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Papillary renal cell carcinoma (PRCC) and kidney

The samples originate from a 58 years old Caucasian male presented with a papillary renal cell carcinoma. Biopsies were obtained from neoplastic tissue along with adjacent, apparently normal tissue. The tissue was fresh frozen in liquid nitrogen, transported on dry ice, and then stored at -80 C until sample processing.

Pancreas, pooled

The samples originate from 65-76 years old males (2) and females (3) presented with different cancer types that did not affect the pancreas. Biopsies were obtained from normal pancreas tissue. The tissue was fresh frozen in liquid nitrogen, transported on dry ice, and then stored at -80 C until sample processing.

Peripheral blood mononuclear cells (PBMCs), pooled

Ten clinically stable male CKD patients (56.1 ± 3.9 y) undergoing standard hemodialysis (HD) therapy thrice a week were recruited from the Department of Internal Medicine IV, Nephrology and Hypertension of the Saarland University Medical Center. From each patient, 20 ml EDTA (EDTA) anticoagulated blood was drawn before a dialysis session after the long-interdialytic interval. Five CKD patients had prevalent cardiovascular disease, defined as the presence of coronary artery disease (prior myocardial infarction or coronary revascularization), cerebrovascular disease (prior stroke or carotid revascularization), and / or peripheral artery disease (prior revascularization of lower-limb arteries). The remaining five CKD patients had no prevalent cardiovascular disease, which allowed post-hoc comparisons of gene expression between subgroups of CKD patients. Ten healthy sex- and age-matched employees from Saarland University Medical Center served as controls. Mean age of controls was 53.5 ± 2.4 y, and their mean estimated glomerular filtration rate was 86.0 ± 14.3 ml/min/1.73 m2. No control subject had prevalent cardiovascular disease.

Acute lymphoblasitc leukemia (ALL), pooled

In accordance with institutional review board regulations, clinical samples were obtained from children with ALL, prior to initiation of treatment. Treatment was performed according to the ALL-BFM 2000 protocol. Mononuclear cells were isolated from bone marrow aspirate or peripheral blood and then, total RNA was isolated. Bone marrow or peripheral blood specimen had to contain more than 80% blasts assessed morphologically prior to gradient centrifugation.

Pancreatic ductal adenocarcinoma (PDAC), pooled

The samples originate from 57-84 years old males (4) and females (2) presented with pancreatic ductal adenocarcinoma. Biopsies were obtained neoplastic tissue. The tissue was fresh frozen in liquid nitrogen, transported on dry ice, and then stored at -80 C until sample processing.

Mouse Brain

Mice were backcrossed from mixed 129Sv/Pas×C57BL/6 into C57BL/6 strain for more than 8 generations. Animals were housed under routine health monitoring in individually ventilated cages, fed ad libitum, and bred in homozygous matings. They were sacrificed by cervical dislocation and cerebella were removed in minimal time, frozen immediately in liquid nitrogen, and stored at -80 °C. All procedures were done in accordance with the German Animal Welfare Act, the Council Directive of 24 November 1986 (86/609/EWG) with Annex II and the ETS123 (European Convention for the Protection of Vertebrate Animals) at the FELASA-certified Central Animal Facility (ZFE) of the Goethe University Medical School, Frankfurt am Main.

Whole chicken, pooled

Newly laid fertile chicken eggs (White Leghorn) obtained from a commercial local supplier (LSL Rhein-Main, Germany) were bred in an egg incubatorat 37.6°C and 60% humidity. During incubation the eggs were turned once every two hours. On embryonic day 6 (E6), embryos were removed from the eggs and immediately decapitated. The decapitated Gallus gallus embryos were then transferred to 1.5 ml tubes comprising 150 µl lysis buffer RLT (RNeasy Mini Kit, Qiagen) and grinded using a sterile pestle. Subsequently, all samples were stored at -80 °C until isolation of the RNA.