GEO DataSets

(Submitter supplied) Array-based comparative genomic hybridisation is a high-resolution method for measuring chromosomal copy number changes. Here we present a validated protocol using in-house spotted oligonucleotide libraries for array CGH. This oligo array CGH platform yields reproducible results and is capable of detecting single copy gains, multi-copy amplifications as well as homozygous and heterozygous deletions as small as 100 kb with high resolution. more...

Organism:

Homo sapiens; Mus musculus

Type:

Genome variation profiling by array; Genome variation profiling by genome tiling array

11 related Platforms

36 Samples

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(Submitter supplied) - oligonucleotide sequences are available via www.ensembl.org after agreeing to Compugen's conditions - oligonucleotides were mapped by Ensembl to the NCBIm33 version of the mouse genome - all plates were printed once (no replicate spots) Protocol: The Mouse 8K and Mouse 14K extension oligonucleotide libraries, containing 65-mer oligonucleotides representing 21825 unique genes as designed by Compugen (San Jose, CA, USA), was obtained from Sigma-Genosys (Zwijndrecht, The Netherlands). more...

Organism:

Mus musculus

2 Series

10 Samples

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(Submitter supplied) - oligonucleotide sequences are available via www.ensembl.org after agreeing to Compugen's conditions - oligonucleotides were mapped by Ensembl to the NCBI35 version of the human genome - from a total of 76 384-well plates in the library plates 14 and 15 were printed twice (in duplicate) - all other plates were printed once (no replicate spots) Protocol: The Human Release 2.0 oligonucleotide library, containing 60-mer oligonucleotides representing 28830 unique genes as designed by Compugen (San Jose, CA, USA), was obtained from Sigma-Genosys (Zwijndrecht, The Netherlands). more...

Organism:

Homo sapiens

8 Series

51 Samples

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(Submitter supplied) - oligonucleotide sequences are available via www.ensembl.org after agreeing to Compugen's conditions - oligonucleotides were mapped by Ensembl to the NCBI35 version of the human genome - from a total of 76 384-well plates in the library plate 15 was not printed in this platform - all other plates were printed once (no replicate spots) Protocol: The Human Release 2.0 oligonucleotide library, containing 60-mer oligonucleotides representing 28830 unique genes as designed by Compugen (San Jose, CA, USA), was obtained from Sigma-Genosys (Zwijndrecht, The Netherlands). more...

Organism:

Homo sapiens

7 Series

40 Samples

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(Submitter supplied) - oligonucleotide sequences are available via www.ensembl.org after agreeing to Compugen's conditions - oligonucleotides were mapped by Ensembl to the NCBI35 version of the human genome - from a total of 76 384-well plates in the library plates 12 and 13 were printed twice (in duplicate) - all other plates were printed once (no replicate spots) Protocol: The Human Release 2.0 oligonucleotide library, containing 60-mer oligonucleotides representing 28830 unique genes as designed by Compugen (San Jose, CA, USA), was obtained from Sigma-Genosys (Zwijndrecht, The Netherlands). more...

Organism:

Homo sapiens

3 Series

37 Samples

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(Submitter supplied) - oligonucleotide sequences are available via www.ensembl.org after agreeing to Compugen's conditions - oligonucleotides were mapped by Ensembl to the NCBI35 version of the human genome - from a total of 76 384-well plates in the library plates 10 and 11 were printed twice (in duplicate) - all other plates were printed once (no replicate spots) Protocol: The Human Release 2.0 oligonucleotide library, containing 60-mer oligonucleotides representing 28830 unique genes as designed by Compugen (San Jose, CA, USA), was obtained from Sigma-Genosys (Zwijndrecht, The Netherlands). more...

Organism:

Homo sapiens

3 Series

85 Samples

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(Submitter supplied) - clones were mapped to the UCSC July 2003 Freeze of the Human Golden Path (NCBI build 34) - oncobacs were mapped using their overgo-primers and are available via www.ensembl.org Protocol: as described in: Carvalho et al (J. Clin. Path.,2004, vol. 57, 644-646). DNA from the 1 Mb resolution Sanger BAC clone set, the OncoBac set, and in house clones of interest, supplemented with clones from the Children’s Hospital Oakland Research Institute (CHORI), amounting to a total of 5284 clones with known chromosomal positions, was isolated according to the CHORI protocol. more...

Organism:

Homo sapiens

8 Series

160 Samples

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(Submitter supplied) - clones were mapped to the UCSC July 2003 Freeze of the Human Golden Path (NCBI build 34) - oncobacs were mapped using their overgo-primers and are available via www.ensembl.org Protocol: as described in: Carvalho et al (J. Clin. Path.,2004, vol. 57, 644-646). DNA from the 1 Mb resolution Sanger BAC clone set, the OncoBac set, and in house clones of interest, supplemented with clones from the Children’s Hospital Oakland Research Institute (CHORI), amounting to a total of 4678 clones with known chromosomal positions, was isolated according to the CHORI protocol. more...

Organism:

Homo sapiens

4 Series

104 Samples

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(Submitter supplied) - oligonucleotide sequences are available via www.ensembl.org after agreeing to Compugen's conditions - oligonucleotides were mapped by Ensembl to the NCBI35 version of the human genome - all plates were printed once (no replicate spots) Protocol: The Human Release 2.0 oligonucleotide library, containing 60-mer oligonucleotides representing 28830 unique genes as designed by Compugen (San Jose, CA, USA), was obtained from Sigma-Genosys. more...

Organism:

Homo sapiens

1 Series

1 Sample

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(Submitter supplied) - oligonucleotide sequences are available via www.ensembl.org after agreeing to Compugen's conditions - oligonucleotides were mapped by Ensembl to the NCBI35 version of the human genome - all plates were printed once (no replicate spots) Protocol: The Human Release 2.0 oligonucleotide library, containing 60-mer oligonucleotides representing 28830 unique genes as designed by Compugen (San Jose, CA, USA), was obtained from Sigma-Genosys (Zwijndrecht, The Netherlands). more...

Organism:

Homo sapiens

3 Series

73 Samples

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(Submitter supplied) - oligonucleotide sequences are available via www.ensembl.org after agreeing to Compugen's conditions - oligonucleotides were mapped by Compugen to the July 2003 Freeze of the human genome - all plates were printed once (no replicate spots) Protocol: The Human Release 1.0 oligonucleotide library, containing 18861 60-mer oligonucleotides representing 17260 unique genes as designed by Compugen (San Jose, CA, USA) was obtained from Sigma-Genosys (Zwijndrecht, The Netherlands). more...

Organism:

Homo sapiens

2 Series

24 Samples

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(Submitter supplied) CodeLink Activated Slides from Amersham Biosciences are used as support for the arrays. The slides are coated with a hydrophilic polymer containing N-hydroxysuccinimide (NHS) ester reactive groups and designed to minimize nonspecific binding. Protocol: As described in Chung et al., Genome Research, 2004, vol.14, 188-196

Organism:

Mus musculus

3 Series

42 Samples

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