.6 MB |
| isSTAMP12-08_S8_L002_R1_001.fastq.gz | RNA-Seq | 672.1 MB |
| isSTAMP12-09_S9_L001_R1_001.fastq.gz | RNA-Seq | 629.1 MB |
| isSTAMP12-09_S9_L002_R1_001.fastq.gz | RNA-Seq | 618.9 MB |
| SRR25508725_GSM7679866 | RNA-Seq | 1.5 GB |
| SRR25508726_GSM7679865 | RNA-Seq | 1.7 GB |
| SRR25508727_GSM7679864 | RNA-Seq | 1.5 GB |
| SRR25508728_GSM7679863 | RNA-Seq | 1.6 GB |
| SRR25508729_GSM7679862 | RNA-Seq | 1.4 GB |
| SRR25508730_GSM7679861 | RNA-Seq | 1.4 GB |
| SRR25508731_GSM7679860 | RNA-Seq | 629.0 MB |
| SRR25508732_GSM7679860 | RNA-Seq | 618.0 MB |
| SRR25508733_GSM7679859 | RNA-Seq | 683.0 MB |
| SRR25508734_GSM7679859 | RNA-Seq | 672.0 MB |
| SRR25508735_GSM7679858 | RNA-Seq | 1.2 GB |
| SRR25508736_GSM7679858 | RNA-Seq | 1.2 GB |
| SRR25508737_GSM7679857 | RNA-Seq | 682.0 MB |
| SRR25508738_GSM7679857 | RNA-Seq | 670.0 MB |
| SRR25508739_GSM7679856 | RNA-Seq | 758.0 MB |
| SRR25508740_GSM7679856 | RNA-Seq | 749.0 MB |
| SRR25508741_GSM7679855 | RNA-Seq | 549.0 MB |
| SRR25508742_GSM7679855 | RNA-Seq | 539.0 MB |
| SRR25508743_GSM7679854 | RNA-Seq | 587.0 MB |
| SRR25508744_GSM7679854 | RNA-Seq | 577.0 MB |
| SRR25508745_GSM7679853 | RNA-Seq | 699.0 MB |
| SRR25508746_GSM7679853 | RNA-Seq | 688.0 MB |
| SRR25508747_GSM7679852 | RNA-Seq | 640.0 MB |
| SRR25508748_GSM7679852 | RNA-Seq | 634.0 MB |
| SRR25508749_GSM7679851 | RNA-Seq | 2.2 GB |
| SRR25508750_GSM7679851 | RNA-Seq | 266.0 MB |
| SRR25508751_GSM7679851 | RNA-Seq | 301.0 MB |
| SRR25508752_GSM7679850 | RNA-Seq | 5.3 GB |
| SRR25508753_GSM7679849 | RNA-Seq | 3.3 GB |
| SRR25508754_GSM7679848 | RNA-Seq | 2.5 GB |
| SRR25508755_GSM7679847 | RNA-Seq | 3.1 GB |
| SRR25508756_GSM7679846 | RNA-Seq | 2.8 GB |
| SRR25508756.lite | RNA-Seq | 2.8 GB |
| SRR25508757_GSM7679845 | RNA-Seq | 1.9 GB |
| SRR25508758_GSM7679844 | RNA-Seq | 1.8 GB |
| SRR25508759_GSM7679842 | RNA-Seq | 3.2 GB |
| SRR25508760_GSM7679843 | RNA-Seq | 1.4 GB |
| SRR25508761_GSM7679843 | RNA-Seq | 317.0 MB |
| SRR25508762_GSM7679843 | RNA-Seq | 367.0 MB |
| SRR25508763_GSM7679841 | RNA-Seq | 3.1 GB |
| SRR25508764_GSM7679840 | RNA-Seq | 3.7 GB |
| SRR25508764.lite | RNA-Seq | 3.7 GB |
| SRR25508765_GSM7679839 | RNA-Seq | 1.6 GB |
| SRR25508766_GSM7679838 | RNA-Seq | 1.5 GB |
| SRR25508767_GSM7679837 | RNA-Seq | 1.8 GB |
| SRR25508768_GSM7679836 | RNA-Seq | 1.3 GB |
| SRR25508769_GSM7679835 | RNA-Seq | 1.7 GB |
| SRR25508770_GSM7679834 | RNA-Seq | 1.6 GB |
| SRR25508771_GSM7679833 | RNA-Seq | 2.0 GB |
| SRR25508772_GSM7679832 | RNA-Seq | 1.6 GB |
| SRR25508773_GSM7679831 | RNA-Seq | 1.9 GB |
| SRR25508773.lite | RNA-Seq | 1.9 GB |
| SRR25508774_GSM7679830 | RNA-Seq | 2.0 GB |
| SRR25508775_GSM7679829 | RNA-Seq | 1.7 GB |
| SRR25508776_GSM7679828 | RNA-Seq | 1.7 GB |
An in situ method for identification of transcriptome-wide protein-RNA interactions in cells [eCLIP-seq ]
Mus musculus
4 data files
| File | Type | Size |
|---|---|---|
| SRR25594683_GSM7699377 | RIP-Seq | 2.0 GB |
| SRR25594684_GSM7699376 | RIP-Seq | 513.0 MB |
| YS4_S14_L002_R1_001.fastq.gz | RIP-Seq | 2.0 GB |
| YS6_S2_L001_R1_001.fastq.gz | RIP-Seq | 513.3 MB |
An in situ method for identification of transcriptome-wide protein-RNA interactions in cells [isSTAMP]
Mus musculus
30 data files
| File | Type | Size |
|---|---|---|
| isSTAMP08_sd_01_S10_L001_R1_001.fastq.gz | OTHER | 1.6 GB |
| isSTAMP08_sd_02_S11_L001_R1_001.fastq.gz | OTHER | 2.3 GB |
| isSTAMP08_sd_03_S12_L001_R1_001.fastq.gz | OTHER | 2.1 GB |
| isSTAMP08_sd_04_S13_L001_R1_001.fastq.gz | OTHER | 2.0 GB |
| isSTAMP08_sd_05_S14_L001_R1_001.fastq.gz | OTHER | 1.9 GB |
| isSTAMP08_sd_06_S15_L001_R1_001.fastq.gz | OTHER | 2.0 GB |
| isSTAMP15_01_S1_L001_R1_001.fastq.gz | OTHER | 2.9 GB |
| isSTAMP15_02_S2_L001_R1_001.fastq.gz | OTHER | 3.2 GB |
| isSTAMP15_03_S3_L001_R1_001.fastq.gz | OTHER | 2.4 GB |
| isSTAMP15_04_S4_L001_R1_001.fastq.gz | OTHER | 2.4 GB |
| isSTAMP15_05_S5_L001_R1_001.fastq.gz | OTHER | 2.6 GB |
| isSTAMP15_06_S6_L001_R1_001.fastq.gz | OTHER | 2.3 GB |
| isSTAMP15_07_S7_L001_R1_001.fastq.gz | OTHER | 3.2 GB |
| isSTAMP15_08_S8_L001_R1_001.fastq.gz | OTHER | 2.6 GB |
| isSTAMP15_09_S9_L001_R1_001.fastq.gz | OTHER | 2.3 GB |
| SRR28574783_GSM8190540 | OTHER | 2.3 GB |
| SRR28574784_GSM8190539 | OTHER | 2.6 GB |
| SRR28574785_GSM8190538 | OTHER | 3.2 GB |
| SRR28574786_GSM8190537 | OTHER | 2.3 GB |
| SRR28574787_GSM8190536 | OTHER | 2.6 GB |
| SRR28574788_GSM8190535 | OTHER | 2.4 GB |
| SRR28574789_GSM8190534 | OTHER | 2.4 GB |
| SRR28574790_GSM8190533 | OTHER | 3.2 GB |
| SRR28574791_GSM8190532 | OTHER | 2.9 GB |
| SRR28574792_GSM8190531 | OTHER | 2.0 GB |
| SRR28574793_GSM8190530 | OTHER | 1.9 GB |
| SRR28574794_GSM8190529 | OTHER | 2.0 GB |
| SRR28574795_GSM8190528 | OTHER | 2.1 GB |
| SRR28574796_GSM8190527 | OTHER | 2.3 GB |
| SRR28574797_GSM8190526 | OTHER | 1.6 GB |
Potentially related datasets 8
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.
| Accession | Source | Title |
|---|---|---|
| GSE91895 | GSE · GEO GEO ↗ | eCLIP from K562 (ENCSR584TCR) |
| GSE263371 | GSE · GEO GEO ↗ | An in situ method for identification of transcriptome-wide protein-RNA interactions in cells [isSTAMP] |
| GSE77634 | GSE · GEO GEO ↗ | Enhanced CLIP (eCLIP) enables robust and scalable transcriptome-wide discovery and characterization of RNA binding protein binding sites |
| GSE240521 | GSE · GEO GEO ↗ | An in situ method for identification of transcriptome-wide protein-RNA interactions in cells [eCLIP-seq ] |
| GSE155729 | GSE · GEO GEO ↗ | Robust single-cell discovery of RNA targets of RNA binding proteins and ribosomes |
| GSE240014 | GSE · GEO GEO ↗ | An in situ method for identification of transcriptome-wide protein-RNA interactions in cells [in_situ_STAMP] |
| GSE240326 | GSE · GEO GEO ↗ | An in situ method for identification of transcriptome-wide protein-RNA interactions in cells |
| GSE232520 | GSE · GEO GEO ↗ | Expanded palette of RNA base editors for comprehensive RBP-RNA interactome studies |
Analysis pipelines 8
| Pipeline | Assay | Steps | Dataset |
|---|---|---|---|
| GSE240014 Data Processing geo_data_processing | — | 6 | GSE240014 |
| GSE240325 Data Processing geo_data_processing | — | 7 | GSE240325 |
| GSE240326 Data Processing geo_data_processing | — | 6 | GSE240326 |
| GSE240521 eCLIP Data Processing geo_data_processing | eCLIP | 9 | GSE240521 |
| GSE248461 Data Processing geo_data_processing | — | 6 | GSE248461 |
| GSE263371 Data Processing geo_data_processing | — | 6 | GSE263371 |
| GSE263870 Data Processing geo_data_processing | — | 9 | GSE263870 |
| GSE91895 eCLIP Data Processing geo_data_processing | eCLIP | 1 | GSE91895 |
Funding 8 grants
| Grant | Funder |
|---|---|
| S10 OD026929 | NIH HHS (United States) |
| R01 HG004659 | NHGRI NIH HHS (United States) |
| U24 HG011735 | NHGRI NIH HHS (United States) |
| RF1 MH126719 | NIMH NIH HHS (United States) |
| R01 HG011864 | NHGRI NIH HHS (United States) |
| R35 GM144121 | NIGMS NIH HHS (United States) |
| P30 CA014195 | NCI NIH HHS (United States) |
| S10 OD025052 | NIH HHS (United States) |