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Displaying 20 of 24 results for "TOM1"
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  1. Down-regulation of gene expression is a conserved and distinctive feature required for early development of nematode-induced Giant Cells in tomato OmicsDI

    ID: E-GEOD-30048

    Date Released: 05-02-2014

    Description: rse of Meloidogyne javanica infection hybridizing TOM1 microarrays with hand-dissected galls at 1, 3, 7 and 14 days post-infection (dpi) and GCs exclusively isolated by LASER CAPTURE MICRODISSECTION (LCM) at 3 and 7 dpi. A GCs and galls comparison, at the same stage of development, reveals clear differences between their transcriptional patterns. For this purpose, a fast and efficient method to isolate LCM GCs from cryopreserved galls in the earliest differentiation state described to date: 48-72-hour post-infection (3 dpi), allowing good RNA preservation, was developed. In galls transcriptomic anaylsis, about 3000 galls and 4400 control uninfected root fragments were carefully hand-dissected at 1, 3, 7 and 14 dpi. Thus, more than 12 plates with 8 individual infected plants each, and 18 plates with the same number of plants as controls were used for only one independent experiment in each tim...

  2. Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit BioProject

    ID: PRJNA97773

    Keywords: Transcriptome or Gene expression

    Access Type: download

    dataset.description: Two-color hybridizations were carried out to the TOM1 microarray slide (CGEP website at Cornell). Three microgram of amplified mRNA products were subjected to reverse transcription and then labeled with Cy3 and Cy5 (Amersham Biosciences, Uppsala, Sweden) by the indirect amino-allyl method (Invitrogen, Carlsbad, CA, USA). Hybridization of labeled targets to the tomato microarray slide TOM1 was carried out at 42°C for 14 to 16 h using a covered hybridization oven (Amersham Pharmacia, Buckinghamshire, England). Microarray slides were washed seven times for 10 min each: at room temperature in 2XSSC/0.1% SDS- twice, room temperature in 0.2XSSC/0.1% SDS- twice, room temperature with 0.2XSSC- twice, and once in 0.2XSSC at 42°C. Excess fluids were drained from the arrays by centrifugation (5 min at 450g). For each developmental stage (mature green, breaker and early-red), 4 hybridizations were carried out, representing 3 independent biological repeats and one technical repeat of swapped dyes. Separate images for each fluorescence dye were acquired using ScanArray 4000 genetic analyzer [GSI Lumonics (Packard / Perkin Elmer), Ramsey MN, USA]. The analyzer scan was carried out at 10 µm resolution per pixel, adjusting the photomultiplier and laser power to achieve an optimal distribution of signals with minimal saturation. Quantification was carried out using QuantArray version 3 software, applying histogram method (Billerica, Packard BioScience, MA, USA). Data analysis was performed using Genespring® 7.2 software (Silicon Genetics, Redwood City, CA, USA), applying per-spot and per-chip normalizations: For each hybridization Lowess curve was fit to the log-intensity versus log-ratio plot. 40% of the data was used to calculate the Lowess fit at each point. This curve was used to adjust the value of the normal genotype for each measurement (control channel). If the control channel was lower than 10 then 10 was used instead. Low-quality data were identified and discarded when their signal to noise ratio was <2....
  3. Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings BioProject

    ID: PRJNA102261

    Keywords: Transcriptome or Gene expression

    Access Type: download

    dataset.description: entum Mill cv. Money Maker) by a cDNA microarray (Tom1). The significantly differentially expressed genes (5% Benjamini-Hochberg false discovery rate) consisted of 1757 sequences in the analyzed tissues (cotyledons + shoot tip). Genes with over 2 fold difference were selected from the...
  4. Imatinib effect on Philadelphia chromosome positive acute lymphoblastic leukemia cells GEO

    ID: geo.datasets:GDS4175

    Description: Ph+ ALL cell lines (BV-173, NALM-1, SUP-B15, and TOM1) treated with tyrosine kinase inhibitor (TKI) imatinib. Ph encodes oncogenic BCR-ABL1 tyrosine kinase, which defines a subset of ALL with...

    Types: Expression profiling by array

    Instrument: GPL571


Displaying 20 of 24 results for "TOM1"