| 1 |
GPL16542 |
[Tgondiia520372] ToxoDB Toxoplasma gondii Custom GeneChip (CDF: Tgondiia520372.cdf) |
8,993 |
NCBI/NLM/NIH |
2013-01-24 |
Affymetrix |
Toxoplasma gondii
 |
GeneChip |
in situ oligonucleotide, [Tgondiia520372] ToxoDB Toxoplasma gondii Custom GeneChip (CDF: Tgondiia520372.cdf), |
| 2 |
GPL10000 |
[Tgondiia520372] Affymetrix Toxoplasma gondii Custom GeneChip (CDF: ToxoDB version 5) |
7,253 |
University of Pennsylvania |
2010-02-02 |
Affymetrix |
Toxoplasma gondii
|
GeneChip |
in situ oligonucleotide, [Tgondiia520372] Affymetrix Toxoplasma gondii Custom GeneChip (CDF: ToxoDB version 5), Affymetrix custom CDF [Tgondiia520372] |
| 3 |
GPL7186 |
[Tgondiia520372] Affymetrix Toxoplasma gondii Custom GeneChip (CDF: ToxoDB version 4) |
9,045 |
Washington University School of Medicine |
2008-08-20 |
Affymetrix |
Toxoplasma gondii
|
GeneChip |
in situ oligonucleotide, [Tgondiia520372] Affymetrix Toxoplasma gondii Custom GeneChip (CDF: ToxoDB version 4), Please see http://ancillary.toxodb.org/docs/Array-Tutorial.html for a complete description of the array design as well as for library files. |
| 4 |
GPL11447 |
[Tgondiia520372] Affymetrix Toxoplasma gondii Custom GeneChip (CDF: Tgondiia520372minusI_IIIsnp) |
9,045 |
Washington University School of Medicine |
2011-01-13 |
Affymetrix |
Toxoplasma gondii
|
GeneChip |
in situ oligonucleotide, [Tgondiia520372] Affymetrix Toxoplasma gondii Custom GeneChip (CDF: Tgondiia520372minusI_IIIsnp), The cdf used is the Tgondiia520372.cdf with all probes containing a type-I or type-III SNP removed. |
| 5 |
GPL16175 |
[scrMalariaa] Winzeler Lab Plasmodium falciparum expression array 5312 v2 |
5,132 |
University of California San Diego |
2012-10-12 |
Affymetrix |
Plasmodium falciparum
 |
GeneChip |
in situ oligonucleotide, [scrMalariaa] Winzeler Lab Plasmodium falciparum expression array 5312 v2, |
| 6 |
GPL1321 |
[Plasmodium_Anopheles] Affymetrix Plasmodium/Anopheles Genome Array |
22,769 |
Affymetrix, Inc. |
2004-07-01 |
Affymetrix |
Plasmodium falciparum,Anopheles gambiae
 |
GeneChip |
in situ oligonucleotide, [Plasmodium_Anopheles] Affymetrix Plasmodium/Anopheles Genome Array, Affymetrix submissions are typically submitted to GEO using the GEOarchive method described at http://www.ncbi.nlm.nih.gov/projects/geo/info/geo_affy.html June 03, 2009: annotation table updated with netaffx build 28 Oct 12, 2009: annotation table updated with netaffx build 32 |
| 7 |
GPL14810 |
[Eh_Eia520620F_Ei] Affymetrix Entamoeba invadens Array |
12,483 |
National Institute of Infectious Diseases |
2011-10-28 |
Affymetrix |
Entamoeba invadens
 |
GeneChip |
in situ oligonucleotide, [Eh_Eia520620F_Ei] Affymetrix Entamoeba invadens Array, EIN_nnnn identifiers represent TIGR locus_tag |
| 8 |
GPL14609 |
[Eh_Eia520620F_Eh] Custom Entamoeba histolytica Eh_Eia520620F_Eh Array |
9,327 |
National Institute of Infectious Diseases |
2011-09-22 |
Affymetrix |
Entamoeba histolytica
 |
GeneChip |
in situ oligonucleotide, [Eh_Eia520620F_Eh] Custom Entamoeba histolytica Eh_Eia520620F_Eh Array, |
| 9 |
GPL13770 |
[Drosophila_2] Affymetrix Drosophila Genome 2.0 Array [CDF : Brainarray ENSEMBL Custom V12] |
12,861 |
NCBI/NLM/NIH |
2011-06-27 |
Affymetrix |
Drosophila melanogaster
 |
GeneChip |
in situ oligonucleotide, [Drosophila_2] Affymetrix Drosophila Genome 2.0 Array [CDF : Brainarray ENSEMBL Custom V12], Affymetrix submissions are typically submitted to GEO using the GEOarchive method described at http://www.ncbi.nlm.nih.gov/projects/geo/info/geo_affy.html This is identical to GPL1322 but a custom CDF environment was used to extract data [Brainarray Version 12, Drosophila2_Dm_ENSG]. CDF and other files can be downloaded at:http://brainarray.mbni.med.umich.edu/Brainarray/Database/CustomCDF/genomic_curated_CDF.asp |
| 10 |
GPL1322 |
[Drosophila_2] Affymetrix Drosophila Genome 2.0 Array |
18,952 |
Affymetrix, Inc. |
2004-07-01 |
Affymetrix |
Drosophila melanogaster
|
GeneChip |
in situ oligonucleotide, [Drosophila_2] Affymetrix Drosophila Genome 2.0 Array, Affymetrix submissions are typically submitted to GEO using the GEOarchive method described at http://www.ncbi.nlm.nih.gov/projects/geo/info/geo_affy.html June 03, 2009: annotation table updated with netaffx build 28 June 08, 2012: annotation table updated with netaffx build 32 |
| 11 |
GPL72 |
[DrosGenome1] Affymetrix Drosophila Genome Array |
14,010 |
Affymetrix, Inc. |
2002-02-19 |
Affymetrix |
Drosophila melanogaster
|
GeneChip |
in situ oligonucleotide, [DrosGenome1] Affymetrix Drosophila Genome Array, Affymetrix submissions are typically submitted to GEO using the GEOarchive method described at http://www.ncbi.nlm.nih.gov/projects/geo/info/geo_affy.html Has 14010 entries and was indexed 29-Jan-2002 The sequences used to develop this array are accessible through FlyBase. Probes were synthesized in situ. Contains >13,500 gene sequences predicted from annotation of the Drosophila genome version 1, >8000 sequences for which confirming EST or full-length cDNA evidence is available, ~3,000 genes identified using prediction algorithms, and ~2,500 genes that not only have a gene predicted algorithmically, but also show some homology to genes from other organisms. For ~4,000 genes, expressed sequence alignment information from the Drosophila Gene Collection was used to modify the boundaries of the predicted transcript. In these cases, the probe sets correspond to the modified exon boundaries. In addition, several hundred ESTs close to predicted gene sequences, but lying outside of predetermined gene inclusion boundaries, are included. Keywords = high density oligonucleotide array |
| 12 |
GPL6629 |
[DM_tiling2_MR] Affymetrix Drosophila Tiling 2.0R Array |
0 |
Affymetrix, Inc. |
2008-03-19 |
Affymetrix |
Drosophila melanogaster
|
Tiling Array |
in situ oligonucleotide, [DM_tiling2_MR] Affymetrix Drosophila Tiling 2.0R Array, Tiling array submissions are typically submitted to GEO using the GEOarchive method described at http://www.ncbi.nlm.nih.gov/projects/geo/info/geo_affy.html The Drosophila Tiling 2.0R Array builds on the content of its predecessor and includes additional sequences that have since become available through the Berkeley Drosophila Genome Project (BDGP). The majority of the new sequences are located in the heterochromatin regions of the Drosophila genome. Based on BDGP genome release 5 25-mer oligonucleotide probes interrogate the entire genome with an average 38-base-pair spacing BPMAP and other files can be downloaded from the Affymetrix Web site below. |
| 13 |
GPL7774 |
[DM_5chip_5] Affymetrix GeneChip Drosophila Tiling 7BP Array 5 |
0 |
Cold Spring Harbor Labs |
2008-12-11 |
Affymetrix |
Drosophila melanogaster
|
Tiling Array |
in situ oligonucleotide, [DM_5chip_5] Affymetrix GeneChip Drosophila Tiling 7BP Array 5, *** Note: Before submitting Affymetrix hybridization Sample data based on the Drosophila Tiling 7BP Array, please contact us at geo@ncbi.nlm.nih.gov for additional instructions. Based on BDGP genome release 5 25-mer oligonucleotide probes interrogate the entire genome with an average 7-base-pair spacing "1lq format" files submitted in lieu of platform data table. 1lq Format information: ftp://ftp1.nci.nih.gov/pub/CGAP/transcriptome/sci_21_22_paper/format_1lq.html |
| 14 |
GPL7773 |
[DM_5chip_4] Affymetrix GeneChip Drosophila Tiling 7BP Array 4 |
0 |
Cold Spring Harbor Labs |
2008-12-11 |
Affymetrix |
Drosophila melanogaster
|
Tiling Array |
in situ oligonucleotide, [DM_5chip_4] Affymetrix GeneChip Drosophila Tiling 7BP Array 4, *** Note: Before submitting Affymetrix hybridization Sample data based on the Drosophila Tiling 7BP Array, please contact us at geo@ncbi.nlm.nih.gov for additional instructions. Based on BDGP genome release 5 25-mer oligonucleotide probes interrogate the entire genome with an average 7-base-pair spacing "1lq format" files submitted in lieu of platform data table. 1lq Format information: ftp://ftp1.nci.nih.gov/pub/CGAP/transcriptome/sci_21_22_paper/format_1lq.html |
| 15 |
GPL7772 |
[DM_5chip_3] Affymetrix GeneChip Drosophila Tiling 7BP Array 3 |
0 |
Cold Spring Harbor Labs |
2008-12-11 |
Affymetrix |
Drosophila melanogaster
|
Tiling Array |
in situ oligonucleotide, [DM_5chip_3] Affymetrix GeneChip Drosophila Tiling 7BP Array 3, *** Note: Before submitting Affymetrix hybridization Sample data based on the Drosophila Tiling 7BP Array, please contact us at geo@ncbi.nlm.nih.gov for additional instructions. Based on BDGP genome release 5 25-mer oligonucleotide probes interrogate the entire genome with an average 7-base-pair spacing "1lq format" files submitted in lieu of platform data table. 1lq Format information: ftp://ftp1.nci.nih.gov/pub/CGAP/transcriptome/sci_21_22_paper/format_1lq.html |
| 16 |
GPL7771 |
[DM_5chip_2] Affymetrix GeneChip Drosophila Tiling 7BP Array 2 |
0 |
Cold Spring Harbor Labs |
2008-12-11 |
Affymetrix |
Drosophila melanogaster
|
Tiling Array |
in situ oligonucleotide, [DM_5chip_2] Affymetrix GeneChip Drosophila Tiling 7BP Array 2, *** Note: Before submitting Affymetrix hybridization Sample data based on the Drosophila Tiling 7BP Array, please contact us at geo@ncbi.nlm.nih.gov for additional instructions. Based on BDGP genome release 5 25-mer oligonucleotide probes interrogate the entire genome with an average 7-base-pair spacing "1lq format" files submitted in lieu of platform data table. 1lq Format information: ftp://ftp1.nci.nih.gov/pub/CGAP/transcriptome/sci_21_22_paper/format_1lq.html |
| 17 |
GPL7770 |
[DM_5chip_1] Affymetrix GeneChip Drosophila Tiling 7BP Array 1 |
0 |
Cold Spring Harbor Labs |
2008-12-11 |
Affymetrix |
Drosophila melanogaster
|
Tiling Array |
in situ oligonucleotide, [DM_5chip_1] Affymetrix GeneChip Drosophila Tiling 7BP Array 1, *** Note: Before submitting Affymetrix hybridization Sample data based on the Drosophila Tiling 7BP Array, please contact us at geo@ncbi.nlm.nih.gov for additional instructions. Based on BDGP genome release 5 25-mer oligonucleotide probes interrogate the entire genome with an average 7-base-pair spacing "1lq format" files submitted in lieu of platform data table. 1lq Format information: ftp://ftp1.nci.nih.gov/pub/CGAP/transcriptome/sci_21_22_paper/format_1lq.html |
| 18 |
GPL5919 |
[Dm35b_MR] Affymetrix Drosophila Tiling 1.0R Array |
0 |
Affymetrix, Inc. |
2007-09-21 |
Affymetrix |
Drosophila melanogaster
|
Tiling Array |
in situ oligonucleotide, [Dm35b_MR] Affymetrix Drosophila Tiling 1.0R Array, Tiling array submissions are typically submitted to GEO using the GEOarchive method described at http://www.ncbi.nlm.nih.gov/projects/geo/info/geo_affy.html This is the first generation of the Drosophila 1.0R Tiling Arrays. The Drosophila Tiling 1.0R Array uses 25-mer oligonucleotide probes, spaced evenly across the Drosophila genome at intervals of approximately 35 base pairs as measured from the center of a probe to the center position of the adjacent probe. Repetitive sequences were eliminated from the design using RepeatMasker software. BPMAP and other files can be downloaded from the Affymetrix Web site below. |
| 19 |
GPL11397 |
[Dm35b_MF] Affymetrix Drosophila Tiling 1.0F Array |
0 |
Affymetrix, Inc. |
2011-01-07 |
Affymetrix |
Drosophila melanogaster
|
Tiling Array |
in situ oligonucleotide, [Dm35b_MF] Affymetrix Drosophila Tiling 1.0F Array, Tiling array submissions are typically submitted to GEO using the GEOarchive method described at http://www.ncbi.nlm.nih.gov/projects/geo/info/geo_affy.html This is the first generation of the Drosophila 1.0F Tiling Arrays. The Drosophila Tiling 1.0F Array uses 25-mer oligonucleotide probes, spaced evenly across the Drosophila genome at intervals of approximately 35 base pairs as measured from the center of a probe to the center position of the adjacent probe. Repetitive sequences were eliminated from the design using RepeatMasker software. BPMAP and other files can be downloaded from the Affymetrix Web site below. |
| 20 |
GPL15657 |
[CINT06a520380F] Affymetrix Ciona intestinalis custom-designed array |
30,969 |
University of Arizona |
2012-06-04 |
Affymetrix |
Ciona intestinalis
 |
GeneChip |
in situ oligonucleotide, [CINT06a520380F] Affymetrix Ciona intestinalis custom-designed array, Probe identifiers: There are a few different types of probe identifiers, including: * MKG.<number>.<number>_s<OptionalNumber>_at * Fis_ciad<number>_at * TGxxxxx_at * Gastxxx_at * Zellerxxx_at A probe identifier in the format MKG.7.115_s_at indicates that this probe targets the gene model KYOTOGRAIL2005.7.115 described in the http://aniseed.cnrs.fr database. The suffixes s0, s1, s2, etc. signify different "supplemental" gene models for the same locus. The Aniseed transcript model pages for these models are located at URLs such as: http://www.aniseed.cnrs.fr/molecule-gene.php?name=KYOTOGRAIL2005.7.115.1 The Fis and TG probe identifiers refer to additional gene models based on EST data that were not covered by the KyotoGrail predictions. A probe identifier like Fis_ciad008l03 is based on a full-insert sequence. These have been submitted to GenBank and can be found in the GenBank EST section, e.g., http://www.ncbi.nlm.nih.gov/nucest?term=ciad008l03 . The GastmiR and ZellerMiR identifiers are probe sets against Ciona microRNAs models. The models were generated by the labs of Terry Gaasterland (UCSD) and Robert Zeller (SDSU), respectively. Gene identifiers: The Platform table includes a "jgi1_GeneID" column with JGI1 gene model identifiers. JGI1 identifiers have the format ci0100<number>. Further information on these JGI1 gene models can be found at URLs such as: http://genome.jgi-psf.org/cgi-bin/dispGeneModel?db=ciona4&id=142570 http://ghost.zool.kyoto-u.ac.jp/cgi-bin/gb2/gbrowse/kh/?name=mRNA%3Aci0100142570;dbid=clone%3Adatabase http://www.aniseed.cnrs.fr/molecule-gene.php?name=ci0100142570 This array is also described in ArrayExpress (http://www.ebi.ac.uk/arrayexpress/arrays/A-AFFY-106). The oligonucleotide sequences are available in the supplementary file GPL15657_probe.fa.gz. |