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Conserved interferon-gamma signaling and decreased immune exclusion programs in responses to immune checkpoint blockade therapy_CM38-DNA

We analyzed baseline and on-therapy tumor biopsies from 101 patients with advanced melanoma treated with nivolumab (anti-PD-1) alone or combined with ipilimumab (anti-CTLA-4). Analysis of whole transcriptome data showed that T cell infiltration and interferon-gamma signaling signatures corresponded most highly with clinical response to therapy, with a reciprocal decrease in cell cycle and WNT signaling pathways in responding biopsies. Clinical outcome differences were likely not due to differential melanoma cell responses to interferon-gamma, as 57 human melanoma cell lines exposed in vitro to this cytokine showed a conserved interferon-gamma transcriptome response unless they had mutations that precluded signaling from the interferon-gamma receptor. Therefore, the magnitude of the antitumor T cell response and the corresponding downstream interferon-gamma signaling are the main drivers of clinical response or resistance to immune checkpoint blockade therapy.

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Studies are experimental investigations of a particular phenomenon, e.g., case-control studies on a particular trait or cancer research projects reporting matching cancer normal genomes from patients.

Study ID Study Title Study Type
Other

This table displays only public information pertaining to the files in the dataset. If you wish to access this dataset, please submit a request. If you already have access to these data files, please consult the download documentation.

ID File Type Size Located in
EGAF00004173341 fastq.gz 2.7 GB
EGAF00004173342 fastq.gz 2.7 GB
EGAF00004173343 fastq.gz 5.4 GB
EGAF00004173344 fastq.gz 5.6 GB
EGAF00004173345 fastq.gz 3.2 GB
EGAF00004173346 fastq.gz 3.4 GB
EGAF00004173347 fastq.gz 5.5 GB
EGAF00004173348 fastq.gz 5.6 GB
EGAF00004173349 fastq.gz 3.9 GB
EGAF00004173350 fastq.gz 4.0 GB
EGAF00004173351 fastq.gz 7.1 GB
EGAF00004173352 fastq.gz 7.1 GB
EGAF00004173353 fastq.gz 3.4 GB
EGAF00004173354 fastq.gz 3.5 GB
EGAF00004173355 fastq.gz 7.2 GB
EGAF00004173356 fastq.gz 7.3 GB
EGAF00004173357 fastq.gz 4.6 GB
EGAF00004173358 fastq.gz 4.6 GB
EGAF00004173359 fastq.gz 8.0 GB
EGAF00004173360 fastq.gz 8.2 GB
EGAF00004173361 fastq.gz 5.0 GB
EGAF00004173362 fastq.gz 5.1 GB
EGAF00004173363 fastq.gz 5.6 GB
EGAF00004173364 fastq.gz 5.8 GB
EGAF00004173365 fastq.gz 3.2 GB
EGAF00004173366 fastq.gz 3.1 GB
EGAF00004173367 fastq.gz 5.5 GB
EGAF00004173368 fastq.gz 5.4 GB
EGAF00004173369 fastq.gz 3.7 GB
EGAF00004173370 fastq.gz 3.7 GB
EGAF00004173371 fastq.gz 7.3 GB
EGAF00004173372 fastq.gz 7.4 GB
EGAF00004173373 fastq.gz 5.0 GB
EGAF00004173374 fastq.gz 5.2 GB
EGAF00004173375 fastq.gz 6.3 GB
EGAF00004173376 fastq.gz 6.4 GB
EGAF00004173377 fastq.gz 2.3 GB
EGAF00004173378 fastq.gz 2.4 GB
EGAF00004173379 fastq.gz 7.4 GB
EGAF00004173380 fastq.gz 7.8 GB
EGAF00004173381 fastq.gz 2.6 GB
EGAF00004173382 fastq.gz 2.6 GB
EGAF00004173383 fastq.gz 6.9 GB
EGAF00004173384 fastq.gz 7.0 GB
EGAF00004173385 fastq.gz 2.3 GB
EGAF00004173386 fastq.gz 2.4 GB
EGAF00004173387 fastq.gz 7.1 GB
EGAF00004173388 fastq.gz 7.1 GB
EGAF00004173389 fastq.gz 2.6 GB
EGAF00004173390 fastq.gz 2.6 GB
EGAF00004173391 fastq.gz 6.8 GB
EGAF00004173392 fastq.gz 6.8 GB
EGAF00004173393 fastq.gz 2.6 GB
EGAF00004173394 fastq.gz 2.7 GB
EGAF00004173395 fastq.gz 7.3 GB
EGAF00004173396 fastq.gz 7.3 GB
EGAF00004173397 fastq.gz 2.4 GB
EGAF00004173398 fastq.gz 2.5 GB
EGAF00004173399 fastq.gz 6.9 GB
EGAF00004173400 fastq.gz 7.0 GB
EGAF00004173401 fastq.gz 2.6 GB
EGAF00004173402 fastq.gz 2.6 GB
EGAF00004173403 fastq.gz 7.3 GB
EGAF00004173404 fastq.gz 7.4 GB
EGAF00004173405 fastq.gz 2.5 GB
EGAF00004173406 fastq.gz 2.6 GB
EGAF00004173407 fastq.gz 6.4 GB
EGAF00004173408 fastq.gz 6.4 GB
EGAF00004173409 fastq.gz 3.0 GB
EGAF00004173410 fastq.gz 3.5 GB
EGAF00004173411 fastq.gz 7.0 GB
EGAF00004173412 fastq.gz 8.3 GB
EGAF00004173413 fastq.gz 2.2 GB
EGAF00004173414 fastq.gz 2.2 GB
EGAF00004173415 fastq.gz 7.5 GB
EGAF00004173416 fastq.gz 7.6 GB
EGAF00004173417 fastq.gz 3.2 GB
EGAF00004173418 fastq.gz 3.2 GB
EGAF00004173419 fastq.gz 6.2 GB
EGAF00004173420 fastq.gz 6.4 GB
EGAF00004173421 fastq.gz 3.5 GB
EGAF00004173422 fastq.gz 3.5 GB
EGAF00004173423 fastq.gz 7.5 GB
EGAF00004173424 fastq.gz 7.4 GB
EGAF00004173425 fastq.gz 3.4 GB
EGAF00004173426 fastq.gz 4.0 GB
EGAF00004173427 fastq.gz 6.6 GB
EGAF00004173428 fastq.gz 8.0 GB
EGAF00004173429 fastq.gz 3.6 GB
EGAF00004173430 fastq.gz 4.2 GB
EGAF00004173431 fastq.gz 6.6 GB
EGAF00004173432 fastq.gz 7.7 GB
EGAF00004173433 fastq.gz 3.8 GB
EGAF00004173434 fastq.gz 4.3 GB
EGAF00004173435 fastq.gz 6.8 GB
EGAF00004173436 fastq.gz 7.8 GB
EGAF00004173437 fastq.gz 2.0 GB
EGAF00004173438 fastq.gz 2.2 GB
EGAF00004173439 fastq.gz 6.9 GB
EGAF00004173440 fastq.gz 7.1 GB
EGAF00004173441 fastq.gz 3.1 GB
EGAF00004173442 fastq.gz 3.3 GB
EGAF00004173443 fastq.gz 6.6 GB
EGAF00004173444 fastq.gz 6.8 GB
EGAF00004173445 fastq.gz 4.2 GB
EGAF00004173446 fastq.gz 4.8 GB
EGAF00004173447 fastq.gz 4.7 GB
EGAF00004173448 fastq.gz 5.4 GB
EGAF00004173449 fastq.gz 2.2 GB
EGAF00004173450 fastq.gz 2.4 GB
EGAF00004173451 fastq.gz 6.5 GB
EGAF00004173452 fastq.gz 6.7 GB
EGAF00004173453 fastq.gz 4.2 GB
EGAF00004173454 fastq.gz 4.8 GB
EGAF00004173455 fastq.gz 5.9 GB
EGAF00004173456 fastq.gz 6.8 GB
EGAF00004173457 fastq.gz 3.0 GB
EGAF00004173458 fastq.gz 3.2 GB
EGAF00004173459 fastq.gz 7.6 GB
EGAF00004173460 fastq.gz 7.4 GB
EGAF00004173461 fastq.gz 3.6 GB
EGAF00004173462 fastq.gz 3.8 GB
EGAF00004173463 fastq.gz 7.0 GB
EGAF00004173464 fastq.gz 7.0 GB
EGAF00004173465 fastq.gz 2.5 GB
EGAF00004173466 fastq.gz 2.6 GB
EGAF00004173467 fastq.gz 7.4 GB
EGAF00004173468 fastq.gz 7.5 GB
EGAF00004173469 fastq.gz 3.3 GB
EGAF00004173470 fastq.gz 3.4 GB
EGAF00004173471 fastq.gz 6.2 GB
EGAF00004173472 fastq.gz 6.0 GB
EGAF00004173473 fastq.gz 3.5 GB
EGAF00004173474 fastq.gz 3.7 GB
EGAF00004173475 fastq.gz 7.9 GB
EGAF00004173476 fastq.gz 8.3 GB
EGAF00004173477 fastq.gz 2.9 GB
EGAF00004173478 fastq.gz 3.5 GB
EGAF00004173479 fastq.gz 6.2 GB
EGAF00004173480 fastq.gz 7.2 GB
140 Files (710.1 GB)