scholarly journals The ankyrin repeat gene family in Capsicum spp: Genome-wide survey, characterization and gene expression profile

2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Carlos Lopez-Ortiz ◽  
Yadira Peña-Garcia ◽  
Purushothaman Natarajan ◽  
Menuka Bhandari ◽  
Venkata Abburi ◽  
...  
Keyword(s):  
Gene Expression ◽  
Gene Family ◽  
Gene Expression Profile ◽  
Expression Profile ◽  
Ankyrin Repeat ◽  
Genome Wide ◽  
Capsicum Spp ◽  
Genome Wide Survey

Acrylamide exposure and dose–effect relations on the genome-wide gene expression profile of human target cells

2009 ◽  
Vol 189 ◽  
pp. S94-S95
Author(s):  
Alfonso Lampen ◽  
M. Hummel ◽  
K. Zeilinger ◽  
M. Luebberstedt ◽  
Anke Ehlers
Keyword(s):  
Gene Expression ◽  
Gene Expression Profile ◽  
Expression Profile ◽  
Dose Effect ◽  
Target Cells ◽  
Genome Wide ◽  
Genome Wide Gene Expression

scholarly journals Genome-wide epigenetic analysis delineates a biologically distinct immature acute leukemia with myeloid/T-lymphoid features

Blood ◽  
2009 ◽  
Vol 113 (12) ◽  
pp. 2795-2804 ◽  
Author(s):  
Maria E. Figueroa ◽  
Bas J. Wouters ◽  
Lucy Skrabanek ◽  
Jacob Glass ◽  
Yushan Li ◽  
...  
Keyword(s):  
Gene Expression ◽  
Dna Methylation ◽  
Gene Expression Profile ◽  
Expression Profile ◽  
Cpg Islands ◽  
Specific Gene ◽  
Molecular Heterogeneity ◽  
Dna Hypermethylation ◽  
Genome Wide

Abstract Acute myeloid leukemia is a heterogeneous disease from the molecular and biologic standpoints, and even patients with a specific gene expression profile may present clinical and molecular heterogeneity. We studied the epigenetic profiles of a cohort of patients who shared a common gene expression profile but differed in that only half of them harbored mutations of the CEBPA locus, whereas the rest presented with silencing of this gene and coexpression of certain T-cell markers. DNA methylation studies revealed that these 2 groups of patients could be readily segregated in an unsupervised fashion based on their DNA methylation profiles alone. Furthermore, CEBPA silencing was associated with the presence of an aberrant DNA hypermethylation signature, which was not present in the CEBPA mutant group. This aberrant hypermethylation occurred more frequently at sites within CpG islands. CEBPA-silenced leukemias also displayed marked hypermethylation compared with normal CD34+ hematopoietic cells, whereas CEBPA mutant cases showed only mild changes in DNA methylation compared with these normal progenitors. Biologically, CEBPA-silenced leukemias presented with a decreased response to myeloid growth factors in vitro.

scholarly journals Loss of Parp-1 affects gene expression profile in a genome-wide manner in ES cells and liver cells

BMC Genomics ◽  
2007 ◽  
Vol 8 (1) ◽  
Author(s):  
Hideki Ogino ◽  
Tadashige Nozaki ◽  
Akemi Gunji ◽  
Miho Maeda ◽  
Hiroshi Suzuki ◽  
...  
Keyword(s):  
Gene Expression ◽  
Gene Expression Profile ◽  
Expression Profile ◽  
Es Cells ◽  
Liver Cells ◽  
Genome Wide ◽  
A Genome ◽  
Parp 1

scholarly journals Genome-wide integrative analysis revealed a correlation between lengths of copy number segments and corresponding gene expression profile

2011 ◽  
Vol 7 (6) ◽  
pp. 280-284 ◽  
Author(s):  
Ken Miyaguch ◽  
Yutaka Fukuoka ◽  
Hiroshi Mizushima ◽  
Mahmut Yasen ◽  
Shota Nemoto ◽  
...  
Keyword(s):  
Gene Expression ◽  
Gene Expression Profile ◽  
Expression Profile ◽  
Copy Number ◽  
Integrative Analysis ◽  
Genome Wide

Genome-wide Gene Expression Profile of Jejunal Pouch Mucosa as a Gastric Substitute

2012 ◽  
Author(s):  
Masami Ikeda ◽  
Keita Watanabe ◽  
Takashi Watanabe ◽  
Yoshinori Igarashi ◽  
Kazumasa Miki ◽  
...  
Keyword(s):  
Gene Expression ◽  
Gene Expression Profile ◽  
Expression Profile ◽  
Jejunal Pouch ◽  
Genome Wide ◽  
Genome Wide Gene Expression

scholarly journals Loss of Parp-1 affects gene expression profile in a genome-wide manner in ES cells and liver cells

BMC Genomics ◽  
2007 ◽  
Vol 8 (1) ◽  
pp. 227 ◽  
Author(s):  
Hideki Ogino ◽  
Tadashige Nozaki ◽  
Akemi Gunji ◽  
Miho Maeda ◽  
Hiroshi Suzuki ◽  
...  
Keyword(s):  
Gene Expression ◽  
Gene Expression Profile ◽  
Expression Profile ◽  
Es Cells ◽  
Liver Cells ◽  
Genome Wide ◽  
A Genome ◽  
Parp 1

scholarly journals Genome-Wide Identification MIKC-Type MADS-Box Gene Family and Their Roles during Development of Floral Buds in Wheel Wingnut (Cyclocarya paliurus)

2021 ◽  
Vol 22 (18) ◽  
pp. 10128
Author(s):  
Yinquan Qu ◽  
Weilong Kong ◽  
Qian Wang ◽  
Xiangxiang Fu
Keyword(s):  
Gene Expression ◽  
Gene Family ◽  
Expression Profile ◽  
Mads Box ◽  
Mads Box Genes ◽  
Cyclocarya Paliurus ◽  
Expression Levels ◽  
Floral Buds ◽  
Genome Wide ◽  
Mads Box Gene

MADS-box transcription factors (TFs) have fundamental roles in regulating floral organ formation and flowering time in flowering plants. In order to understand the function of MIKC-type MADS-box family genes in Cyclocarya paliurus (Batal.) Iljinskaja, we first implemented a genome-wide analysis of MIKC-type MADS-box genes in C. paliurus. Here, the phylogenetic relationships, chromosome location, conserved motif, gene structure, promoter region, and gene expression profile were analyzed. The results showed that 45 MIKC-type MADS-box were divided into 14 subfamilies: BS (3), AGL12 (1), AP3-PI (3), MIKC* (3), AGL15 (3), SVP (5), AGL17 (2), AG (3), TM8 (1), AGL6 (2), SEP (5), AP1-FUL (6), SOC1 (7), and FLC (1). The 43 MIKC-type MADS-box genes were distributed unevenly in 14 chromosomes, but two members were mapped on unanchored scaffolds. Gene structures were varied in the same gene family or subfamily, but conserved motifs shared similar distributions and sequences. The element analysis in promoters’ regions revealed that MIKC-type MADS-box family genes were associated with light, phytohormone, and temperature responsiveness, which may play important roles in floral development and differentiation. The expression profile showed that most MIKC-type MADS-box genes were differentially expressed in six tissues (specifically expressed in floral buds), and the expression patterns were also visibly varied in the same subfamily. CpaF1st24796 and CpaF1st23405, belonging to AP3-PI and SEP subfamilies, exhibited the high expression levels in PA-M and PG-F, respectively, indicating their functions in presenting heterodichogamy. We further verified the MIKC-type MADS-box gene expression levels on the basis of transcriptome and qRT-PCR analysis. This study would provide a theoretical basis for classification, cloning, and regulation of flowering mechanism of MIKC-type MADS-box genes in C. paliurus.

scholarly journals Identification of Significant Genes and Therapeutic Agents for Breast Cancer by Integrated Bioinformatics

2021 ◽  
Author(s):  
Xiao Sun ◽  
Zhenzhen Luo ◽  
Liuyun Gong ◽  
Xinyue Tan ◽  
Jie Chen ◽  
...  
Keyword(s):  
Breast Cancer ◽  
Gene Expression ◽  
Association Study ◽  
Gene Expression Profile ◽  
Small Molecule ◽  
Expression Profile ◽  
Genome Wide Association Study ◽  
Therapeutic Agents ◽  
Genome Wide Association ◽  
Genome Wide

Abstract Background: Breast cancer is the most commonly diagnosed malignancy in women; thus, more cancer prevention research is urgently needed. The aim of this study was to predict potential therapeutic agents for breast cancer and determine their molecular mechanisms using integrated bioinformatics.Methods: Summary data from a large genome-wide association study of breast cancer was derived from the UK Biobank. The gene expression profile of breast cancer was from the Oncomine database. We performed a network-wide association study and gene set enrichment analysis to identify the significant genes in breast cancer. Then we performed Gene Ontology analysis using the STRING database and conducted Kyoto Encyclopedia of Genes and Genomes pathway analysis using Cytoscape software. We verified our results using the Gene Expression Profile Interactive Analysis, PROgeneV2, and Human Protein Atlas databases. Connectivity map analysis was used to identify small molecule compounds that are potential therapeutic agents for breast cancer.Results: We identified 10 significant genes in breast cancer based on the gene expression profile and genome-wide association study. A total of 65 small molecule compounds were found to be potential therapeutic agents for breast cancer.Conclusion: Combined analyses of network-wide association studies, gene expression profiles, and drug databases are helpful for identifying potential therapeutic agents for diseases. This method is a new paradigm that can guide future research directions.

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