Journal: Cancers

Article Title: Comparative Analysis of the Transcriptomic Response to Cisplatin in Drug-Sensitive and Drug-Resistant Testicular Germ Cell Tumors

doi: 10.3390/cancers18040575

Figure Lengend Snippet: Cisplatin-resistant TGCT cells have a less robust transcriptional response to cisplatin compared to parental cells. ( A ) Volcano plots of the cisplatin response of 2102EP parental and three independently derived cisplatin-resistant cell derivatives. ( B ) Volcano plots of the cisplatin response of NT2/D1 parental and two independently derived cisplatin-resistant cell derivatives. ( C ) Volcano plots of the cisplatin response of 833K parental and two independently derived cisplatin-resistant cell derivatives. ( D ) Number of genes upregulated and downregulated (>1.3 fold change and an FDR < 0.01) after cisplatin treatment in indicated parental and resistant cells.

Article Snippet: The human TGCT embryonal carcinoma (EC) cell lines NT2/D1, 833K, and 2102EP were obtained from ATCC.

Techniques: Derivative Assay

Journal: Cancers

Article Title: Comparative Analysis of the Transcriptomic Response to Cisplatin in Drug-Sensitive and Drug-Resistant Testicular Germ Cell Tumors

doi: 10.3390/cancers18040575

Figure Lengend Snippet: p53/TFRC1/MYC target genes are associated with disease-free survival in TGCT patients. High expression of a partially overlapping subset of genes associated with p53 activation and TFRC1 and MYC repression were associated with increased disease-free survival in TGCT patients as assessed by Kaplan–Meier log-rank tests. HR, hazard ratio; CI, confidence interval.

Article Snippet: The human TGCT embryonal carcinoma (EC) cell lines NT2/D1, 833K, and 2102EP were obtained from ATCC.

Techniques: Expressing, Activation Assay

Journal: Cell Journal (Yakhteh)

Article Title: Differential Expression of OCT4 Pseudogenes in Pluripotent and Tumor Cell Lines

doi:

Figure Lengend Snippet: A. Schematic representation of OCT4 pseudogenes. OCT4-pg1, OCT4-pg3 and OCT4-pg4 have highly similar nucleotide sequences to that of the OCT4A transcript. OCT4-pg5 transcript lacks exon1, and OCT4-pg7 lacks exon1, exon4, and part of exon2. OCT4-pg2 has a part of exon5, and OCT4-pg6 has all five exons, incompletely. Rough lines in OCT4-pg2 and OCT4-pg6 are remained sequences which are derived from OCT4 introns and B. RT-PCR analysis of OCT4 -pseudogenes in different human pluripotent and cancer cell lines by specific primer sets. GAPDH was used as an internal control. RT-PCR; Reverse transcriptase-polymerase chain reaction.

Article Snippet: In this experimental study, 17 human cell lines were mainly provided by Pasteur Institute of Iran and Research Institute of Avicenna, included two human embryonic carcinoma cell lines, one normal fibroblast cell line (HS-5) and HEK293 (embryonic kidney) and 13 human tumor cell lines, namely U87MG and A172 (glioblastoma), Daoy (medulloblastoma), 1321N1 (brain astrocytoma), Jurkat (T-Cell lymphoma), Y79 (retinoblastoma), PC3 (prostate adenocarcinoma), Raji (Burkit’s lymphoma), Ovcar3 (ovary adenocarcinoma), HepG2 (hepatocellular carcinoma), MCF7 (breast adenocarcinoma), 5637 (urinary bladder carcinoma), HeLa (cervix adenocarcinoma), and NT2 and NCCIT (pluripotent embryonic carcinoma).

Techniques: Derivative Assay, Reverse Transcription Polymerase Chain Reaction, Control, Reverse Transcription, Polymerase Chain Reaction

Journal: Cell Journal (Yakhteh)

Article Title: Differential Expression of OCT4 Pseudogenes in Pluripotent and Tumor Cell Lines

doi:

Figure Lengend Snippet: A. A schematic view of OCT4A protein structure, along with predicted protein structures of OCT4-Pg1, OCT4-Pg3 , and OCT4-Pg4 . The putative OCT4-Pg1 protein is similar to OCT4A, containing intact NTD, POU domain and CTD. OCT4-Pg3 can potentially produce a truncated protein with NTD and a part of the POUs domain. The predicted OCT4-pg4 protein contains NTD and POU domain, but lacks a large part of the C-terminal domain. Vertical lines within the depicted structures of OCT4 pseudogenes indicate the position of point mutations which have changed the amino acid sequences of the predicted proteins and B. Western blotting in different human cell types transfected with OCT4-Pg1, OCT4-Pg3 and OCT4-Pg4 expression vectors. The NCCIT and NT2 cell lines were used as positive controls for OCT4A, while U-87MG was used as a negative control for OCT4A and OCT4 pseudogenes. Using the sc-5279 antibody, we detected OCT4A protein exclusively in NCCIT and NTERA-2 cell lines but did not detect OCT4 pseudogenes in the cells which expressed them at the transcript level. Note that the internal control b-actin protein is detectable at similar intensities in all examined cell lines.

Article Snippet: In this experimental study, 17 human cell lines were mainly provided by Pasteur Institute of Iran and Research Institute of Avicenna, included two human embryonic carcinoma cell lines, one normal fibroblast cell line (HS-5) and HEK293 (embryonic kidney) and 13 human tumor cell lines, namely U87MG and A172 (glioblastoma), Daoy (medulloblastoma), 1321N1 (brain astrocytoma), Jurkat (T-Cell lymphoma), Y79 (retinoblastoma), PC3 (prostate adenocarcinoma), Raji (Burkit’s lymphoma), Ovcar3 (ovary adenocarcinoma), HepG2 (hepatocellular carcinoma), MCF7 (breast adenocarcinoma), 5637 (urinary bladder carcinoma), HeLa (cervix adenocarcinoma), and NT2 and NCCIT (pluripotent embryonic carcinoma).

Techniques: Western Blot, Transfection, Expressing, Negative Control, Control