Metadata supporting data files in the published article: Mutant P53 Induces MELK Expression by Release of Wild-type P53-dependent Suppression of FOXM1
Creators: name: Bollu, Lakshmi Reddy
name: Shepherd, Jonathan
name: Dekuang Zhao
name: Yanxia Ma
name: Tahaney, William
name: Speers, Corey
name: Abhijit Mazumdar
name: Mills, Gordon B.
name: Powel H. Brown
Publisher: name: figshare
Year: 2020
Subjects: subject: Biological Techniques
subject: Cancer
subject: Medicine
subject: 111201 Cancer Cell Biology
subject: FOS: Clinical medicine
subject: FOS: Clinical medicine
subject: 111203 Cancer Genetics

description: In this study, the authors sought to understand the molecular mechanism underlying upregulation of Maternal Embryonic Leucine Zipper Kinase (MELK) expression in Triple Negative Breast Cancer (TNBC).<br><b>Data access: </b><b><br></b>Publicly available datasets used and analysed during the study:All mRNA expression data were accessed through the Oncomine database (<b>http://www.oncomine.org/</b>) and cBioportal (METABRIC data: <b>https://identifiers.org/cbioportal:brca_metabric</b>, TCGA data: <b>https://identifiers.org/cbioportal:brca_tcga</b>). Survival data were accessed through the Oncomine database. The names of the publicly available datasets (used in this study) as they appear in Oncomine are: <b>TCGA Breast, Curtis Breast, Ivshina Breast, Ma4 Breast, Desmedt Breast, Hatzis Breast, Schmidt Breast, Ding Lung, Grasso Prostate, Lindgren Bladder </b>and <b>Neal Brain</b>.<br>The raw genomic data of the above datasets are also accessible from public repositories: TCGA data are available from the database of Genotypes and Phenotypes (dbGaP) at: <b>https://identifiers.org/dbgap:phs000178.v10.p8</b>. METABRIC data are available from the European Genome-phenome Archive (EGA) at: <b>https://identifiers.org/ega.study:EGAS00000000083</b>. Ivshina Breast, Ma4 Breast, Desmedt Breast, Hatzis Breast, Schmidt Breast, Ding Lung, Grasso Prostate and Lindgren Bladder are all available from the Gene Expression Omnibus (GEO) repository at <b>https://identifiers.org/geo:GSE4922</b>, <b>https://identifiers.org/geo:GSE14548</b>, <b>https://identifiers.org/geo:GSE7390</b>, <b>https://identifiers.org/geo:GSE25066, https://identifiers.org/geo:GSE11121, https://identifiers.org/geo:GSE12667, https://identifiers.org/geo:GSE35988</b>, and <b>https://identifiers.org/geo:GSE19915</b> respectively. Neal Brain data are available from dbGaP at: <b>https://identifiers.org/dbgap:phs000469.v7.p1</b>.Datasets generated during the study:<br>The datasets generated during the study will be made available on request from the corresponding author Powel H. Brown, MD, PhD, Department of Clinical Cancer Prevention, The University of Texas M. D. Anderson Cancer Center, Houston, TX 77030, Email: <b>phbrown@mdanderson.org</b>.<br>Uncropped blots are available as part of supplementary information (Supplementary Figure 6).<br><b>Study aims and methodology:</b><br>MELK is a serine/threonine kinase belonging to AMPK family of kinases known to regulate cellular metabolism. Several reports have identified that MELK expression is highly elevated in many human cancers and high-MELK expression is associated with poor prognosis. In this study, the authors sought to determine the molecular mechanism by which MELK is upregulated in triple negative breast cancers.The following cell lines were used in this study: MCF12A, hMEC-hTert, MCF-7, ZR-75, DU4475, MDAMB175VII, Cal51, MDAMB231, MDAMB468, MDAMB436, HCC1143, HCC70, HCC38, HCC1954, SKOV3, H1299 and Lenti-HEK-293.The following experimental procedures are described in more detail in the published article: Cloning of MELK promoter, Cloning of wild-type p53 into pInducer 20 vector, Luciferase assay, Transfection and Western blotting, Generation of stable cells, Chromatin Immunoprecipitation (ChIP) and quantitative reverse transcription polymerase chain reaction (Q-RT-PCR) and Analysis of MELK expression and patient survival in published breast cancer datasets.<br><b>Datasets supporting the figures and supplementary figures: </b>Data file <b>Bollu at al.xlsx</b> provides information about the datasets used and generated during the study: dataset names, dataset formats, location of datasets (and names of repositories in cases where a publicly available dataset was used) and persistent links to the datasets. <br><br><br> <br>