Anatomic position determines oncogenic specificity in melanoma.
Journal
Nature
ISSN: 1476-4687
Titre abrégé: Nature
Pays: England
ID NLM: 0410462
Informations de publication
Date de publication:
04 2022
04 2022
Historique:
received:
14
11
2020
accepted:
25
02
2022
pubmed:
1
4
2022
medline:
16
4
2022
entrez:
31
3
2022
Statut:
ppublish
Résumé
Oncogenic alterations to DNA are not transforming in all cellular contexts
Identifiants
pubmed: 35355015
doi: 10.1038/s41586-022-04584-6
pii: 10.1038/s41586-022-04584-6
pmc: PMC9355078
mid: NIHMS1816756
doi:
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
354-361Subventions
Organisme : NCI NIH HHS
ID : F30 CA220954
Pays : United States
Organisme : NCI NIH HHS
ID : P30 CA008748
Pays : United States
Organisme : NIGMS NIH HHS
ID : T32 GM008539
Pays : United States
Organisme : Medical Research Council
Pays : United Kingdom
Organisme : NCI NIH HHS
ID : R01 CA238317
Pays : United States
Organisme : NIH HHS
ID : S10 OD010598
Pays : United States
Organisme : NCI NIH HHS
ID : F30 CA236442
Pays : United States
Organisme : NCI NIH HHS
ID : K00 CA223016
Pays : United States
Organisme : NIGMS NIH HHS
ID : T32 GM007739
Pays : United States
Organisme : NCI NIH HHS
ID : R01 CA229215
Pays : United States
Organisme : NCI NIH HHS
ID : DP2 CA186572
Pays : United States
Commentaires et corrections
Type : CommentIn
Informations de copyright
© 2022. The Author(s), under exclusive licence to Springer Nature Limited.
Références
Tang, J. et al. The genomic landscapes of individual melanocytes from human skin. Nature 586, 600–605 (2020).
doi: 10.1038/s41586-020-2785-8
pubmed: 33029006
pmcid: 7581540
Fowler, J. C. et al. Selection of oncogenic mutant clones in normal human skin varies with body site. Cancer Discov. 11, 340–361 (2020).
doi: 10.1158/2159-8290.CD-20-1092
pubmed: 33087317
pmcid: 7116717
Reed, R. In New Concepts in Surgical Pathology of the Skin 89–90 (Wiley, 1976).
Wang, K. C., Helms, J. A. & Chang, H. Y. Regeneration, repair and remembering identity: the three Rs of Hox gene expression. Trends Cell Biol. 19, 268–275 (2009).
doi: 10.1016/j.tcb.2009.03.007
pubmed: 19428253
pmcid: 4099061
Curtin, J. A. et al. Distinct sets of genetic alterations in melanoma. N. Engl. J. Med. 353, 2135–2147 (2005).
doi: 10.1056/NEJMoa050092
pubmed: 16291983
Hayward, N. K. et al. Whole-genome landscapes of major melanoma subtypes. Nature 545, 175–180 (2017).
doi: 10.1038/nature22071
pubmed: 28467829
Petrelli, F. et al. Prognostic survival associated with left-sided vs right-sided colon cancer: a systematic review and meta-analysis. JAMA Oncol. 3, 211–219 (2017).
doi: 10.1001/jamaoncol.2016.4227
pubmed: 27787550
Rabbie, R., Ferguson, P., Molina-Aguilar, C., Adams, D. J. & Robles-Espinoza, C. D. Melanoma subtypes: genomic profiles, prognostic molecular markers and therapeutic possibilities. J. Pathol. 247, 539–551 (2019).
doi: 10.1002/path.5213
pubmed: 30511391
pmcid: 6492003
Belote, R. L. et al. Human melanocyte development and melanoma dedifferentiation at single-cell resolution. Nat. Cell Biol. 23, 1035–1047 (2021).
doi: 10.1038/s41556-021-00740-8
pubmed: 34475532
Moon, H. et al. Melanocyte stem cell activation and translocation initiate cutaneous melanoma in response to UV exposure. Cell Stem Cell 21, 665–678.e666 (2017).
doi: 10.1016/j.stem.2017.09.001
pubmed: 29033353
pmcid: 9004284
Kohler, C. et al. Mouse cutaneous melanoma induced by mutant Braf arises from expansion and dedifferentiation of mature pigmented melanocytes. Cell Stem Cell 21, 679–693.e676 (2017).
doi: 10.1016/j.stem.2017.08.003
pubmed: 29033351
Newell, F. et al. Whole-genome sequencing of acral melanoma reveals genomic complexity and diversity. Nat. Commun. 11, 5259 (2020).
doi: 10.1038/s41467-020-18988-3
pubmed: 33067454
pmcid: 7567804
Yeh, I. et al. Targeted genomic profiling of acral melanoma. J. Natl Cancer Inst. 111, 1068–1077 (2019).
doi: 10.1093/jnci/djz005
pubmed: 30657954
pmcid: 6792090
Liang, W. S. et al. Integrated genomic analyses reveal frequent TERT aberrations in acral melanoma. Genome Res. 27, 524–532 (2017).
doi: 10.1101/gr.213348.116
pubmed: 28373299
pmcid: 5378171
Klemen, N. D. et al. Survival after checkpoint inhibitors for metastatic acral, mucosal and uveal melanoma. J. Immunother. Cancer 8, e000341 (2020).
doi: 10.1136/jitc-2019-000341
pubmed: 32209601
pmcid: 7103823
Shoushtari, A. N. et al. The efficacy of anti-PD-1 agents in acral and mucosal melanoma. Cancer 122, 3354–3362 (2016).
doi: 10.1002/cncr.30259
pubmed: 27533633
Cerami, E. et al. The cBio cancer genomics portal: an open platform for exploring multidimensional cancer genomics data. Cancer Discov. 2, 401–404 (2012).
doi: 10.1158/2159-8290.CD-12-0095
pubmed: 22588877
Zehir, A. et al. Mutational landscape of metastatic cancer revealed from prospective clinical sequencing of 10,000 patients. Nat. Med. 23, 703–713 (2017).
doi: 10.1038/nm.4333
pubmed: 28481359
pmcid: 5461196
Luo, L. Y. & Hahn, W. C. Oncogenic signaling adaptor proteins. J. Genet. Genomics 42, 521–529 (2015).
doi: 10.1016/j.jgg.2015.09.001
pubmed: 26554907
pmcid: 4643408
Bentires-Alj, M. et al. A role for the scaffolding adapter GAB2 in breast cancer. Nat. Med. 12, 114–121 (2006).
doi: 10.1038/nm1341
pubmed: 16369543
Cheung, H. W. et al. Amplification of CRKL induces transformation and epidermal growth factor receptor inhibitor resistance in human non-small cell lung cancers. Cancer Discov. 1, 608–625 (2011).
doi: 10.1158/2159-8290.CD-11-0046
pubmed: 22586683
pmcid: 3353720
Hemmeryckx, B. et al. Crkl enhances leukemogenesis in BCR/ABL P190 transgenic mice. Cancer Res. 61, 1398–1405 (2001).
pubmed: 11245441
Chernoff, K. A. et al. GAB2 amplifications refine molecular classification of melanoma. Clin. Cancer Res. 15, 4288–4291 (2009).
doi: 10.1158/1078-0432.CCR-09-0280
pubmed: 19509136
pmcid: 2878201
Horst, B. et al. Gab2-mediated signaling promotes melanoma metastasis. Am. J. Pathol. 174, 1524–1533 (2009).
doi: 10.2353/ajpath.2009.080543
pubmed: 19342374
pmcid: 2671382
Eshiba, S. et al. Stem cell spreading dynamics intrinsically differentiate acral melanomas from nevi. Cell Rep. 36, 109492 (2021).
doi: 10.1016/j.celrep.2021.109492
pubmed: 34348144
Nakamura, T., Gehrke, A. R., Lemberg, J., Szymaszek, J. & Shubin, N. H. Digits and fin rays share common developmental histories. Nature 537, 225–228 (2016).
doi: 10.1038/nature19322
pubmed: 27533041
pmcid: 5161576
Shubin, N. H., Daeschler, E. B. & Jenkins, F. A. Jr The pectoral fin of Tiktaalik roseae and the origin of the tetrapod limb. Nature 440, 764–771 (2006).
doi: 10.1038/nature04637
pubmed: 16598250
Xu, B., Feng, X. & Burdine, R. D. Categorical data analysis in experimental biology. Dev. Biol. 348, 3–11 (2010).
doi: 10.1016/j.ydbio.2010.08.018
pubmed: 20826130
pmcid: 3021327
Philippidou, P. & Dasen, J. S. Hox genes: choreographers in neural development, architects of circuit organization. Neuron 80, 12–34 (2013).
doi: 10.1016/j.neuron.2013.09.020
pubmed: 24094100
Petit, F., Sears, K. E. & Ahituv, N. Limb development: a paradigm of gene regulation. Nat. Rev. Genet. 18, 245–258 (2017).
doi: 10.1038/nrg.2016.167
pubmed: 28163321
Sheth, R. et al. Distal limb patterning requires modulation of cis-regulatory activities by HOX13. Cell Rep. 17, 2913–2926 (2016).
doi: 10.1016/j.celrep.2016.11.039
pubmed: 27974206
pmcid: 5697718
Li, S. et al. Cistrome-GO: a web server for functional enrichment analysis of transcription factor ChIP–seq peaks. Nucleic Acids Res. 47, W206–W211 (2019).
doi: 10.1093/nar/gkz332
pubmed: 31053864
pmcid: 6602521
Chablais, F. & Jazwinska, A. IGF signaling between blastema and wound epidermis is required for fin regeneration. Development 137, 871–879 (2010).
pubmed: 20179093
doi: 10.1242/dev.043885
Dhupkar, P., Zhao, H., Mujoo, K., An, Z. & Zhang, N. Crk II silencing down-regulates IGF-IR and inhibits migration and invasion of prostate cancer cells. Biochem. Biophys. Rep. 8, 382–388 (2016).
pubmed: 28955980
pmcid: 5614478
Zhang, J. et al. CRKL mediates p110β-dependent PI3K signaling in PTEN-deficient cancer cells. Cell Rep. 20, 549–557 (2017).
doi: 10.1016/j.celrep.2017.06.054
pubmed: 28723560
pmcid: 5704918
Tanna, C. E., Goss, L. B., Ludwig, C. G. & Chen, P. W. Arf GAPs as regulators of the actin cytoskeleton—an update. Int. J. Mol. Sci. 20, 442 (2019).
doi: 10.3390/ijms20020442
pmcid: 6358971
Fritsch, R. et al. RAS and RHO families of GTPases directly regulate distinct phosphoinositide 3-kinase isoforms. Cell 153, 1050–1063 (2013).
doi: 10.1016/j.cell.2013.04.031
pubmed: 23706742
pmcid: 3690480
Ye, L., Robertson, M. A., Mastracci, T. L. & Anderson, R. M. An insulin signaling feedback loop regulates pancreas progenitor cell differentiation during islet development and regeneration. Dev. Biol. 409, 354–369 (2016).
doi: 10.1016/j.ydbio.2015.12.003
pubmed: 26658317
Zhang, Y. M. et al. Distant insulin signaling regulates vertebrate pigmentation through the sheddase Bace2. Dev. Cell 45, 580–594.e587 (2018).
doi: 10.1016/j.devcel.2018.04.025
pubmed: 29804876
pmcid: 5991976
Baggiolini, A. et al. Developmental chromatin programs determine oncogenic competence in melanoma. Science 373, eabc1048 (2021).
doi: 10.1126/science.abc1048
pubmed: 34516843
Farshidfar, F. et al. Integrative molecular and clinical profiling of acral melanoma links focal amplification of 22q11.21 to metastasis. Nat Commun 13, 898 (2022). https://doi.org/10.1038/s41467-022-28566-4
Kim, K. et al. Clinicopathologic characteristics of early gastric cancer according to specific intragastric location. BMC Gastroenterol. 19, 24 (2019).
doi: 10.1186/s12876-019-0949-5
pubmed: 30736729
pmcid: 6368692
Razumilava, N. & Gores, G. J. Cholangiocarcinoma. Lancet 383, 2168–2179 (2014).
doi: 10.1016/S0140-6736(13)61903-0
pubmed: 24581682
pmcid: 4069226
Tang, Q. et al. Anatomic mapping of molecular subtypes in diffuse glioma. BMC Neurol. 17, 183 (2017).
doi: 10.1186/s12883-017-0961-8
pubmed: 28915860
pmcid: 5602933
White, R. M. et al. Transparent adult zebrafish as a tool for in vivo transplantation analysis. Cell Stem Cell 2, 183–189 (2008).
doi: 10.1016/j.stem.2007.11.002
pubmed: 18371439
pmcid: 2292119
White, R. M. et al. DHODH modulates transcriptional elongation in the neural crest and melanoma. Nature 471, 518–522 (2011).
doi: 10.1038/nature09882
pubmed: 21430780
pmcid: 3759979
Kaufman, C. K. et al. A zebrafish melanoma model reveals emergence of neural crest identity during melanoma initiation. Science 351, aad2197 (2016).
doi: 10.1126/science.aad2197
pubmed: 26823433
pmcid: 4868069
The Cancer Genome Atlas Research Network. Genomic classification of cutaneous melanoma. Cell 161, 1681–1696 (2015).
doi: 10.1016/j.cell.2015.05.044
Dankort, D. et al. Braf
doi: 10.1038/ng.356
pubmed: 19282848
pmcid: 2705918
Li, H. & Durbin, R. Fast and accurate short read alignment with Burrows–Wheeler transform. Bioinformatics 25, 1754–1760 (2009).
pubmed: 19451168
pmcid: 2705234
doi: 10.1093/bioinformatics/btp324
Li, H. & Durbin, R. Fast and accurate long-read alignment with Burrows–Wheeler transform. Bioinformatics 26, 589–595 (2010).
doi: 10.1093/bioinformatics/btp698
pubmed: 20080505
pmcid: 2828108
Cibulskis, K. et al. Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples. Nat. Biotechnol. 31, 213–219 (2013).
doi: 10.1038/nbt.2514
pubmed: 23396013
pmcid: 3833702
Shen, R. & Seshan, V. E. FACETS: allele-specific copy number and clonal heterogeneity analysis tool for high-throughput DNA sequencing. Nucleic Acids Res. 44, e131 (2016).
doi: 10.1093/nar/gkw520
pubmed: 27270079
pmcid: 5027494
Dobin, A. et al. STAR: ultrafast universal RNA-seq aligner. Bioinformatics 29, 15–21 (2013).
doi: 10.1093/bioinformatics/bts635
pubmed: 23104886
Li, B. & Dewey, C. N. RSEM- accurate transcript quantification from RNA-seq data with or without a reference genome. BMC. Bioinformatics 12, 1471–2105 (2011).
Love, M. I., Huber, W. & Anders, S. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol. 15, 550 (2014).
pubmed: 25516281
pmcid: 4302049
doi: 10.1186/s13059-014-0550-8
Korotkevich, G., Sukhov, V. & Sergushichev, A. Fast gene set enrichment analysis. Preprint at https://doi.org/10.1101/060012 (2019).
Heinz, S. et al. Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities. Mol. Cell 38, 576–589 (2010).
pubmed: 20513432
pmcid: 2898526
Khan, A. et al. JASPAR 2018: update of the open-access database of transcription factor binding profiles and its web framework. Nucleic Acids Res. 46, D260–D266 (2018).
doi: 10.1093/nar/gkx1126
pubmed: 29140473
Grossman, R. L. et al. Toward a shared vision for cancer genomic data. N. Engl. J. Med. 375, 1109–1112 (2016).
doi: 10.1056/NEJMp1607591
pubmed: 27653561
pmcid: 6309165
Hoadley, K. A. et al. Multiplatform analysis of 12 cancer types reveals molecular classification within and across tissues of origin. Cell 158, 929–944 (2014).
doi: 10.1016/j.cell.2014.06.049
pubmed: 25109877
pmcid: 4152462
The Cancer Genome Atlas Research Network. Comprehensive and integrated genomic characterization of adult soft tissue sarcomas. Cell 171, 950–965.e928 (2017).
doi: 10.1016/j.cell.2017.10.014
pmcid: 5693358
The Cancer Genome Atlas Research Network. Comprehensive and integrative genomic characterization of hepatocellular carcinoma. Cell 169, 1327–1341.e1323 (2017).
doi: 10.1016/j.cell.2017.05.046
pmcid: 5680778
Robertson, A. G. et al. Comprehensive molecular characterization of muscle-invasive bladder cancer. Cell 171, 540–556.e525 (2017).
doi: 10.1016/j.cell.2017.09.007
pubmed: 28988769
pmcid: 5687509
Fishbein, L. et al. Comprehensive molecular characterization of pheochromocytoma and paraganglioma. Cancer Cell 31, 181–193 (2017).
doi: 10.1016/j.ccell.2017.01.001
pubmed: 28162975
pmcid: 5643159
The Cancer Genome Atlas Research Network. Comprehensive molecular profiling of lung adenocarcinoma. Nature 511, 543–550 (2014).
doi: 10.1038/nature13385
pmcid: 4231481
The Cancer Genome Atlas Research Network. Comprehensive molecular characterization of gastric adenocarcinoma. Nature 513, 202–209 (2014).
doi: 10.1038/nature13480
The Cancer Genome Atlas Research Network. Comprehensive molecular characterization of urothelial bladder carcinoma. Nature 507, 315–322 (2014).
doi: 10.1038/nature12965
The Cancer Genome Atlas Research Network. Comprehensive molecular characterization of human colon and rectal cancer. Nature 487, 330–337 (2012).
doi: 10.1038/nature11252
The Cancer Genome Atlas Research Network. Comprehensive molecular portraits of human breast tumours. Nature 490, 61–70 (2012).
doi: 10.1038/nature11412
The Cancer Genome Atlas Research Network. Comprehensive genomic characterization of squamous cell lung cancers. Nature 489, 519–525 (2012).
doi: 10.1038/nature11404
pmcid: 3466113
Ciriello, G. et al. Comprehensive molecular portraits of invasive lobular breast cancer. Cell 163, 506–519 (2015).
doi: 10.1016/j.cell.2015.09.033
pubmed: 26451490
pmcid: 4603750
The Cancer Genome Atlas Research Network. The molecular taxonomy of primary prostate cancer. Cell 163, 1011–1025 (2015).
doi: 10.1016/j.cell.2015.10.025
pmcid: 4695400
The Cancer Genome Atlas Research Network. Comprehensive genomic characterization defines human glioblastoma genes and core pathways. Nature 455, 1061–1068 (2008).
doi: 10.1038/nature07385
The Cancer Genome Atlas Research Network. Comprehensive genomic characterization of head and neck squamous cell carcinomas. Nature 517, 576–582 (2015).
doi: 10.1038/nature14129
The Cancer Genome Atlas Research Network. Integrated genomic characterization of endometrial carcinoma. Nature 497, 67–73 (2013).
doi: 10.1038/nature12113
The Cancer Genome Atlas Research Network. Comprehensive molecular characterization of clear cell renal cell carcinoma. Nature 499, 43–49 (2013).
doi: 10.1038/nature12222
pmcid: 3771322
Davis, C. F. et al. The somatic genomic landscape of chromophobe renal cell carcinoma. Cancer Cell 26, 319–330 (2014).
doi: 10.1016/j.ccr.2014.07.014
pubmed: 25155756
pmcid: 4160352
The Cancer Genome Atlas Research Network. Genomic and epigenomic landscapes of adult de novo acute myeloid leukemia. N. Engl. J. Med. 368, 2059–2074 (2013).
doi: 10.1056/NEJMoa1301689
pmcid: 3767041
The Cancer Genome Atlas Research Network. Integrated genomic analyses of ovarian carcinoma. Nature 474, 609–615 (2011).
doi: 10.1038/nature10166
pmcid: 3163504
Brennan, C. W. et al. The somatic genomic landscape of glioblastoma. Cell 155, 462–477 (2013).
doi: 10.1016/j.cell.2013.09.034
pubmed: 24120142
pmcid: 3910500
The Cancer Genome Atlas Research Network. Integrated genomic characterization of papillary thyroid carcinoma. Cell 159, 676–690 (2014).
doi: 10.1016/j.cell.2014.09.050
Bolger, A. M., Lohse, M. & Usadel, B. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics 30, 2114–2120 (2014).
doi: 10.1093/bioinformatics/btu170
pubmed: 24695404
pmcid: 4103590
Langmead, B. & Salzberg, S. L. Fast gapped-read alignment with Bowtie 2. Nat. Methods 9, 357–359 (2012).
pubmed: 22388286
pmcid: 3322381
doi: 10.1038/nmeth.1923
Li, H. et al. The Sequence Alignment/Map format and SAMtools. Bioinformatics 25, 2078–2079 (2009).
doi: 10.1093/bioinformatics/btp352
pubmed: 19505943
pmcid: 2723002
Ramirez, F. et al. deepTools2: a next generation web server for deep-sequencing data analysis. Nucleic Acids Res. 44, W160–W165 (2016).
doi: 10.1093/nar/gkw257
pubmed: 27079975
pmcid: 4987876
Zhang, Y. et al. Model-based analysis of ChIP–seq (MACS). Genome Biol. 9, R137 (2008).
doi: 10.1186/gb-2008-9-9-r137
pubmed: 18798982
pmcid: 2592715
Skene, P. J., Henikoff, J. G. & Henikoff, S. Targeted in situ genome-wide profiling with high efficiency for low cell numbers. Nat. Protoc. 13, 1006–1019 (2018).
doi: 10.1038/nprot.2018.015
pubmed: 29651053
Kall, L., Canterbury, J. D., Weston, J., Noble, W. S. & MacCoss, M. J. Semi-supervised learning for peptide identification from shotgun proteomics datasets. Nat. Methods 4, 923–925 (2007).
doi: 10.1038/nmeth1113
pubmed: 17952086
The, M., MacCoss, M. J., Noble, W. S. & Kall, L. Fast and accurate protein false discovery rates on large-scale proteomics data sets with Percolator 3.0. J. Am. Soc. Mass. Spectrom. 27, 1719–1727 (2016).
doi: 10.1007/s13361-016-1460-7
pubmed: 27572102
pmcid: 5059416
Sparks, A. B. et al. Distinct ligand preferences of Src homology 3 domains from Src, Yes, Abl, Cortactin, p53bp2, PLCy, Crk, and Grb2. Proc. Natl Acad. Sci. USA 93, 1540–1544 (1996).
doi: 10.1073/pnas.93.4.1540
pubmed: 8643668
pmcid: 39976
Birge, R. B., Kalodimos, C., Inagaki, F. & Tanaka, S. Crk and CrkL adaptor proteins: networks for physiological and pathological signaling. Cell Commun. Signal. 7, 13 (2009).
doi: 10.1186/1478-811X-7-13
pubmed: 19426560
pmcid: 2689226
Tothova, Z. et al. Multiplex CRISPR/Cas9-based genome editing in human hematopoietic stem cells models clonal hematopoiesis and myeloid neoplasia. Cell Stem Cell 21, 547–555.e548 (2017).
doi: 10.1016/j.stem.2017.07.015
pubmed: 28985529
pmcid: 5679060
Lindsay, H. et al. CrispRVariants charts the mutation spectrum of genome engineering experiments. Nat. Biotechnol. 34, 701–702 (2016).
doi: 10.1038/nbt.3628
pubmed: 27404876
DeLuca, D. S. et al. RNA-SeQC: RNA-seq metrics for quality control and process optimization. Bioinformatics 28, 1530–1532 (2012).
doi: 10.1093/bioinformatics/bts196
pubmed: 22539670
pmcid: 3356847
Hu, Y. et al. An integrative approach to ortholog prediction for disease-focused and other functional studies. BMC Bioinf. 12, 1471–2105 (2011).
Hao, Y. et al. Integrated analysis of multimodal single-cell data. Cell 184, 3573–3587.e3529 (2021).
doi: 10.1016/j.cell.2021.04.048
pubmed: 34062119
pmcid: 8238499
Hafemeister, C. & Satija, R. Normalization and variance stabilization of single-cell RNA-seq data using regularized negative binomial regression. Genome Biol. 20, 296 (2019).
doi: 10.1186/s13059-019-1874-1
pubmed: 31870423
pmcid: 6927181
Jolliffe, I. T. Principal Component Analysis and Factor Analysis (Springer, 1986).
McInnes, L., Healy, J. & Melville, J. UMAP: uniform manifold approximation and projection for dimension reduction. Preprint at https://doi.org/10.48550/arXiv.1802.03426 (2018).
Baron, M. et al. The stress-like cancer cell state is a consistent component of tumorigenesis. Cell Syst. 11, 536–546.e537 (2020).
doi: 10.1016/j.cels.2020.08.018
pubmed: 32910905
pmcid: 8027961
Hunter, M. V., Moncada, R., Weiss, J. M., Yanai, I. & White, R. M. Spatially resolved transcriptomics reveals the architecture of the tumor-microenvironment interface. Nat. Commun. 12, 6278 (2021).
doi: 10.1038/s41467-021-26614-z
pubmed: 34725363
pmcid: 8560802
Freese, N. H., Norris, D. C. & Loraine, A. E. Integrated genome browser: visual analytics platform for genomics. Bioinformatics 32, 2089–2095 (2016).
doi: 10.1093/bioinformatics/btw069
pubmed: 27153568
pmcid: 4937187