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Article ; Online: A high-throughput pipeline for DNA/RNA/small RNA purification from tissue samples for sequencing.

Xu, Jing / Pandoh, Pawan K / Corbett, Richard D / Smailus, Duane / Bowlby, Reanne / Brooks, Denise / McDonald, Helen / Haile, Simon / Chahal, Sundeep / Bilobram, Steve / Mungall, Karen L / Mungall, Andrew J / Coope, Robin / Moore, Richard A / Zhao, Yongjun / Jones, Steven Jm / Marra, Marco A

BioTechniques

2023 Volume 75, Issue 2, Page(s) 47–55

Abstract: High-throughput total nucleic acid (TNA) purification methods based on solid-phase reversible immobilization (SPRI) beads produce TNA suitable for both genomic and transcriptomic applications. Even so, small RNA species, including miRNA, bind weakly to ... ...

Abstract	High-throughput total nucleic acid (TNA) purification methods based on solid-phase reversible immobilization (SPRI) beads produce TNA suitable for both genomic and transcriptomic applications. Even so, small RNA species, including miRNA, bind weakly to SPRI beads under standard TNA purification conditions, necessitating a separate workflow using column-based methods that are difficult to automate. Here, an SPRI-based high-throughput TNA purification protocol that recovers DNA, RNA and small RNA, called GSC-modified RLT+ Aline bead-based protocol (GRAB-ALL), which incorporates modifications to enhance small RNA recovery is presented. GRAB-ALL was benchmarked against existing nucleic acid purification workflows and GRAB-ALL efficiently purifies TNA, including small RNA, for next-generation sequencing applications in a plate-based format suitable for automated high-throughput sample preparation.
MeSH term(s)	RNA/genetics ; DNA/genetics ; High-Throughput Nucleotide Sequencing/methods
Chemical Substances	RNA (63231-63-0) ; DNA (9007-49-2)
Language	English
Publishing date	2023-08-08
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	48453-2
ISSN	1940-9818 ; 0736-6205
ISSN (online)	1940-9818
ISSN	0736-6205
DOI	10.2144/btn-2023-0011
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Article ; Online: Tumor microRNA profile and prognostic value for lymph node metastasis in oral squamous cell carcinoma patients.

Liu, Kelly Yi Ping / Zhu, Sarah Yuqi / Brooks, Denise / Bowlby, Reanne / Durham, J Scott / Ma, Yussanne / Moore, Richard A / Mungall, Andrew J / Jones, Steven / Poh, Catherine F

Oncotarget

2020 Volume 11, Issue 23, Page(s) 2204–2215

Abstract: Neck lymph node metastasis (LN+) is one of the most significant prognostic factors affecting 1-in-2 patients diagnosed with oral squamous cell carcinoma (OSCC). The different LN outcomes between clinico-pathologically similar primary tumors suggest ... ...

Abstract	Neck lymph node metastasis (LN+) is one of the most significant prognostic factors affecting 1-in-2 patients diagnosed with oral squamous cell carcinoma (OSCC). The different LN outcomes between clinico-pathologically similar primary tumors suggest underlying molecular signatures that could be associated with the risk of nodal disease development. MicroRNAs (miRNAs)are short non-coding molecules that regulate the expression of their target genes to maintain the balance of cellular processes. A plethora of evidence has indicated that aberrantly expressed miRNAs are involved in cancers with either an antitumor or oncogenic role. In this study, we characterized miRNA expression among OSCC fresh-frozen tumors with known outcomes of nodal disease (82 LN+, 76 LN0). We identified 49 differentially expressed miRNAs in tumors of the LN+ group. Using penalized lasso Cox regression, we identified a group of 10 miRNAs of which expression levels were highly associated with nodal-disease free survival. We further reported a 4-miRNA panel (miR-21-5p, miR-107, miR-1247-3p, and miR-181b-3p) with high accuracy in discriminating LN status, suggesting their potential application as prognostic biomarkers for nodal disease.
Language	English
Publishing date	2020-06-09
Publishing country	United States
Document type	Journal Article
ZDB-ID	2560162-3
ISSN	1949-2553 ; 1949-2553
ISSN (online)	1949-2553
ISSN	1949-2553
DOI	10.18632/oncotarget.27616
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Article ; Online: The Cancer Genome Atlas Comprehensive Molecular Characterization of Renal Cell Carcinoma.

Ricketts, Christopher J / De Cubas, Aguirre A / Fan, Huihui / Smith, Christof C / Lang, Martin / Reznik, Ed / Bowlby, Reanne / Gibb, Ewan A / Akbani, Rehan / Beroukhim, Rameen / Bottaro, Donald P / Choueiri, Toni K / Gibbs, Richard A / Godwin, Andrew K / Haake, Scott / Hakimi, A Ari / Henske, Elizabeth P / Hsieh, James J / Ho, Thai H /

Kanchi, Rupa S / Krishnan, Bhavani / Kwiatkowski, David J / Liu, Wenbin / Merino, Maria J / Mills, Gordon B / Myers, Jerome / Nickerson, Michael L / Reuter, Victor E / Schmidt, Laura S / Shelley, C Simon / Shen, Hui / Shuch, Brian / Signoretti, Sabina / Srinivasan, Ramaprasad / Tamboli, Pheroze / Thomas, George / Vincent, Benjamin G / Vocke, Cathy D / Wheeler, David A / Yang, Lixing / Kim, William Y / Robertson, A Gordon / Spellman, Paul T / Rathmell, W Kimryn / Linehan, W Marston

Cell reports

2024 Volume 43, Issue 4, Page(s) 113063

Language	English
Publishing date	2024-04-04
Publishing country	United States
Document type	Published Erratum
ZDB-ID	2649101-1
ISSN	2211-1247 ; 2211-1247
ISSN (online)	2211-1247
ISSN	2211-1247
DOI	10.1016/j.celrep.2023.113063
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Article ; Online: Indoleamine 2,3-Dioxygenase 1, Increased in Human Gastric Pre-Neoplasia, Promotes Inflammation and Metaplasia in Mice and Is Associated With Type II Hypersensitivity/Autoimmunity.

El-Zaatari, Mohamad / Bass, Adam J / Bowlby, Reanne / Zhang, Min / Syu, Li-Jyun / Yang, Yitian / Grasberger, Helmut / Shreiner, Andrew / Tan, Bei / Bishu, Shrinivas / Leung, Wai K / Todisco, Andrea / Kamada, Nobuhiko / Cascalho, Marilia / Dlugosz, Andrzej A / Kao, John Y

Gastroenterology

2017 Volume 154, Issue 1, Page(s) 140–153.e17

Abstract: Background & aims: Chronic gastrointestinal inflammation increases the risk of cancer by mechanisms that are not well understood. Indoleamine-2,3-dioxygenase 1 (IDO1) is a heme-binding enzyme that regulates the immune response via catabolization and ... ...

Abstract	Background & aims: Chronic gastrointestinal inflammation increases the risk of cancer by mechanisms that are not well understood. Indoleamine-2,3-dioxygenase 1 (IDO1) is a heme-binding enzyme that regulates the immune response via catabolization and regulation of tryptophan availability for immune cell uptake. IDO1 expression is increased during the transition from chronic inflammation to gastric metaplasia. We investigated whether IDO1 contributes to the inflammatory response that mediates loss of parietal cells leading to metaplasia. Methods: Chronic gastric inflammation was induced in Ido1 Results: H felis gavage induced significantly lower levels of pseudopyloric metaplasia in Ido1 Conclusions: IDO1 mediates gastric metaplasia by regulating the B-cell compartment. This process appears to be associated with type II hypersensitivity/autoimmunity. The role of autoimmunity in the progression of pseudopyloric metaplasia warrants further investigation.
MeSH term(s)	Animals ; B-Lymphocytes/physiology ; Gastritis/enzymology ; Gastritis/etiology ; Gastritis/pathology ; Humans ; Hypersensitivity/enzymology ; Hypersensitivity/etiology ; Hypersensitivity/pathology ; Indoleamine-Pyrrole 2,3,-Dioxygenase/metabolism ; Metaplasia ; Mice ; Mice, Inbred C57BL ; Precancerous Conditions/enzymology ; Precancerous Conditions/pathology ; Stomach Neoplasms/enzymology ; Stomach Neoplasms/etiology ; Stomach Neoplasms/pathology
Chemical Substances	Indoleamine-Pyrrole 2,3,-Dioxygenase
Language	English
Publishing date	2017-09-11
Publishing country	United States
Document type	Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
ZDB-ID	80112-4
ISSN	1528-0012 ; 0016-5085
ISSN (online)	1528-0012
ISSN	0016-5085
DOI	10.1053/j.gastro.2017.09.002
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Zs.MO 572: Show issues

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Article ; Online: Validation and calibration of next-generation sequencing to identify Epstein-Barr virus-positive gastric cancer in The Cancer Genome Atlas.

Camargo, M Constanza / Bowlby, Reanne / Chu, Andy / Pedamallu, Chandra Sekhar / Thorsson, Vesteinn / Elmore, Sandra / Mungall, Andrew J / Bass, Adam J / Gulley, Margaret L / Rabkin, Charles S

Gastric cancer : official journal of the International Gastric Cancer Association and the Japanese Gastric Cancer Association

2015 Volume 19, Issue 2, Page(s) 676–681

Abstract: The Epstein-Barr virus (EBV)-positive subtype of gastric adenocarcinoma is conventionally identified by in situ hybridization (ISH) for viral nucleic acids, but next-generation sequencing represents a potential alternative. We therefore determined ... ...

Abstract	The Epstein-Barr virus (EBV)-positive subtype of gastric adenocarcinoma is conventionally identified by in situ hybridization (ISH) for viral nucleic acids, but next-generation sequencing represents a potential alternative. We therefore determined normalized EBV read counts by whole-genome, whole-exome, mRNA and miRNA sequencing for 295 fresh-frozen gastric tumor samples. Formalin-fixed, paraffin-embedded tissue sections were retrieved for ISH confirmation of 13 high-EBV and 11 low-EBV cases. In pairwise comparisons, individual samples were either concordantly high or concordantly low by all genomic methods for which data were available. Empiric cutoffs of sequencing counts identified 26 (9 %) tumors as EBV positive. EBV positivity or negativity by molecular testing was confirmed by EBER-ISH in all but one tumor evaluated by both approaches (kappa = 0.91). EBV-positive gastric tumors can be accurately identified by quantifying viral sequences in genomic data. Simultaneous analyses of human and viral DNA, mRNA and miRNA could streamline tumor profiling for clinical care and research.
MeSH term(s)	Calibration ; Epstein-Barr Virus Infections/complications ; Epstein-Barr Virus Infections/genetics ; Genome, Human ; Herpesvirus 4, Human/pathogenicity ; High-Throughput Nucleotide Sequencing/methods ; Humans ; MicroRNAs ; Paraffin Embedding ; Stomach Neoplasms/genetics ; Stomach Neoplasms/virology
Chemical Substances	MicroRNAs
Language	English
Publishing date	2015-06-23
Publishing country	Japan
Document type	Journal Article ; Research Support, N.I.H., Extramural ; Research Support, N.I.H., Intramural ; Validation Studies
ZDB-ID	1463526-4
ISSN	1436-3305 ; 1436-3291
ISSN (online)	1436-3305
ISSN	1436-3291
DOI	10.1007/s10120-015-0508-x
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Zs.A 5290: Show issues

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Article ; Online: Analysis of Ugandan cervical carcinomas identifies human papillomavirus clade-specific epigenome and transcriptome landscapes.

Gagliardi, Alessia / Porter, Vanessa L / Zong, Zusheng / Bowlby, Reanne / Titmuss, Emma / Namirembe, Constance / Griner, Nicholas B / Petrello, Hilary / Bowen, Jay / Chan, Simon K / Culibrk, Luka / Darragh, Teresa M / Stoler, Mark H / Wright, Thomas C / Gesuwan, Patee / Dyer, Maureen A / Ma, Yussanne / Mungall, Karen L / Jones, Steven J M /

Nakisige, Carolyn / Novik, Karen / Orem, Jackson / Origa, Martin / Gastier-Foster, Julie M / Yarchoan, Robert / Casper, Corey / Mills, Gordon B / Rader, Janet S / Ojesina, Akinyemi I / Gerhard, Daniela S / Mungall, Andrew J / Marra, Marco A

Nature genetics

2020 Volume 52, Issue 8, Page(s) 800–810

Abstract: Cervical cancer is the most common cancer affecting sub-Saharan African women and is prevalent among HIV-positive ( ... ...

Abstract	Cervical cancer is the most common cancer affecting sub-Saharan African women and is prevalent among HIV-positive (HIV
MeSH term(s)	Adult ; Aged ; DNA Methylation/genetics ; Epigenome/genetics ; Female ; Humans ; Middle Aged ; Papillomaviridae/pathogenicity ; Papillomavirus Infections/genetics ; Papillomavirus Infections/virology ; Promoter Regions, Genetic/genetics ; Signal Transduction/genetics ; Transcriptome/genetics ; Uganda ; Up-Regulation/genetics ; Uterine Cervical Neoplasms/genetics ; Uterine Cervical Neoplasms/virology
Language	English
Publishing date	2020-08-03
Publishing country	United States
Document type	Journal Article ; Research Support, N.I.H., Extramural ; Research Support, N.I.H., Intramural ; Research Support, Non-U.S. Gov't
ZDB-ID	1108734-1
ISSN	1546-1718 ; 1061-4036
ISSN (online)	1546-1718
ISSN	1061-4036
DOI	10.1038/s41588-020-0673-7
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Zs.A 3613: Show issues			Location: Je nach Verfügbarkeit (siehe Angabe bei Bestand) bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular Jg. 1995 - 2021: Lesesall (2.OG) ab Jg. 2022: Lesesaal (EG)
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Article ; Online: Uncovering Clinically Relevant Gene Fusions with Integrated Genomic and Transcriptomic Profiling of Metastatic Cancers.

Tsang, Erica S / Grisdale, Cameron J / Pleasance, Erin / Topham, James T / Mungall, Karen / Reisle, Caralyn / Choo, Caleb / Carreira, Marcus / Bowlby, Reanne / Karasinska, Joanna M / MacMillan, Daniel / Williamson, Laura M / Chuah, Eric / Moore, Richard A / Mungall, Andrew J / Zhao, Yongjun / Tessier-Cloutier, Basile / Ng, Tony / Sun, Sophie /

Lim, Howard J / Schaeffer, David F / Renouf, Daniel J / Yip, Stephen / Laskin, Janessa / Marra, Marco A / Jones, Steven J M / Loree, Jonathan M

Clinical cancer research : an official journal of the American Association for Cancer Research

2020 Volume 27, Issue 2, Page(s) 522–531

Abstract: Purpose: Gene fusions are important oncogenic drivers and many are actionable. Whole-genome and transcriptome (WGS and RNA-seq, respectively) sequencing can discover novel clinically relevant fusions.: Experimental design: Using WGS and RNA-seq, we ... ...

Abstract	Purpose: Gene fusions are important oncogenic drivers and many are actionable. Whole-genome and transcriptome (WGS and RNA-seq, respectively) sequencing can discover novel clinically relevant fusions. Experimental design: Using WGS and RNA-seq, we reviewed the prevalence of fusions in a cohort of 570 patients with cancer, and compared prevalence to that predicted with commercially available panels. Fusions were annotated using a consensus variant calling pipeline (MAVIS) and required that a contig of the breakpoint could be constructed and supported from ≥2 structural variant detection approaches. Results: In 570 patients with advanced cancer, MAVIS identified 81 recurrent fusions by WGS and 111 by RNA-seq, of which 18 fusions by WGS and 19 by RNA-seq were noted in at least 3 separate patients. The most common fusions were Conclusions: Utilizing WGS/RNA-seq facilitates identification of novel fusions in clinically relevant genes, and detected a greater proportion than commercially available panels are expected to find. A significant benefit of WGS and RNA-seq is the innate ability to retrospectively identify variants that becomes clinically relevant over time, without the need for additional testing, which is not possible with panel-based approaches.
MeSH term(s)	Gene Expression Profiling/methods ; Gene Fusion ; Genomics/methods ; Humans ; Neoplasm Metastasis ; Neoplasms/drug therapy ; Neoplasms/genetics ; Neoplasms/pathology ; Oncogene Proteins, Fusion/genetics ; RNA-Seq/methods ; Retrospective Studies ; Treatment Outcome ; Whole Exome Sequencing/methods
Chemical Substances	Oncogene Proteins, Fusion
Language	English
Publishing date	2020-11-04
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	1225457-5
ISSN	1557-3265 ; 1078-0432
ISSN (online)	1557-3265
ISSN	1078-0432
DOI	10.1158/1078-0432.CCR-20-1900
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Zs.A 4223: Show issues

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Article ; Online: Cell-of-Origin Patterns Dominate the Molecular Classification of 10,000 Tumors from 33 Types of Cancer.

Hoadley, Katherine A / Yau, Christina / Hinoue, Toshinori / Wolf, Denise M / Lazar, Alexander J / Drill, Esther / Shen, Ronglai / Taylor, Alison M / Cherniack, Andrew D / Thorsson, Vésteinn / Akbani, Rehan / Bowlby, Reanne / Wong, Christopher K / Wiznerowicz, Maciej / Sanchez-Vega, Francisco / Robertson, A Gordon / Schneider, Barbara G / Lawrence, Michael S / Noushmehr, Houtan /

Malta, Tathiane M / Stuart, Joshua M / Benz, Christopher C / Laird, Peter W

Cell

2018 Volume 173, Issue 2, Page(s) 291–304.e6

Abstract: We conducted comprehensive integrative molecular analyses of the complete set of tumors in The Cancer Genome Atlas (TCGA), consisting of approximately 10,000 specimens and representing 33 types of cancer. We performed molecular clustering using data on ... ...

Abstract	We conducted comprehensive integrative molecular analyses of the complete set of tumors in The Cancer Genome Atlas (TCGA), consisting of approximately 10,000 specimens and representing 33 types of cancer. We performed molecular clustering using data on chromosome-arm-level aneuploidy, DNA hypermethylation, mRNA, and miRNA expression levels and reverse-phase protein arrays, of which all, except for aneuploidy, revealed clustering primarily organized by histology, tissue type, or anatomic origin. The influence of cell type was evident in DNA-methylation-based clustering, even after excluding sites with known preexisting tissue-type-specific methylation. Integrative clustering further emphasized the dominant role of cell-of-origin patterns. Molecular similarities among histologically or anatomically related cancer types provide a basis for focused pan-cancer analyses, such as pan-gastrointestinal, pan-gynecological, pan-kidney, and pan-squamous cancers, and those related by stemness features, which in turn may inform strategies for future therapeutic development.
MeSH term(s)	Aneuploidy ; Chromosomes/genetics ; Cluster Analysis ; CpG Islands ; DNA Methylation ; Databases, Factual ; Humans ; MicroRNAs/metabolism ; Mutation ; Neoplasm Proteins/genetics ; Neoplasm Proteins/metabolism ; Neoplasms/genetics ; Neoplasms/pathology ; RNA, Messenger/metabolism
Chemical Substances	MicroRNAs ; Neoplasm Proteins ; RNA, Messenger
Language	English
Publishing date	2018-04-03
Publishing country	United States
Document type	Journal Article ; Research Support, N.I.H., Extramural
ZDB-ID	187009-9
ISSN	1097-4172 ; 0092-8674
ISSN (online)	1097-4172
ISSN	0092-8674
DOI	10.1016/j.cell.2018.03.022
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Zs.A 1167: Show issues			Location: Je nach Verfügbarkeit (siehe Angabe bei Bestand) bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular Jg. 1995 - 2021: Lesesall (1.OG) ab Jg. 2022: Lesesaal (EG)
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Article ; Online: Identification and Analyses of Extra-Cranial and Cranial Rhabdoid Tumor Molecular Subgroups Reveal Tumors with Cytotoxic T Cell Infiltration.

Chun, Hye-Jung E / Johann, Pascal D / Milne, Katy / Zapatka, Marc / Buellesbach, Annette / Ishaque, Naveed / Iskar, Murat / Erkek, Serap / Wei, Lisa / Tessier-Cloutier, Basile / Lever, Jake / Titmuss, Emma / Topham, James T / Bowlby, Reanne / Chuah, Eric / Mungall, Karen L / Ma, Yussanne / Mungall, Andrew J / Moore, Richard A /

Taylor, Michael D / Gerhard, Daniela S / Jones, Steven J M / Korshunov, Andrey / Gessler, Manfred / Kerl, Kornelius / Hasselblatt, Martin / Frühwald, Michael C / Perlman, Elizabeth J / Nelson, Brad H / Pfister, Stefan M / Marra, Marco A / Kool, Marcel

Cell reports

2019 Volume 29, Issue 8, Page(s) 2338–2354.e7

Abstract: Extra-cranial malignant rhabdoid tumors (MRTs) and cranial atypical teratoid RTs (ATRTs) are heterogeneous pediatric cancers driven primarily by SMARCB1 loss. To understand the genome-wide molecular relationships between MRTs and ATRTs, we analyze multi- ... ...

Abstract	Extra-cranial malignant rhabdoid tumors (MRTs) and cranial atypical teratoid RTs (ATRTs) are heterogeneous pediatric cancers driven primarily by SMARCB1 loss. To understand the genome-wide molecular relationships between MRTs and ATRTs, we analyze multi-omics data from 140 MRTs and 161 ATRTs. We detect similarities between the MYC subgroup of ATRTs (ATRT-MYC) and extra-cranial MRTs, including global DNA hypomethylation and overexpression of HOX genes and genes involved in mesenchymal development, distinguishing them from other ATRT subgroups that express neural-like features. We identify five DNA methylation subgroups associated with anatomical sites and SMARCB1 mutation patterns. Groups 1, 3, and 4 exhibit cytotoxic T cell infiltration and expression of immune checkpoint regulators, consistent with a potential role for immunotherapy in rhabdoid tumor patients.
MeSH term(s)	Child ; DNA Methylation/genetics ; DNA Methylation/physiology ; Female ; Humans ; Lymphocytes, Tumor-Infiltrating/metabolism ; Lymphocytes, Tumor-Infiltrating/pathology ; Male ; Mutation/genetics ; Rhabdoid Tumor/metabolism ; Rhabdoid Tumor/pathology ; SMARCB1 Protein/genetics ; SMARCB1 Protein/metabolism ; Skull Base Neoplasms/metabolism ; Skull Base Neoplasms/pathology ; T-Lymphocytes/metabolism ; T-Lymphocytes/pathology ; T-Lymphocytes, Cytotoxic/metabolism ; T-Lymphocytes, Cytotoxic/pathology ; Teratoma/metabolism ; Teratoma/pathology
Chemical Substances	SMARCB1 Protein ; SMARCB1 protein, human
Language	English
Publishing date	2019-11-07
Publishing country	United States
Document type	Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
ZDB-ID	2649101-1
ISSN	2211-1247 ; 2211-1247
ISSN (online)	2211-1247
ISSN	2211-1247
DOI	10.1016/j.celrep.2019.10.013
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Article ; Online: Integrated Molecular Characterization of Uterine Carcinosarcoma.

Cherniack, Andrew D / Shen, Hui / Walter, Vonn / Stewart, Chip / Murray, Bradley A / Bowlby, Reanne / Hu, Xin / Ling, Shiyun / Soslow, Robert A / Broaddus, Russell R / Zuna, Rosemary E / Robertson, Gordon / Laird, Peter W / Kucherlapati, Raju / Mills, Gordon B / Weinstein, John N / Zhang, Jiashan / Akbani, Rehan / Levine, Douglas A

Cancer cell

2017 Volume 31, Issue 3, Page(s) 411–423

Abstract: We performed genomic, epigenomic, transcriptomic, and proteomic characterizations of uterine carcinosarcomas (UCSs). Cohort samples had extensive copy-number alterations and highly recurrent somatic mutations. Frequent mutations were found in TP53, PTEN, ...

Abstract	We performed genomic, epigenomic, transcriptomic, and proteomic characterizations of uterine carcinosarcomas (UCSs). Cohort samples had extensive copy-number alterations and highly recurrent somatic mutations. Frequent mutations were found in TP53, PTEN, PIK3CA, PPP2R1A, FBXW7, and KRAS, similar to endometrioid and serous uterine carcinomas. Transcriptome sequencing identified a strong epithelial-to-mesenchymal transition (EMT) gene signature in a subset of cases that was attributable to epigenetic alterations at microRNA promoters. The range of EMT scores in UCS was the largest among all tumor types studied via The Cancer Genome Atlas. UCSs shared proteomic features with gynecologic carcinomas and sarcomas with intermediate EMT features. Multiple somatic mutations and copy-number alterations in genes that are therapeutic targets were identified.
MeSH term(s)	Carcinosarcoma/genetics ; Carcinosarcoma/pathology ; DNA Copy Number Variations ; Epithelial-Mesenchymal Transition ; Female ; Humans ; Mutation ; Uterine Neoplasms/genetics ; Uterine Neoplasms/pathology
Language	English
Publishing date	2017-03-13
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, N.I.H., Extramural
ZDB-ID	2078448-X
ISSN	1878-3686 ; 1535-6108
ISSN (online)	1878-3686
ISSN	1535-6108
DOI	10.1016/j.ccell.2017.02.010
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