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GSE249247

GSE GEO
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Integrated multi-omics analysis of zinc finger proteins uncovers roles in RNA regulation.

Organism: Homo sapiens
Platform: GPL24676
Samples: 630
Experiment Types:
Other Expression profiling by high throughput sequencing
Submitted: Dec 04 2023
Last Updated: Jan 03 2025
Status: Public on Sep 20 2024
Contact: Brian,,Yee (UCSD)

Relations

SuperSeries of: GSE249245 SuperSeries of: GSE249246 SuperSeries of: GSE268963 SuperSeries of: GSE277047 SuperSeries of: GSE277160 SuperSeries of: GSE277161 BioProject: https://www.ncbi.nlm.nih.gov/bioproject/PRJNA1048308

Summary

This SuperSeries is composed of the SubSeries listed below.

Overall Design

Refer to individual Series

Analysis (5 steps)

View Data Processing
Processing steps for GSE249247
  1. *library strategy: Cut&Run
  2. Data analysis was performed using a modified version of CUT&RUNTools 2.0.
  3. Adapters were trimmed using Trimmomatic (v0.36), followed by a second round of trimming to remove any remaining adapter overhang sequences not removed due to fragment read-through.
  4. Reads were aligned to hg38 using bowtie2 (v2.3.5.1) using preset “--very-sensitive-local,” minimum fragment length 10, and maximum fragment length 700.
  5. After removing PCR duplicates with Picard (v0.1.8), peaks were called using MACS2 (v2.2.7.1) on the default narrowPeak setting using the same-batch V5 mock IP sample as a normalization control.

Supplementary Files (1)

GSE249247_RAW.tar Download
GEO Samples (630)
GSM7931961 GSM7931962 GSM7931963 GSM7931964 GSM7931965 GSM7931966 GSM7931967 GSM7931968 GSM7931969 GSM7931970 GSM7931971 GSM7931972 GSM7931973 GSM7931974 GSM7931975 GSM7931976 GSM7931977 GSM7931978 GSM7931979 GSM7931980 GSM7931981 GSM7931982 GSM7931983 GSM7931984 GSM7931985 GSM7931986 GSM7931987 GSM7931988 GSM7931989 GSM7931990 GSM7931991 GSM7931992 GSM7931993 GSM7931994 GSM7931995 GSM7931996 GSM7931997 GSM7931998 GSM7931999 GSM7932000 GSM7932001 GSM7932002 GSM7932003 GSM7932004 GSM7932005 GSM7932006 GSM7932007 GSM7932008 GSM7932009 GSM7932010 GSM7932011 GSM7932012 GSM7932013 GSM7932014 GSM7932015 GSM7932016 GSM7932017 GSM7932018 GSM7932019 GSM7932020 GSM7932021 GSM7932022 GSM7932023 GSM7932024 GSM7932025 GSM7932026 GSM7932027 GSM7932028 GSM7932029 GSM7932030 GSM7932031 GSM7932032 GSM7932033 GSM7932034 GSM7932035 GSM7932036 GSM7932037 GSM7932038 GSM7932039 GSM7932040 GSM7932041 GSM7932042 GSM7932043 GSM7932044 GSM7932045 GSM7932046 GSM7932047 GSM7932048 GSM7932049 GSM7932050 GSM7932051 GSM7932052 GSM7932053 GSM7932054 GSM7932055 GSM7932056 GSM7932057 GSM7932058 GSM7932059 GSM7932060 GSM7932061 GSM7932062 GSM7932063 GSM7932064 GSM7932065 GSM7932066 GSM7932067 GSM7932068 GSM7932069 GSM7932070 GSM7932071 GSM7932072 GSM7932073 GSM7932074 GSM7932075 GSM7932076 GSM7932077 GSM7932078 GSM7932079 GSM7932080 GSM7932081 GSM7932082 GSM7932083 GSM7932084 GSM7932085 GSM7932086 GSM7932087 GSM7932088 GSM7932089 GSM7932090 GSM7932091 GSM7932092 GSM7932093 GSM7932094 GSM7932095 GSM7932096 GSM7932097 GSM7932098 GSM7932099 GSM7932100 GSM7932101 GSM7932102 GSM7932103 GSM7932104 GSM7932105 GSM7932106 GSM7932107 GSM7932108 GSM7932109 GSM7932110 GSM7932111 GSM7932112 GSM7932113 GSM7932114 GSM7932115 GSM7932116 GSM7932117 GSM7932118 GSM7932119 GSM7932120 GSM7932121 GSM7932122 GSM7932123 GSM7932124 GSM7932125 GSM7932126 GSM7932127 GSM7932128 GSM7932129 GSM7932130 GSM7932131 GSM7932132 GSM7932133 GSM7932134 GSM7932135 GSM7932136 GSM7932137 GSM7932138 GSM7932139 GSM7932140 GSM7932141 GSM7932142 GSM7932143 GSM7932144 GSM7932145 GSM7932146 GSM7932147 GSM7932148 GSM7932149 GSM7932150 GSM7932151 GSM7932152 GSM7932153 GSM7932154 GSM7932155 GSM7932156 GSM7932157 GSM7932158 GSM7932159 GSM7932160 GSM7932161 GSM7932162 GSM7932163 GSM7932164 GSM7932165 GSM7932166 GSM7932167 GSM7932168 GSM8302061 GSM8302062 GSM8302063 GSM8302064 GSM8302065 GSM8302066 GSM8302067 GSM8302068 GSM8302069 GSM8302070 GSM8302071 GSM8302072 GSM8302073 GSM8302074 GSM8302075 GSM8302076 GSM8303624 GSM8303625 GSM8303626 GSM8303627 GSM8303628 GSM8303629 GSM8303630 GSM8303631 GSM8303632 GSM8303633 GSM8303634 GSM8303635 GSM8303636 GSM8303637 GSM8303638 GSM8303639 GSM8303640 GSM8303641 GSM8303642 GSM8303643 GSM8303644 GSM8303645 GSM8303646 GSM8303647 GSM8303648 GSM8303649 GSM8303650 GSM8303651 GSM8303652 GSM8303653 GSM8303654 GSM8303655 GSM8303656 GSM8303657 GSM8303658 GSM8303659 GSM8303660 GSM8303661 GSM8303662 GSM8303663 GSM8303664 GSM8303665 GSM8303666 GSM8303667 GSM8303668 GSM8303669 GSM8303670 GSM8303671 GSM8303672 GSM8303673 GSM8303674 GSM8303675 GSM8303676 GSM8303677 GSM8303678 GSM8303679 GSM8303680 GSM8303681 GSM8303682 GSM8303683 GSM8303684 GSM8303685 GSM8303686 GSM8303687 GSM8303688 GSM8303689 GSM8303690 GSM8303691 GSM8303692 GSM8303693 GSM8303694 GSM8303695 GSM8303696 GSM8303697 GSM8303698 GSM8303699 GSM8303700 GSM8303701 GSM8303702 GSM8303703 GSM8303704 GSM8303705 GSM8303706 GSM8303707 GSM8303708 GSM8303709 GSM8303710 GSM8303711 GSM8303712 GSM8303713 GSM8303714 GSM8303715 GSM8303716 GSM8303717 GSM8303718 GSM8303719 GSM8303720 GSM8303721 GSM8303722 GSM8303723 GSM8303724 GSM8303725 GSM8303726 GSM8303727 GSM8303728 GSM8303729 GSM8303730 GSM8303731 GSM8303732 GSM8303733 GSM8303734 GSM8303735 GSM8303736 GSM8303737 GSM8303738 GSM8303739 GSM8303740 GSM8303741 GSM8303742 GSM8303743 GSM8513162 GSM8513163 GSM8513164 GSM8513165 GSM8515200 GSM8515201 GSM8515202 GSM8515203 GSM8515204 GSM8515205 GSM8515206 GSM8515207 GSM8515208 GSM8515209 GSM8515210 GSM8515211 GSM8515212 GSM8515213 GSM8515214 GSM8515215 GSM8515216 GSM8515217 GSM8515218 GSM8515219 GSM8515220 GSM8515221 GSM8515222 GSM8515223 GSM8515224 GSM8515225 GSM8515226 GSM8515227 GSM8515228 GSM8515229 GSM8515230 GSM8515231 GSM8515232 GSM8515233 GSM8515234 GSM8515235 GSM8515236 GSM8515237 GSM8515238 GSM8515239 GSM8515240 GSM8515241 GSM8515242 GSM8515243 GSM8515244 GSM8515245 GSM8515246 GSM8515247 GSM8515248 GSM8515249 GSM8515250 GSM8515251 GSM8515252 GSM8515253 GSM8515254 GSM8515255 GSM8515256 GSM8515257 GSM8515258 GSM8515259 GSM8515260 GSM8515261 GSM8515262 GSM8515263 GSM8515264 GSM8515265 GSM8515266 GSM8515267 GSM8515268 GSM8515269 GSM8515270 GSM8515271 GSM8515272 GSM8515273 GSM8515274 GSM8515275 GSM8515276 GSM8515277 GSM8515278 GSM8515279 GSM8515280 GSM8515281 GSM8515282 GSM8515283 GSM8515284 GSM8515285 GSM8515286 GSM8515287 GSM8515288 GSM8515289 GSM8515290 GSM8515291 GSM8515292 GSM8515293 GSM8515294 GSM8515295 GSM8515296 GSM8515297 GSM8515298 GSM8515299 GSM8515300 GSM8515301 GSM8515302 GSM8515303 GSM8515304 GSM8515305 GSM8515306 GSM8515307 GSM8515308 GSM8515309 GSM8515310 GSM8515311 GSM8515312 GSM8515313 GSM8515314 GSM8515315 GSM8515316 GSM8515317 GSM8515318 GSM8515319 GSM8515320 GSM8515321 GSM8515322 GSM8515323 GSM8515324 GSM8515325 GSM8515326 GSM8515327 GSM8515328 GSM8515329 GSM8515330 GSM8515331 GSM8515332 GSM8515333 GSM8515334 GSM8515335 GSM8515336 GSM8515337 GSM8515338 GSM8515339 GSM8515340 GSM8515341 GSM8515342 GSM8515343 GSM8515344 GSM8515345 GSM8515346 GSM8515347 GSM8515348 GSM8515349 GSM8515350 GSM8515351 GSM8515352 GSM8515353 GSM8515354 GSM8515355 GSM8515356 GSM8515357 GSM8515358 GSM8515359 GSM8515360 GSM8515361 GSM8515362 GSM8515363 GSM8515364 GSM8515365 GSM8515366 GSM8515367 GSM8515368 GSM8515369 GSM8515370 GSM8515371 GSM8515372 GSM8515373 GSM8515374 GSM8515375 GSM8515376 GSM8515377 GSM8515378 GSM8515379 GSM8515380 GSM8515381 GSM8515382 GSM8515383 GSM8515384 GSM8515385 GSM8515386 GSM8515387 GSM8515388 GSM8515389 GSM8515390 GSM8515391 GSM8515392 GSM8515393 GSM8515394 GSM8515395 GSM8515396 GSM8515397 GSM8515398 GSM8515399 GSM8515400 GSM8515401 GSM8515402 GSM8515403 GSM8515404 GSM8515405 GSM8515406 GSM8515407 GSM8515408 GSM8515409 GSM8515410 GSM8515411 GSM8515412 GSM8515413 GSM8515414 GSM8515415 GSM8515416 GSM8515417 GSM8515418 GSM8515419 GSM8515420 GSM8515421 GSM8515422 GSM8515423 GSM8515424 GSM8515425 GSM8515426 GSM8515427 GSM8515428 GSM8515429 GSM8515430 GSM8515431 GSM8515432 GSM8515433 GSM8515434 GSM8515435 GSM8515436 GSM8515437 GSM8515438 GSM8515439 GSM8515440 GSM8515441 GSM8515442 GSM8515443 GSM8515444 GSM8515445 GSM8515446 GSM8515447 GSM8515448 GSM8515449 GSM8515450 GSM8515451 GSM8515452 GSM8515453 GSM8515454 GSM8515455 GSM8515456 GSM8515457 GSM8515458 GSM8515459 GSM8515460 GSM8515461 GSM8515462 GSM8515463 GSM8515464 GSM8515465 GSM8515466 GSM8515467 GSM8515468 GSM8515469 GSM8515470 GSM8515471 GSM8515472 GSM8515473 GSM8515474 GSM8515475 GSM8515476 GSM8515477 GSM8515478 GSM8515479 GSM8515480 GSM8515481

Dataset Citations (1)

Integrated multi-omics analysis of zinc-finger proteins uncovers roles in RNA regulation.
PMID 39303722 · 2024 · Molecular cell
Maya L Gosztyla, Lijun Zhan, Sara Olson, Xintao Wei, Jack Naritomi, Grady Nguyen, Lena Street, Grant A Goda, Francisco F Cavazos, Jonathan C Schmok, Manya Jain, Easin Uddin Syed, Eunjeong Kwon, Wenhao Jin, Eric Kofman, Alexandra T Tankka, Allison Li, Valerie Gonzalez, Eric Lécuyer, Daniel Dominguez, Marko Jovanovic, Brenton R Graveley, Gene W Yeo

Linked Publications (2)

Integrated multi-omics analysis of zinc-finger proteins uncovers roles in RNA regulation.
Molecular cell · 2024
Integrated multi-omics analysis of zinc-finger proteins uncovers roles in RNA regulation.
Molecular cell · 2024