GEO DataSets

(Submitter supplied) Enhanced understanding of differential gene expression and biological pathways associated with distinct phases of intramembranous bone regeneration following femoral marrow ablation surgery will improve future advancements regarding osseointegration of joint replacement implants, biomaterials design, and bone tissue engineering. A rat femoral marrow ablation model was performed and genome-wide microarray data were obtained from samples at 1, 3, 5, 7, 10, 14, 28, and 56 days post-ablation, with intact bones serving as controls at Day 0. more...

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Platform:

GPL1355

27 Samples

Download data: CEL

(Submitter supplied) MC3T3 cells clone 1b were grown in alpha-MEM with 10% fetal calf serum (FCS, Gibco), 1% penicilin/streptomycin (Pen/Strep) and 1% L-Glutamine (L-Glu). For differentiation experiment, cells were seeded on 6 cm dishes (3x105cells/dish in 5 ml medium) and grownt to confluence for 3 days at 37C / 5% CO2. Cells were then stimulated with osteogenic stimulus (10 mM beta-glycerophosphate (GP, Sigma), 50 µM ascorbic acid (AA, Wako) and 1 mg/ml BMP-2 (Novartis)), or with 10mM GP alone for 1 or 3 days. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS679

Platform:

GPL81

15 Samples

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Response of calvarial MC3T3-1b cells to osteogenic stimulus (beta-glycerophosphate (GP), ascorbic acid (AA) and bone morphogenic protein 2 (BMP-2)) for 0, 1 and 3 days. Notch, Wnt and TGF-β signaling pathways are activated in osteogenesis.

Organism:

Mus musculus

Type:

Expression profiling by array, count, 3 growth protocol, 3 time sets

Platform:

GPL81

Series:

GSE1131

15 Samples

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(Submitter supplied) Aims of study: (1) To identify systemic differences in osteoarthritic (OA) bone that contribute to OA pathogenesis. (2) Identify novel osteoporotic (OP) bone-related disease genes. Study involved comparison of trabecular bone extracted from the intertrochanteric (IT) region of the proximal femur (PF) from OA, OP and normal/control (CTL) individuals. Bone was obtained from OA and OP individuals at surgery for total hip replacement and from CTL individuals at autopsy. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL5391

39 Samples

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(Submitter supplied) d-serine is naturally present throughout the human body. It is also used as add-on therapy for treatment-refractory schizophrenia. d-Serine interacts with the strychnine-insensitive glycine binding site of NMDA receptor, and this interaction could lead to potentially toxic activity (i.e., excitotoxicity) in brain tissue. The transcriptomic changes that occur in the brain after d-serine exposure have not been fully explored. more...

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Dataset:

GDS3643

Platform:

GPL1355

24 Samples

Download data: CEL

Analysis of forebrains of animals treated with up to 500 mg/kg D-serine for 96 hours. D-serine is involved in many physiological processes through its interaction with the glycine binding site of the NMDA receptor. Results provide insight into the impact of D-serine exposure on neuronal functions.

Organism:

Rattus norvegicus

Type:

Expression profiling by array, count, 2 agent, 6 dose sets

Platform:

GPL1355

Series:

GSE10748

24 Samples

Download data: CEL

(Submitter supplied) Although mammalian hair cells are essentially unable to regenerate after damage, nonmammalian hair cells have a robust capacity for hair cell regeneration. To obtain insights into the mechanism of this difference, we analyzed the transcriptomic changes in the mouse cochleae after gentamicin damage and compared them with those in the chick cochleae collected at the corresponding damage time. The results indicated that 2,243 genes had significantly differential expression between the gentamicin- and saline-treated cochleae.

Organism:

Gallus gallus; Mus musculus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL26497 GPL26498

4 Samples

Download data: FA, TXT, XLSX

(Submitter supplied) HIF-1a activates genes under hypoxia and was hypothesized to regulate bone regeneration. Surprisingly, HET HIF-1a fracture calluses are larger, stronger and stiffer than WT HIF-1a calluses due to decreased apoptosis. These data identify apoptosis inhibition as a means to enhance bone regeneration. Introduction: Bone regeneration subsequent to fracture involves the synergistic activation of multiple signaling pathways. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platforms:

GPL1121 GPL1190

12 Samples

Download data: TXT

(Submitter supplied) To explore the molecular events that underline skeletal physiology during aging we catalogued the profile of gene expression in ex vivo cultured MSCs derived from 3 and 15 month old rats and challenged with dexamethasone (Dex). RNA retrieved from these cells was analyzed using Affymetrix Gene Chips to compare the effect of Dex on gene expression. Keywords: age effect, treatment

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Dataset:

GDS2231

Platform:

GPL341

5 Samples

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Analysis of cultured marrow-derived stromal cells (MSCs) from 3 or 15 month old animals following ex vivo treatment of the cells with dexamethasone. Results provide insight into molecular mechanisms regulating MSC differentiation in young and aged animals.

Organism:

Rattus norvegicus

Type:

Expression profiling by array, count, 2 age, 2 agent, 2 gender sets

Platform:

GPL341

Series:

GSE3339

5 Samples

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(Submitter supplied) Fetal lung development is a complex biological process, which involves temporal and spatial regulations of many genes. To understand molecular mechanisms of this process, we investigated gene expression profiling of lungs at gestational day 18, 19, 20, 21, new born, and adult rats using in-house rat DNA microarray containing 6,000 known genes and 4,000 ESTs. 1,512 genes passed SAM test and 583 genes (402 known genes and 181 ESTs) had a 2-fold change at least at one time point. more...

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Platform:

GPL1699

54 Samples

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(Submitter supplied) Investigation of whole genome gene expression level changes in Inflammatory bowel disease rats after MSC transplantation, compared to IBD control rats, and to explore the mechanism of MSC transplantation.

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Platform:

GPL19519

4 Samples

Download data: PAIR

(Submitter supplied) A study of rat femoral fracture healing in young (6 weeks old at fracture), adult (26 weeks old at fracture), and old (52 weeks old at fracture) rats. Samples were collected at time of surgery (intact controls) and at 3 days, 1 week, 2 weeks, 4 weeks, and 6 weeks after fracture. Samples were the mid third of the femoral length including the external callus, cortical bone and marrow elements. Fracture was stabilized with an intramedullary rod prior to fracture with a Bonnarens and Einhorn device. more...

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Dataset:

GDS1995

Platform:

GPL85

18 Samples

Download data: CEL

(Submitter supplied) mRNA gene expression was measured in intact female Sprague-Dawley rats at 6 (young), 26 (adult) and 52 (older) weeks of age at the time of fracture. Samples were collected at 0, 0.4, 1, 2, 4, and 6 weeks after fracture. RNA from two rats were pooled for each Affymetrix Rat U34A array. Mid-shaft, simple, transverse left femoral fractures were induced after retrograde intramedullary rod fixation with a Bonnarens and Einhorn device. more...

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Dataset:

GDS509

Platform:

GPL85

54 Samples

Download data: CEL

(Submitter supplied) Study of rat femur fracture healing in young (6 weeks old), adult (26 weeks old), and older (52 weeks old) rats with samples collected at 0 time (no fracture) and at 0.4, 1, 2, 4, and 6 weeks after fracture. RNA from two rats were pooled for each array. Keywords = rat, femur, fracture, age, time Keywords: time-course

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Platform:

GPL85

18 Samples

Download data: CEL

(Submitter supplied) mRNA gene expression was measured in rats at 6 (young), 26 (adult) and 52 (older) weeks of age at the time of fracture. Samples were collected at 0, 0.4, 1, 2, 4, and 6 weeks after fracture. RNA from two rats were pooled for each Affymetrix Rat U34A array. Keywords = rat Keywords = fracture Keywords = age Keywords = time Keywords = femur Keywords: time-course

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Platform:

GPL85

18 Samples

Download data: CEL

Analysis of healing femurs of 6, 26, and 52-week-old Sprague-Dawley females at various time points up to 6 weeks after fracture. 6, 26, and 52-week-old animals regain normal skeletal biomechanics 4 weeks, 10 weeks, and 6 months after fracture, respectively.

Organism:

Rattus norvegicus

Type:

Expression profiling by array, count, 3 age, 2 protocol, 6 time sets

Platform:

GPL85

Series:

GSE1371

18 Samples

Download data: CEL

Temporal analysis of gene expression following femoral fracture. Female Sprague-Dawleys at 6 (young), 26 (adult) and 52 (older) weeks of age at time of fracture. Samples analyzed at 0, 3 days, 1, 2, 4, and 6 weeks after fracture.

Organism:

Rattus norvegicus

Type:

Expression profiling by array, count, 3 age, 6 time sets

Platform:

GPL85

Series:

GSE594

36 Samples

Download data: CEL

(Submitter supplied) The role of diet in the prevention of breast cancer is widely accepted, yet little is known on how early dietary effects mitigate adult cancer risk. Soy consumption is associated with reduced breast cancer risk in women, an effect largely attributed to the soy isoflavone genistein (GEN). We previously showed lower chemically-induced mammary tumor incidence in young adult rats with lifetime dietary intake of soy protein isolate (SPI), a highly refined soy product in infant formula, than in those fed the control diet Casein (CAS). more...

Organism:

Rattus norvegicus

Type:

Expression profiling by array

Dataset:

GDS2616

Platform:

GPL341

10 Samples

Download data: CEL

Analysis of mammary epithelial cells of females fed a diet containing the soy isoflavone genistein or soy protein isolate. Soy consumption is associated with reduced breast cancer risk in women. Results provide insight into the molecular basis of the beneficial effect of soy-rich diets.

Organism:

Rattus norvegicus

Type:

Expression profiling by array, count, 3 protocol sets

Platform:

GPL341

Series:

GSE6879

10 Samples

Download data: CEL