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AP-1 regulates heterogeneous cellular dormancy in TNBC

ABSTRACT: Slow-cycling cells (SCCs) are a heterogeneous subpopulation of tumor cells. They pre-exist in tumor tissues and evade killing by chemotherapeutics that target mitosis due to their dormant nature. We here utilized varieties of fluorescent dyes or proteins (Claret, H2BeGFP, and Violet) retaining method to label and isolate SCCs, and RNA-seq was performed to understand the gene expression characteristics of subpopulations of SCCs.

ORGANISM(S): Homo sapiens

PROVIDER: GSE267757 | GEO | 2024/05/18

REPOSITORIES: GEO

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AP-1 regulates heterogeneous cellular dormancy in TNBC II

Project description:Slow-cycling cells (SCCs) are a heterogeneous subpopulation of tumor cells. They pre-exist in tumor tissues and evade killing by chemotherapeutics that target mitosis due to their dormant nature. We here utilized PKH26 retaining method to label and isolate SCCs, and RNA-seq was performed to understand the gene expression characteristics of SCCs. Here we reported that up-regulations of AP-1 subunits regulate triple negative breast cancer (TNBC) dormancy by up-regulating the expression of CDKN1A and GADD45 family as transcription factors.

2024-05-18 | GSE267759 | GEO

Effect of Smoke Dye Exposure in Zebrafish Embryos

Project description:Whole transcriptome analysis of dechorinated zebrafish embryos after (static?) exposure to one of five smoke dyes from 6 hours post-fertilization (hpf) to 48 hpf. Smoke dyes tested are Disperse Blue 14, Disperse Red 9, Solvent Red 169, Solvent Violet 47, and Solvent Yellow 33. Results provide insight into the molecular mechanisms of immunological response to the dyes.

2021-02-07 | GSE166302 | GEO

Identification of slow-cycling cells in Ewing sarcoma

Project description:We identified slow-cycling cells (SCCs) in Ewing sarcoma using a label retention assay with CFSE. We labeled cells of SK-ES-1, an Ewing sarcoma cell line, with CFSE. After 5 days culture, we isolated cells retaining strong fluorescence (upper, ~10%) as SCCs and other cells (lower, ~90%) as non-slow-cycling cells (non-SCCs) using FACS AriaTM Ⅲ cell sorter.

2022-10-17 | GSE204671 | GEO

RGS2-mediated translational control drives cellular dormancy and resistance to ER-stress-induced apoptosis by inducing proteasome-mediated ATF4 degradation

Project description:Slow-cycling/dormant cancer cells (SCCs) are thought to cause cancer relapse, but the underlying biology remains obscure. A subpopulation of SCCs has been found even in rapidly growing tumors and cancer cell lines. To investigate the mechanism underlying cellular dormancy, we obtained SCCs from three NSCLC cell lines (H460, H1299, and SK-MES-1) and PDX tumor by using a cell proliferation-dependent fluorescent dye (CSFE).

2020-08-31 | GSE141218 | GEO

Microarray analysis of apple buds during dormancy

2015-04-06 | GSE64717 | GEO

Microarray analysis of apple buds during dormancy

Project description:Closed terminal buds of apple trees (Malus x domestica Borkh, Royal Gala and Castel Gala varieties) grown in commercial orchards were harvested during autumn and winter and exposed to cold treatments 18 biological samples, consisting of 9 pairs of replicates, were analysed in dye-swap. Samples are whole closed terminal buds. Biological replicates are buds from 2 different harvest year subjected to similar cold treatments. Samples with contrasting dormancy status in the same harvest year were compared in 8 dye-swap. Most samples were hybridized more than once in different combinations

2015-04-06 | E-GEOD-64717 | biostudies-arrayexpress

Transcription profiling of human primary liposarcoma cultures reveals heterogeneous in vitro effects of doxorubicin

Project description:Doxorubicin is considered one of the most potent established chemotherapeutics in the treatment of liposarcoma; however, the response rates usually below 30%, are still disappointing. This study was performed to identify gene expression changes in liposarcoma after doxorubicin treatment. Cells of 19 primary human liposarcoma were harvested intraoperatively and brought into cell culture. Cells were incubated with doxorubicin for 24 h, RNA was isolated and differential gene expression was analysed by the microarray technique. We used microarrays to detail the global gene expression changes following doxorubicin treatment of primary liposarcoma cell cultures Experiment Overall Design: We compared untreated primary cell cultures obtained from liposarcoma treated with doxorubicin treated cultures to determine global gene expression changes by microarray analysis

2008-10-26 | E-GEOD-12972 | biostudies-arrayexpress

Transcription profiling of adult fly vs embryo (0-16h), Gerber AP. 2005

Project description:Total RNA was isolated from wild-type adult flies (yellow white) and from embryos (cs, 0-16h) with TRIZOL reagent. 12 microgram of each total RNA were labeled with fluorescent dyes, following cDNA synthesis with amino-allyl dUTP in addition to the four natural dNTPs using a 1:1 mixture of oligo(dT) and random nonamer primers.

2006-11-11 | E-SMDB-3536 | biostudies-arrayexpress

Heterogeneous in vitro effects of doxorubicin on gene expression in primary human liposarcoma cultures

2008-10-06 | GSE12972 | GEO

Expression analysis of chicken chorioretinal tissues in control and myopic eyes with or without violet light

Project description:To find the possible molecular mechanism of myopia protection by violet light, we performed expression microarray analysis of chick chorioretinal tissue. The mRNA were obtained at day 13 from the following four groups: control eyes with or without violet light exposure and covered eyes with or without violet light exposure, and then the gene expression pattern was compared among them. Principle component analysis, which is to find major patterns of variability in gene expression, was performed and we found that the largest gene population (PC1, positive: n = 138, negative: n = 292) was affected by violet light treatment. On the other hand, the second largest gene population (PC2, positive: n = 120, negative: n = 23) was affected in the eyes covered with a plastic lens. The previously reported myopia-related genes such as Bmp2, Ednrb, Fgf2, Igf1, Il18, Irbp, Lumican, Sfrp1, Tgfb1, Vegfa, Vip, and Wnt2b were not found in the PC1 group in vivo, which indicates that they responded less to violet light. In the PC1 group, only one myopia protective gene, EGR1 (ZENK, zif268), was found among the previously reported myopia related genes.

2017-03-08 | GSE90118 | GEO

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