Welcome to the NuGO R-server!

Latest modifications

30 September 2009:


Bioconductor support libraries for NuGO

On this page, you can find R/Bioconductor libraries for Unix/Linux and Windows:
1. Bioconductor support libraries for the human and mouse NuGO arrays.
2. Bioconductor annotation libraries for the Affymetrix Gene Titan system.
3. Custom Chip Definition Files (CDFs) for the human and mouse NuGO arrays.
4. Custom Chip Definition Files (CDFs) for all other supported human, mouse, and rat species (annotation libraries only).

Remark on installing the NuGO array support files:
For a single species, you need to download three files: the annotation, cdf, and probe packages. For example: mmnugomm1a520177mmentrezg_9.0.1.zip, mmnugomm1a520177mmentrezgcdf_9.0.1.zip, and mmnugomm1a520177mmentrezgprobe_9.0.1.zip for the NuGO customCDF mouse arrays.

The custom CDF files are identical to the ones from the MBNI website, EXCEPT that the annotation libraries are complete (instead of containing only the genenames). That is the reason why all available human, mouse and rat Custom CDF annotation libraries (for Bioconductor) are available for download here.

REMARK: we decided to use the ENTREZ Custom CDF-files for the following reasons:
Off course, you are free to use one of the other formats, e.g. ENSEMBL, but I will not supply Bioconductor annotation libraries for those custom CDFs.

Installation instructions

For Windows: download the appropriate .zip-files from the tables below. In R, go to Packages => Install package(s) from local zip-files... Browse to the location where you downloaded your .zip-files and select the files you want to install. Done!

For Unix/Linux: download the appropriate .tar.gz files from the tables below. cd to the directory where you downloaded your .tar.gz files and execute the following command (multiple times for multiple .tar.gz files): R CMD INSTALL <your downloaded.tar.gz file>.

Download tables

1.Human and mouse NuGO array support files (Affymetrix CDF; standard; .db annotation approach).
The probe and CDF-libraries are the same as under table 6. The annotation packages are rebuilt using the .db annotation approach (but using the same input files as version 1.0.4).
Affymetrix array type Linux/Unix
Windows
Supported R/BioC versions
Human NuGO Array (nugohs1a520180)
nugohs1a520180.db_1.0.5.tar.gz
nugohs1a520180.db_1.0.5.zip
>=R-2.7.0 and >=Bioconductor-2.2
Human NuGO Array (nugohs1a520180) nugohs1a520180cdf_1.0.4.tar.gz
nugohs1a520180cdf_1.0.4.zip
>=R-2.7.0 and >=Bioconductor-2.2
Human NuGO Array (nugohs1a520180) nugohs1a520180probe_1.0.4.tar.gz
nugohs1a520180probe_1.0.4.zip
>=R-2.7.0 and >=Bioconductor-2.2
Mouse NuGO Array (nugomm1a520177)
nugomm1a520177.db_1.0.5.tar.gz
nugomm1a520177.db_1.0.5.zip
>=R-2.7.0 and >=Bioconductor-2.2
Mouse NuGO Array (nugomm1a520177) nugomm1a520177cdf_1.0.4.tar.gz
nugomm1a520177cdf_1.0.4.zip
>=R-2.7.0 and >=Bioconductor-2.2
Mouse NuGO Array (nugomm1a520177) nugomm1a520177probe_1.0.4.tar.gz
nugomm1a520177probe_1.0.4.zip
>=R-2.7.0 and >=Bioconductor-2.2

2. Human and mouse NuGO array support files (VERSION 12.0.0; MBNI Custom CDF; 2 August 2009).
Here, also the CDF and PROBE libraries are available for download. To obtain full NuGO array support, you need to download and install all three libraries for each species!
Affymetrix array type Linux/Unix Windows Supported R/BioC versions
Human NuGO array (nugohs1a520180)
nugohs1a520180hsentrezg.db_12.0.0.tar.gz
nugohs1a520180hsentrezg.db_12.0.0.zip
>=R-2.9.1 and >= BioC-2.4
Human NuGO array (nugohs1a520180) nugohs1a520180hsentrezgcdf_12.0.0.tar.gz nugohs1a520180hsentrezgcdf_12.0.0.zip >=R-2.9.1 and >= BioC-2.4
Human NuGO array (nugohs1a520180) nugohs1a520180hsentrezgprobe_12.0.0.tar.gz nugohs1a520180hsentrezgprobe_12.0.0.zip >=R-2.9.1 and >= BioC-2.4
Mouse NuGO array (nugomm1a520177)
nugomm1a520177mmentrezg.db_12.0.0.tar.gz
nugomm1a520177mmentrezg.db_12.0.0.zip
>=R-2.9.1 and >= BioC-2.4
Mouse NuGO array (nugomm1a520177) nugomm1a520177mmentrezgcdf_12.0.0.tar.gz nugomm1a520177mmentrezgcdf_12.0.0.zip >=R-2.9.1 and >= BioC-2.4
Mouse NuGO array (nugomm1a520177) nugomm1a520177mmentrezgprobe_12.0.0.tar.gz nugomm1a520177mmentrezgprobe_12.0.0.zip >=R-2.9.1 and >= BioC-2.4

3. Affymetrix annotation libraries for the GeneTitan plate arrays (ht* arrays). I named it to version 12.0.0 to make it in agreement with the CustomCDF annotation libraries (30 September 2009).
    The reason is that I will update all annotation libraries at the same time, so utilizing the same version numbers is more convenient. The cdf and probe libraries are available
    at the Bioconductor website. The hthgu133a.db and hthgu133b.db libraries INCLUDES the Affymetrix control probes (as opposed to the official Bioconductor packages)!
Affymetrix array type (GeneTitan plates)
Linux/Unix
Windows
Supported R/BioC versions
Human: Gene Titan hgu133a plates (hthgu133a)
hthgu133a.db_12.0.0.tar.gz
hthgu133a.db_12.0.0.zip
>=R-2.9.1 and >= BioC-2.4
Human: Gene Titan hgu133a plates (hthgu133b) hthgu133b.db_12.0.0.tar.gz hthgu133b.db_12.0.0.zip >=R-2.9.1 and >= BioC-2.4
Human: Gene Titan hgu133pluspm plates (hthgu133pluspm) hthgu133pluspm.db_12.0.0.tar.gz hthgu133pluspm.db_12.0.0.zip >=R-2.9.1 and >= BioC-2.4
Mouse:  Gene Titan mg430a plates (htmg430a)
htmg430a.db_12.0.0.tar.gz htmg430a.db_12.0.0.zip
>=R-2.9.1 and >= BioC-2.4
Mouse:  Gene Titan mg430b plates (htmg430b) htmg430b.db_12.0.0.tar.gz htmg430b.db_12.0.0.zip >=R-2.9.1 and >= BioC-2.4
Mouse:  Gene Titan mg430pm plates (htmg430pm) htmg430pm.db_12.0.0.tar.gz htmg430pm.db_12.0.0.zip >=R-2.9.1 and >= BioC-2.4
Rat:       Gene Titan ratfocus plates (htratfocus)
htratfocus.db_12.0.0.tar.gz htratfocus.db_12.0.0.zip
>=R-2.9.1 and >= BioC-2.4
Rat:       Gene Titan rat230pm plates (htrat230pm) htrat230pm.db_12.0.0.tar.gz htrat230pm.db_12.0.0.zip
>=R-2.9.1 and >= BioC-2.4

4. Annotation libraries for the MBNI Custom CDF annotation files (VERSION 12.0.0; updated 30 September 2009).
    The CDF and PROBE libraries are available at the MBNI website. To obtain full Custom CDF support, you need to download and install all three libraries for each species!
Affymetrix array type
Linux/Unix
Windows
Supported R/BioC versions
Arabidopsis thaliana (ath1121501attairg)
ath1121501attairg.db_12.0.0.tar.gz
ath1121501attairg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Arabidopsis thaliana (tilingatsnptilx520433attairg) tilingatsnptilx520433attairg.db_12.0.0.tar.gz
tilingatsnptilx520433attairg.db_12.0.0.zip >=R-2.9.1 and >=Bioconductor-2.4
Homo sapiens hgfocus
hgfocushsentrezg.db_12.0.0.tar.gz
hgfocushsentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Homo sapiens hgu133a2
hgu133a2hsentrezg.db_12.0.0.tar.gz
hgu133a2hsentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Homo sapiens hgu133a
hgu133ahsentrezg.db_12.0.0.tar.gz
hgu133ahsentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Homo sapiens hthgu133a (GeneTitan plates)
hthgu133ahsentrezg.db_12.0.0.tar.gz hthgu133ahsentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Homo Sapiens hgu133b
hgu133bhsentrezg.db_12.0.0.tar.gz
hgu133bhsentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Homo sapiens hthgu133b (GeneTitan plates) hthgu133bhsentrezg.db_12.0.0.tar.gz hthgu133bhsentrezg.db_12.0.0.zip >=R-2.9.1 and >=Bioconductor-2.4
Homo Sapiens hgu133plus2
hgu133plus2hsentrezg.db_12.0.0.tar.gz
hgu133plus2hsentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Homo sapiens hthgu133pluspm (GeneTitan plates) hthgu133pluspmhsentrezg.db_12.0.0.tar.gz hthgu133pluspmhsentrezg.db_12.0.0.zip >=R-2.9.1 and >=Bioconductor-2.4
Homo Sapiens hgu95av2
hgu95av2hsentrezg.db_12.0.0.tar.gz
hgu95av2hsentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Homo Sapiens hgu95b
hgu95bhsentrezg.db_12.0.0.tar.gz
hgu95bhsentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Homo Sapiens hgu95c
hgu95chsentrezg.db_12.0.0.tar.gz
hgu95chsentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Homo Sapiens hgu95d
hgu95dhsentrezg.db_12.0.0.tar.gz
hgu95dhsentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Homo Sapiens hgu95e
hgu95ehsentrezg.db_12.0.0.tar.gz
hgu95ehsentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Homo sapiens 133x3p
u133x3phsentrezg.db_12.0.0.tar.gz
u133x3phsentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Homo sapiens hugene10stv1
hugene10stv1hsentrezg.db_12.0.0.tar.gz
hugene10stv1hsentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Homo sapiens huex10stv2
huex10stv2hsentrezg.db_12.0.0.tar.gz
huex10stv2hsentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Mus musculus mgu74av2
mgu74av2mmentrezg.db_12.0.0.tar.gz
mgu74av2mmentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Mus musculus mgu74bv2
mgu74bv2mmentrezg.db_12.0.0.tar.gz
mgu74bv2mmentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Mus musculus mgu74cv2
mgu74cv2mmentrezg.db_12.0.0.tar.gz
mgu74cv2mmentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Mus musculus moe430a
moe430ammentrezg.db_12.0.0.tar.gz
moe430ammentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Mus musculus htmg430a (GeneTitan plates)
htmg430ammentrezg.db_12.0.0.tar.gz htmg430ammentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Mus musculus moe430b
moe430bmmentrezg.db_12.0.0.tar.gz
moe430bmmentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Mus musculus htmg430b (GeneTitan plates) htmg430bmmentrezg.db_12.0.0.tar.gz htmg430bmmentrezg.db_12.0.0.zip >=R-2.9.1 and >=Bioconductor-2.4
Mus musculus moe430a2
mouse430a2mmentrezg.db_12.0.0.tar.gz
mouse430a2mmentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Mus musculus mouse4302
mouse4302mmentrezg.db_12.0.0.tar.gz
mouse4302mmentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Mus musculus htmg430pm (GeneTitan plates)
htmg430pmmmentrezg.db_12.0.0.tar.gz htmg430pmmmentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Mus musculus mogene10stv1
mogene10stv1mmentrezg.db_12.0.0.tar.gz
mogene10stv1mmentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Mus musculus moex10stv1
moex10stv1mmentrezg.db_12.0.0.tar.gz
moex10stv1mmentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Rattus norvegicus rae230a
rae230arnentrezg.db_12.0.0.tar.gz
rae230arnentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Rattus norvegicus rae230b
rae230brnentrezg.db_12.0.0.tar.gz
rae230brnentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Rattus norvegicus rat2302
rat2302rnentrezg.db_12.0.0.tar.gz
rat2302rnentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Rattus norvegicus htrat230pm (GeneTitan plates)
htrat230pmrnentrezg.db_12.0.0.tar.gz htrat230pmrnentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Rattus norvegicus rgu34a
rgu34arnentrezg.db_12.0.0.tar.gz
rgu34arnentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Rattus norvegicus rgu34b
rgu34brnentrezg.db_12.0.0.tar.gz
rgu34brnentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Rattus norvegicus rgu34c
rgu34crnentrezg.db_12.0.0.tar.gz
rgu34crnentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Rattus norvegicus ragene10stv1
ragene10stv1rnentrezg.db_12.0.0.tar.gz
ragene10stv1rnentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Rattus norvegicus raex10stv1
raex10stv1rnentrezg.db_12.0.0.tar.gz
raex10stv1rnentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4
Rattus norvegicus htratfocus (GeneTitan plates)
htratfocusrnentrezg.db_12.0.0.tar.gz htratfocusrnentrezg.db_12.0.0.zip
>=R-2.9.1 and >=Bioconductor-2.4

5. Human and mouse NuGO array support files (VERSION 11.0.0; MBNI Custom CDF; .db annotation approach; strongly advised!).
Here, also the CDF and PROBE libraries are available for download. To obtain full NuGO array support, you need to download and install all three libraries for each species!
NOTE: compared to the previous custom CDF-versions (<=10.0.0), the Custom CDF annotation library naming scheme has been adapted!!
Affymetrix array type Linux/Unix Windows Supported R/BioC versions
Human NuGO array (nugohs1a520180)
Update 28 October 2008
Update 22 July 2009
hsnugohs1a520180hsentrezg.db_11.0.0.tar.gz
hsnugohs1a520180hsentrezg.db_11.0.2.tar.gz
hsnugohs1a520180hsentrezg.db_11.0.3.tar.gz
hsnugohs1a520180hsentrezg.db_11.0.0.zip
hsnugohs1a520180hsentrezg.db_11.0.2.zip
hsnugohs1a520180hsentrezg.db_11.0.3.zip
>=R-2.7.0 and >= BioC-2.2
>=R-2.8.0 and >= BioC-2.3
>=R-2.9.0 and >= BioC-2.4
Human NuGO array (nugohs1a520180) hsnugohs1a520180hsentrezgcdf_11.0.0.tar.gz hsnugohs1a520180hsentrezgcdf_11.0.0.zip >=R-2.7.0 and >= BioC-2.2
Human NuGO array (nugohs1a520180) hsnugohs1a520180hsentrezgprobe_11.0.0.tar.gz hsnugohs1a520180hsentrezgprobe_11.0.0.zip >=R-2.7.0 and >= BioC-2.2
Mouse NuGO array (nugomm1a520177)
Update 28 October 2008
Update 22 July 2009
mmnugomm1a520177mmentrezg.db_11.0.0.tar.gz
mmnugomm1a520177mmentrezg.db_11.0.2.tar.gz
mmnugomm1a520177mmentrezg.db_11.0.3.tar.gz
mmnugomm1a520177mmentrezg.db_11.0.0.zip
mmnugomm1a520177mmentrezg.db_11.0.2.zip
mmnugomm1a520177mmentrezg.db_11.0.3.zip
>=R-2.7.0 and >= BioC-2.2
>=R-2.8.0 and >= BioC-2.3
>=R-2.9.0 and >= BioC-2.4
Mouse NuGO array (nugomm1a520177) mmnugomm1a520177mmentrezgcdf_11.0.0.tar.gz mmnugomm1a520177mmentrezgcdf_11.0.0.zip >=R-2.7.0 and >= BioC-2.2
Mouse NuGO array (nugomm1a520177) mmnugomm1a520177mmentrezgprobe_11.0.0.tar.gz mmnugomm1a520177mmentrezgprobe_11.0.0.zip >=R-2.7.0 and >= BioC-2.2

6. 28 October 2008: Updated annotation libraries for the MBNI Custom CDF annotation files (VERSION 11.0.0; .db annotation approach).
    The CDF and PROBE libraries are available at the MBNI website. To obtain full Custom CDF support, you need to download and install all three libraries for each species!
Affymetrix array type
Linux/Unix
Windows
Supported R/BioC versions
Arabidopsis thaliana (ath1121501attaircdf v11.0.0)
Arabidopsis thaliana (ath1121501attaircdf v11.0.1)
Update 22 July 2009 (ath1121501attairgcdf v11.0.1)
ath1121501attair.db_11.0.2.tar.gz
ath1121501attair.db_11.0.3.tar.gz
ath1121501attairg.db_11.0.5.tar.gz
ath1121501attair.db_11.0.2.zip
ath1121501attair.db_11.0.3.zip
ath1121501attairg.db_11.0.5.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Homo sapiens hgfocus
Update 22 July 2009
hgfocushsentrezg.db_11.0.2.tar.gz
hgfocushsentrezg.db_11.0.3.tar.gz
hgfocushsentrezg.db_11.0.2.zip
hgfocushsentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Homo sapiens hgu133a2
Update 22 July 2009
hgu133a2hsentrezg.db_11.0.2.tar.gz
hgu133a2hsentrezg.db_11.0.3.tar.gz
hgu133a2hsentrezg.db_11.0.2.zip
hgu133a2hsentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Homo sapiens hgu133a
Update 22 July 2009
hgu133ahsentrezg.db_11.0.2.tar.gz
hgu133ahsentrezg.db_11.0.3.tar.gz
hgu133ahsentrezg.db_11.0.2.zip
hgu133ahsentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Homo Sapiens hgu133b
Update 22 July 2009
hgu133bhsentrezg.db_11.0.2.tar.gz
hgu133bhsentrezg.db_11.0.3.tar.gz
hgu133bhsentrezg.db_11.0.2.zip
hgu133bhsentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Homo Sapiens hgu133plus2
Update 22 July 2009
hgu133plus2hsentrezg.db_11.0.2.tar.gz
hgu133plus2hsentrezg.db_11.0.3.tar.gz
hgu133plus2hsentrezg.db_11.0.2.zip
hgu133plus2hsentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Homo Sapiens hgu95av2
Update 22 July 2009
hgu95av2hsentrezg.db_11.0.2.tar.gz
hgu95av2hsentrezg.db_11.0.3.tar.gz
hgu95av2hsentrezg.db_11.0.2.zip
hgu95av2hsentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Homo Sapiens hgu95b
Update 22 July 2009
hgu95bhsentrezg.db_11.0.2.tar.gz
hgu95bhsentrezg.db_11.0.3.tar.gz
hgu95bhsentrezg.db_11.0.2.zip
hgu95bhsentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Homo Sapiens hgu95c
Update 22 July 2009
hgu95chsentrezg.db_11.0.2.tar.gz
hgu95chsentrezg.db_11.0.3.tar.gz
hgu95chsentrezg.db_11.0.2.zip
hgu95chsentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Homo Sapiens hgu95d
Update 22 July 2009
hgu95dhsentrezg.db_11.0.2.tar.gz
hgu95dhsentrezg.db_11.0.3.tar.gz
hgu95dhsentrezg.db_11.0.2.zip
hgu95dhsentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Homo Sapiens hgu95e
Update 22 July 2009
hgu95ehsentrezg.db_11.0.2.tar.gz
hgu95ehsentrezg.db_11.0.3.tar.gz
hgu95ehsentrezg.db_11.0.2.zip
hgu95ehsentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Homo sapiens 133x3p
Update 22 July 2009
u133x3phsentrezg.db_11.0.2.tar.gz
u133x3phsentrezg.db_11.0.3.tar.gz
u133x3phsentrezg.db_11.0.2.zip
u133x3phsentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Homo sapiens hugene10stv1
Update 22 July 2009
hugene10stv1hsentrezg.db_11.0.2.tar.gz
hugene10stv1hsentrezg.db_11.0.3.tar.gz
hugene10stv1hsentrezg.db_11.0.2.zip
hugene10stv1hsentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Homo sapiens huex10stv2 (CDF version 11.0.1!)
Update 22 July 2009
huex10stv2hsentrezg.db_11.0.2.tar.gz
huex10stv2hsentrezg.db_11.0.3.tar.gz
huex10stv2hsentrezg.db_11.0.2.zip
huex10stv2hsentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Mus musculus mgu74av2
Update 22 July 2009
mgu74av2mmentrezg.db_11.0.2.tar.gz
mgu74av2mmentrezg.db_11.0.3.tar.gz
mgu74av2mmentrezg.db_11.0.2.zip
mgu74av2mmentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Mus musculus mgu74bv2
Update 22 July 2009
mgu74bv2mmentrezg.db_11.0.2.tar.gz
mgu74bv2mmentrezg.db_11.0.3.tar.gz
mgu74bv2mmentrezg.db_11.0.2.zip
mgu74bv2mmentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Mus musculus mgu74cv2
Update 22 July 2009
mgu74cv2mmentrezg.db_11.0.2.tar.gz
mgu74cv2mmentrezg.db_11.0.3.tar.gz
mgu74cv2mmentrezg.db_11.0.2.zip
mgu74cv2mmentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Mus musculus moe430a
Update 22 July 2009
moe430ammentrezg.db_11.0.2.tar.gz
moe430ammentrezg.db_11.0.3.tar.gz
moe430ammentrezg.db_11.0.2.zip
moe430ammentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Mus musculus moe430b
Update 22 July 2009
moe430bmmentrezg.db_11.0.2.tar.gz
moe430bmmentrezg.db_11.0.3.tar.gz
moe430bmmentrezg.db_11.0.2.zip
moe430bmmentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Mus musculus moe430a2
Update 22 July 2009
mouse430a2mmentrezg.db_11.0.2.tar.gz
mouse430a2mmentrezg.db_11.0.3.tar.gz
mouse430a2mmentrezg.db_11.0.2.zip
mouse430a2mmentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Mus musculus mouse4302
Update 22 July 2009
mouse4302mmentrezg.db_11.0.2.tar.gz
mouse4302mmentrezg.db_11.0.3.tar.gz
mouse4302mmentrezg.db_11.0.2.zip
mouse4302mmentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Mus musculus mogene10stv1
Update 22 July 2009
mogene10stv1mmentrezg.db_11.0.2.tar.gz
mogene10stv1mmentrezg.db_11.0.3.tar.gz
mogene10stv1mmentrezg.db_11.0.2.zip
mogene10stv1mmentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Mus musculus moex10stv1 (CDF version 11.0.1!)
Update 22 July 2009
moex10stv1mmentrezg.db_11.0.2.tar.gz
moex10stv1mmentrezg.db_11.0.3.tar.gz
moex10stv1mmentrezg.db_11.0.2.zip
moex10stv1mmentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Rattus norvegicus rae230a
Update 22 July 2009
rae230arnentrezg.db_11.0.2.tar.gz
rae230arnentrezg.db_11.0.3.tar.gz
rae230arnentrezg.db_11.0.2.zip
rae230arnentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Rattus norvegicus rae230b
Update 22 July 2009
rae230brnentrezg.db_11.0.2.tar.gz
rae230brnentrezg.db_11.0.3.tar.gz
rae230brnentrezg.db_11.0.2.zip
rae230brnentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Rattus norvegicus rat2302
Update 22 July 2009
rat2302rnentrezg.db_11.0.2.tar.gz
rat2302rnentrezg.db_11.0.3.tar.gz
rat2302rnentrezg.db_11.0.2.zip
rat2302rnentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Rattus norvegicus rgu34a
Update 22 July 2009
rgu34arnentrezg.db_11.0.2.tar.gz
rgu34arnentrezg.db_11.0.3.tar.gz
rgu34arnentrezg.db_11.0.2.zip
rgu34arnentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Rattus norvegicus rgu34b
Update 22 July 2009
rgu34brnentrezg.db_11.0.2.tar.gz
rgu34brnentrezg.db_11.0.3.tar.gz
rgu34brnentrezg.db_11.0.2.zip
rgu34brnentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Rattus norvegicus rgu34c
Update 22 July 2009
rgu34crnentrezg.db_11.0.2.tar.gz
rgu34crnentrezg.db_11.0.3.tar.gz
rgu34crnentrezg.db_11.0.2.zip
rgu34crnentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Rattus norvegicus ragene10stv1
Update 22 July 2009
ragene10stv1rnentrezg.db_11.0.2.tar.gz
ragene10stv1rnentrezg.db_11.0.3.tar.gz
ragene10stv1rnentrezg.db_11.0.2.zip
ragene10stv1rnentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4
Rattus norvegicus raex10stv1 (CDF version 11.0.1!)
Update 22 July 2009
raex10stv1rnentrezg.db_11.0.2.tar.gz
raex10stv1rnentrezg.db_11.0.3.tar.gz
raex10stv1rnentrezg.db_11.0.2.zip
raex10stv1rnentrezg.db_11.0.3.zip
>=R-2.8.0 and >=Bioconductor-2.3
>=R-2.9.0 and >=Bioconductor-2.4

7. MBNI Custom CDF annotation files (VERSION 11.0.0; .db annotation approach).
The CDF and PROBE libraries are available at the MBNI website. To obtain full Custom CDF support, you need to download and install all three libraries for each species!
NOTE: compared to the previous custom CDF-versions (<=10.0.0), the Custom CDF annotation library naming scheme has been adapted!!
Affymetrix array type
Linux/Unix
Windows
Supported R/BioC versions
Homo sapiens hgfocus
hgfocushsentrezg.db_11.0.0.tar.gz hgfocushsentrezg.db_11.0.0.zip >=R-2.7.0 and >=Bioconductor-2.2
Homo sapiens hgu133a2
hgu133a2hsentrezg.db_11.0.0.tar.gz
hgu133a2hsentrezg.db_11.0.0.zip >=R-2.7.0 and >=Bioconductor-2.2
Homo sapiens hgu133a
hgu133ahsentrezg.db_11.0.0.tar.gz
hgu133ahsentrezg.db_11.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Homo Sapiens hgu133b hgu133bhsentrezg.db_11.0.0.tar.gz
hgu133bhsentrezg.db_11.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Homo Sapiens hgu133plus2
hgu133plus2hsentrezg.db_11.0.0.tar.gz
hgu133plus2hsentrezg.db_11.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Homo Sapiens hgu95av2
hgu95av2hsentrezg.db_11.0.0.tar.gz
hgu95av2hsentrezg.db_11.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Homo Sapiens hgu95b hgu95bhsentrezg.db_11.0.0.tar.gz hgu95bhsentrezg.db_11.0.0.zip >=R-2.7.0 and >=Bioconductor-2.2
Homo Sapiens hgu95c hgu95chsentrezg.db_11.0.0.tar.gz hgu95chsentrezg.db_11.0.0.zip >=R-2.7.0 and >=Bioconductor-2.2
Homo Sapiens hgu95d hgu95dhsentrezg.db_11.0.0.tar.gz hgu95dhsentrezg.db_11.0.0.zip >=R-2.7.0 and >=Bioconductor-2.2
Homo Sapiens hgu95e hgu95ehsentrezg.db_11.0.0.tar.gz hgu95ehsentrezg.db_11.0.0.zip >=R-2.7.0 and >=Bioconductor-2.2
Homo sapiens 133x3p
u133x3phsentrezg.db_11.0.0.tar.gz u133x3phsentrezg.db_11.0.0.zip >=R-2.7.0 and >=Bioconductor-2.2
Mus musculus mgu74av2
mgu74av2mmentrezg.db_11.0.0.tar.gz
mgu74av2mmentrezg.db_11.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Mus musculus mgu74bv2 mgu74bv2mmentrezg.db_11.0.0.tar.gz
mgu74bv2mmentrezg.db_11.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Mus musculus mgu74cv2 mgu74cv2mmentrezg.db_11.0.0.tar.gz
mgu74cv2mmentrezg.db_11.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Mus musculus moe430a moe430ammentrezg.db_11.0.0.tar.gz
moe430ammentrezg.db_11.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Mus musculus moe430b
moe430bmmentrezg.db_11.0.0.tar.gz
moe430bmmentrezg.db_11.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Mus musculus moe430a2 mouse430a2mmentrezg.db_11.0.0.tar.gz
mouse430a2mmentrezg.db_11.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Mus musculus mouse4302 mouse4302mmentrezg.db_11.0.0.tar.gz
mouse4302mmentrezg.db_11.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Rattus norvegicus rae230a
rae230arnentrezg.db_11.0.0.tar.gz
rae230arnentrezg.db_11.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Rattus norvegicus rae230b rae230brnentrezg.db_11.0.0.tar.gz
rae230brnentrezg.db_11.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Rattus norvegicus rat2302 rat2302rnentrezg.db_11.0.0.tar.gz
rat2302rnentrezg.db_11.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Rattus norvegicus rgu34a
rgu34arnentrezg.db_11.0.0.tar.gz
rgu34arnentrezg.db_11.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Rattus norvegicus rgu34b rgu34brnentrezg.db_11.0.0.tar.gz rgu34brnentrezg.db_11.0.0.zip >=R-2.7.0 and >=Bioconductor-2.2
Rattus norvegicus rgu34c rgu34crnentrezg.db_11.0.0.tar.gz rgu34crnentrezg.db_11.0.0.zip >=R-2.7.0 and >=Bioconductor-2.2

8. Human and mouse NuGO array support files (VERSION 10.0.0; MBNI Custom CDF; .db annotation approach; strongly advised!).
The probe and CDF-libraries are the same as under table 9. The annotation packages are rebuilt using the .db annotation approach.
Here, also the CDF and PROBE libraries are available for download. To obtain full NuGO array support, you need to download and install all three libraries for each species!
Affymetrix array type Linux/Unix Windows Supported R/BioC versions
Human NuGO array (nugohs1a520180) hsnugohs1a520180hsentrezg.db_10.0.0.tar.gz
hsnugohs1a520180hsentrezg.db_10.0.0.zip >=R-2.7.0 and >= BioC-2.2
Human NuGO array (nugohs1a520180) hsnugohs1a520180hsentrezgcdf_10.0.0.tar.gz hsnugohs1a520180hsentrezgcdf_10.0.0.zip >=R-2.7.0 and >= BioC-2.2
Human NuGO array (nugohs1a520180) hsnugohs1a520180hsentrezgprobe_10.0.0.tar.gz hsnugohs1a520180hsentrezgprobe_10.0.0.zip >=R-2.7.0 and >= BioC-2.2
Mouse NuGO array (nugomm1a520177) mmnugomm1a520177mmentrezg.db_10.0.0.tar.gz mmnugomm1a520177mmentrezg.db_10.0.0.zip >=R-2.7.0 and >= BioC-2.2
Mouse NuGO array (nugomm1a520177) mmnugomm1a520177mmentrezgcdf_10.0.0.tar.gz mmnugomm1a520177mmentrezgcdf_10.0.0.zip >=R-2.7.0 and >= BioC-2.2
Mouse NuGO array (nugomm1a520177) mmnugomm1a520177mmentrezgprobe_10.0.0.tar.gz mmnugomm1a520177mmentrezgprobe_10.0.0.zip >=R-2.7.0 and >= BioC-2.2

9. MBNI Custom CDF annotation files (VERSION 10.0.0; .db annotation approach).
The CDF and PROBE libraries are available at the MBNI website. To obtain full Custom CDF support, you need to download and install all three libraries for each species!
Affymetrix array type
Linux/Unix
Windows
Supported R/BioC versions
Arabidopsis thaliana (ATH1ATTAIR)
(Update 5 November 2008)
ath1attair.db_10.0.0.tar.gz
ath1attair.db_10.0.1.tar.gz
ath1attair.db_10.0.0.zip
ath1attair.db_10.0.1.zip
>=R-2.7.0 and >=Bioconductor-2.2
>=R-2.8.0 and >=Bioconductor-2.3
Homo sapiens HGFOCUS
hsfocushsentrezg.db_10.0.0.tar.gz hsfocushsentrezg.db_10.0.0.zip >=R-2.7.0 and >=Bioconductor-2.2
Homo sapiens HS133A
hs133ahsentrezg.db_10.0.0.tar.gz
hs133ahsentrezg.db_10.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Homo Sapiens HS133AV2
hs133av2hsentrezg.db_10.0.0.tar.gz
hs133av2hsentrezg.db_10.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Homo Sapiens HS133B hs133bhsentrezg.db_10.0.0.tar.gz
hs133bhsentrezg.db_10.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Homo Sapiens HGU133PLUS2
hs133phsentrezg.db_10.0.0.tar.gz
hs133phsentrezg.db_10.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Homo Sapiens HGU95AV2
hs95av2hsentrezg.db_10.0.0.tar.gz
hs95av2hsentrezg.db_10.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Homo sapiens U133X3P
hs133xhsentrezg.db_10.0.0.tar.gz hs133xhsentrezg.db_10.0.0.zip >=R-2.7.0 and >=Bioconductor-2.2
Mus musculus MOE430A2
mm430a2mmentrezg.db_10.0.0.tar.gz
mm430a2mmentrezg.db_10.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Mus musculus MOE430A mm430ammentrezg.db_10.0.0.tar.gz
mm430ammentrezg.db_10.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Mus musculus MOE430B mm430bmmentrezg.db_10.0.0.tar.gz
mm430bmmentrezg.db_10.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Mus musculus MOE430PLUS2 mm430mmentrezg.db_10.0.0.tar.gz
mm430mmentrezg.db_10.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Mus musculus MGU74AV1
mm74av1mmentrezg.db_10.0.0.tar.gz
mm74av1mmentrezg.db_10.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Mus musculus MGU74AV2 mm74av2mmentrezg.db_10.0.0.tar.gz
mm74av2mmentrezg.db_10.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Mus musculus MGU74BV2 mm74bv2mmentrezg.db_10.0.0.tar.gz
mm74bv2mmentrezg.db_10.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Mus musculus MGU74CV2 mm74cv2mmentrezg.db_10.0.0.tar.gz
mm74cv2mmentrezg.db_10.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Rattus norvegicus RN230A
rn230arnentrezg.db_10.0.0.tar.gz
rn230arnentrezg.db_10.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Rattus norvegicus RN230B rn230brnentrezg.db_10.0.0.tar.gz
rn230brnentrezg.db_10.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Rattus norvegicus RN230 rn230rnentrezg.db_10.0.0.tar.gz
rn230rnentrezg.db_10.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2
Rattus norvegicus RN34A
rn34arnentrezg.db_10.0.0.tar.gz
rn34arnentrezg.db_10.0.0.zip
>=R-2.7.0 and >=Bioconductor-2.2

10. Human and mouse NuGO array support files (Affymetrix CDF; standard).
Although the libraries are compiled for R-2.5.1/Bioconductor 2.0, it should work fine in R-2.5.0 or R-2.6.0 and Bioconductor 2.0 and 2.1.
Affymetrix array type Linux/Unix
Windows
Supported R/BioC versions
Human NuGO Array (nugohs1a520180)
nugohs1a520180_1.0.4.tar.gz
nugohs1a520180_1.0.4.zip
>=R-2.5.0 and >=Bioconductor-2.0
Human NuGO Array (nugohs1a520180) nugohs1a520180cdf_1.0.4.tar.gz
nugohs1a520180cdf_1.0.4.zip
>=R-2.5.0 and >=Bioconductor-2.0
Human NuGO Array (nugohs1a520180) nugohs1a520180probe_1.0.4.tar.gz
nugohs1a520180probe_1.0.4.zip
>=R-2.5.0 and >=Bioconductor-2.0
Mouse NuGO Array (nugomm1a520177)
nugomm1a520177_1.0.4.tar.gz
nugomm1a520177_1.0.4.zip
>=R-2.5.0 and >=Bioconductor-2.0
Mouse NuGO Array (nugomm1a520177) nugomm1a520177cdf_1.0.4.tar.gz
nugomm1a520177cdf_1.0.4.zip
>=R-2.5.0 and >=Bioconductor-2.0
Mouse NuGO Array (nugomm1a520177) nugomm1a520177probe_1.0.4.tar.gz
nugomm1a520177probe_1.0.4.zip
>=R-2.5.0 and >=Bioconductor-2.0

11. Human and mouse NuGO array support files (VERSION 10.0.0; MBNI Custom CDF; strongly advised!).
Although the libraries are compiled for R-2.6.0/Bioconductor 2.1, it should work fine in R-2.5.0 or R-2.5.1 and Bioconductor 2.0.
Here, also the CDF and PROBE libraries are available for download. To obtain full NuGO array support, you need to download and install all three libraries for each species!
Affymetrix array type Linux/Unix Windows Intended R/BioC versions
Human NuGO array (nugohs1a520180) hsnugohs1a520180hsentrezg_10.0.0.tar.gz
hsnugohs1a520180hsentrezg_10.0.0.zip R-2.6.0 and Bioconductor-2.1
Human NuGO array (nugohs1a520180) hsnugohs1a520180hsentrezgcdf_10.0.0.tar.gz hsnugohs1a520180hsentrezgcdf_10.0.0.zip R-2.6.0 and Bioconductor-2.1
Human NuGO array (nugohs1a520180) hsnugohs1a520180hsentrezgprobe_10.0.0.tar.gz hsnugohs1a520180hsentrezgprobe_10.0.0.zip R-2.6.0 and Bioconductor-2.1
Mouse NuGO array (nugomm1a520177) mmnugomm1a520177mmentrezg_10.0.0.tar.gz mmnugomm1a520177mmentrezg_10.0.0.zip R-2.6.0 and Bioconductor-2.1
Mouse NuGO array (nugomm1a520177) mmnugomm1a520177mmentrezgcdf_10.0.0.tar.gz mmnugomm1a520177mmentrezgcdf_10.0.0.zip R-2.6.0 and Bioconductor-2.1
Mouse NuGO array (nugomm1a520177) mmnugomm1a520177mmentrezgprobe_10.0.0.tar.gz mmnugomm1a520177mmentrezgprobe_10.0.0.zip R-2.6.0 and Bioconductor-2.1

12. MBNI Custom CDF annotation files (VERSION 10.0.0).
Although the libraries are compiled for R-2.6.0/Bioconductor 2.1, it should work fine in R-2.5.0 or R-2.5.1 and Bioconductor 2.0.
The CDF and PROBE libraries are available at the MBNI website. To obtain full Custom CDF support, you need to download and install all three libraries for each species!
Affymetrix array type
Linux/Unix
Windows
Intended R/BioC versions
Homo sapiens HGFOCUS
hsfocushsentrezg_10.0.0.tar.gz hsfocushsentrezg_10.0.0.zip R-2.6.2 and Bioconductor-2.1 (!!)
Homo sapiens HS133A
hs133ahsentrezg_10.0.0.tar.gz
hs133ahsentrezg_10.0.0.zip
R-2.6.0 and Bioconductor-2.1
Homo Sapiens HS133AV2
hs133av2hsentrezg_10.0.0.tar.gz
hs133av2hsentrezg_10.0.0.zip
R-2.6.0 and Bioconductor-2.1
Homo Sapiens HS133B hs133bhsentrezg_10.0.0.tar.gz
hs133bhsentrezg_10.0.0.zip
R-2.6.0 and Bioconductor-2.1
Homo Sapiens HGU133PLUS2
hs133phsentrezg_10.0.0.tar.gz
hs133phsentrezg_10.0.0.zip
R-2.6.0 and Bioconductor-2.1
Homo Sapiens HGU95AV2
hs95av2hsentrezg_10.0.0.tar.gz
hs95av2hsentrezg_10.0.0.zip
R-2.6.0 and Bioconductor-2.1
Mus musculus MOE430A2
mm430a2mmentrezg_10.0.0.tar.gz
mm430a2mmentrezg_10.0.0.zip
R-2.6.0 and Bioconductor-2.1
Mus musculus MOE430A mm430ammentrezg_10.0.0.tar.gz
mm430ammentrezg_10.0.0.zip
R-2.6.0 and Bioconductor-2.1
Mus musculus MOE430B mm430bmmentrezg_10.0.0.tar.gz
mm430bmmentrezg_10.0.0.zip
R-2.6.0 and Bioconductor-2.1
Mus musculus MOE430PLUS2 mm430mmentrezg_10.0.0.tar.gz
mm430mmentrezg_10.0.0.zip
R-2.6.0 and Bioconductor-2.1
Mus musculus MGU74AV1
mm74av1mmentrezg_10.0.0.tar.gz
mm74av1mmentrezg_10.0.0.zip
R-2.6.0 and Bioconductor-2.1
Mus musculus MGU74AV2 mm74av2mmentrezg_10.0.0.tar.gz
mm74av2mmentrezg_10.0.0.zip
R-2.6.0 and Bioconductor-2.1
Mus musculus MGU74BV2 mm74bv2mmentrezg_10.0.0.tar.gz
mm74bv2mmentrezg_10.0.0.zip
R-2.6.0 and Bioconductor-2.1
Mus musculus MGU74CV2 mm74cv2mmentrezg_10.0.0.tar.gz
mm74cv2mmentrezg_10.0.0.zip
R-2.6.0 and Bioconductor-2.1
Rattus norvegicus RN230A
rn230arnentrezg_10.0.0.tar.gz
rn230arnentrezg_10.0.0.zip
R-2.6.0 and Bioconductor-2.1
Rattus norvegicus RN230B rn230brnentrezg_10.0.0.tar.gz
rn230brnentrezg_10.0.0.zip
R-2.6.0 and Bioconductor-2.1
Rattus norvegicus RN230 rn230rnentrezg_10.0.0.tar.gz
rn230rnentrezg_10.0.0.zip
R-2.6.0 and Bioconductor-2.1
Rattus norvegicus RN34A
rn34arnentrezg_10.0.0.tar.gz
rn34arnentrezg_10.0.0.zip
R-2.6.0 and Bioconductor-2.1

13. Human and mouse NuGO array support files (VERSION 9.0.1; MBNI Custom CDF; strongly advised!)
Although the libraries are compiled for R-2.5.1/Bioconductor 2.0, it should work fine in R-2.5.0 or R-2.6.0 and Bioconductor 2.0 and 2.1
Here, also the CDF and PROBE libraries are available for download. To obtain full NuGO array support, you need to download and install all three libraries for each species!
Affymetrix array type Linux/Unix Windows Supported R/BioC versions
Human NuGO array (nugohs1a520180) hsnugohs1a520180hsentrezg_9.0.1.tar.gz
hsnugohs1a520180hsentrezg_9.0.1.zip >=R-2.5.0 and >=Bioconductor-2.0
Human NuGO array (nugohs1a520180) hsnugohs1a520180hsentrezgcdf_9.0.1.tar.gz hsnugohs1a520180hsentrezgcdf_9.0.1.zip >=R-2.5.0 and >=Bioconductor-2.0
Human NuGO array (nugohs1a520180) hsnugohs1a520180hsentrezgprobe_9.0.1.tar.gz hsnugohs1a520180hsentrezgprobe_9.0.1.zip >=R-2.5.0 and >=Bioconductor-2.0
Mouse NuGO array (nugomm1a520177) mmnugomm1a520177mmentrezg_9.0.1.tar.gz mmnugomm1a520177mmentrezg_9.0.1.zip >=R-2.5.0 and >=Bioconductor-2.0
Mouse NuGO array (nugomm1a520177) mmnugomm1a520177mmentrezgcdf_9.0.1.tar.gz mmnugomm1a520177mmentrezgcdf_9.0.1.zip >=R-2.5.0 and >=Bioconductor-2.0
Mouse NuGO array (nugomm1a520177) mmnugomm1a520177mmentrezgprobe_9.0.1.tar.gz mmnugomm1a520177mmentrezgprobe_9.0.1.zip >=R-2.5.0 and >=Bioconductor-2.0

14. MBNI Custom CDF annotation files (VERSION 9.0.1).
Although the libraries are compiled for R-2.5.1/Bioconductor 2.0, it should work fine in R-2.5.0 or R-2.6.0 and Bioconductor 2.0 and 2.1
The CDF and PROBE libraries are available at the MBNI website. To obtain full Custom CDF support, you need to download and install all three libraries for each species!
Affymetrix array type
Linux/Unix
Windows
Supported R/BioC versions
Homo sapiens HS133A
hs133ahsentrezg_9.0.1.tar.gz
hs133ahsentrezg_9.0.1.zip
>=R-2.5.0 and >=Bioconductor-2.0
Homo Sapiens HS133AV2
hs133av2hsentrezg_9.0.1.tar.gz
hs133av2hsentrezg_9.0.1.zip
>=R-2.5.0 and >=Bioconductor-2.0
Homo Sapiens HS133B hs133bhsentrezg_9.0.1.tar.gz
hs133bhsentrezg_9.0.1.zip
>=R-2.5.0 and >=Bioconductor-2.0
Homo Sapiens HGU133PLUS2
hs133phsentrezg_9.0.1.tar.gz
hs133phsentrezg_9.0.1.zip
>=R-2.5.0 and >=Bioconductor-2.0
Homo Sapiens HGU95AV2
hs95av2hsentrezg_9.0.1.tar.gz
hs95av2hsentrezg_9.0.1.zip
>=R-2.5.0 and >=Bioconductor-2.0
Mus musculus MOE430A2
mm430a2mmentrezg_9.0.1.tar.gz
mm430a2mmentrezg_9.0.1.zip
>=R-2.5.0 and >=Bioconductor-2.0
Mus musculus MOE430A mm430ammentrezg_9.0.1.tar.gz
mm430ammentrezg_9.0.1.zip
>=R-2.5.0 and >=Bioconductor-2.0
Mus musculus MOE430B mm430bmmentrezg_9.0.1.tar.gz
mm430bmmentrezg_9.0.1.zip
>=R-2.5.0 and >=Bioconductor-2.0
Mus musculus MOE430PLUS2 mm430mmentrezg_9.0.1.tar.gz
mm430mmentrezg_9.0.1.zip
>=R-2.5.0 and >=Bioconductor-2.0
Mus musculus MGU74AV1
mm74av1mmentrezg_9.0.1.tar.gz
mm74av1mmentrezg_9.0.1.zip
>=R-2.5.0 and >=Bioconductor-2.0
Mus musculus MGU74AV2 mm74av2mmentrezg_9.0.1.tar.gz
mm74av2mmentrezg_9.0.1.zip
>=R-2.5.0 and >=Bioconductor-2.0
Mus musculus MGU74BV2 mm74bv2mmentrezg_9.0.1.tar.gz
mm74bv2mmentrezg_9.0.1.zip
>=R-2.5.0 and >=Bioconductor-2.0
Mus musculus MGU74CV2 mm74cv2mmentrezg_9.0.1.tar.gz
mm74cv2mmentrezg_9.0.1.zip
>=R-2.5.0 and >=Bioconductor-2.0
Rattus norvegicus RN230A
rn230arnentrezg_9.0.1.tar.gz
rn230arnentrezg_9.0.1.zip
>=R-2.5.0 and >=Bioconductor-2.0
Rattus norvegicus RN230B rn230brnentrezg_9.0.1.tar.gz
rn230brnentrezg_9.0.1.zip
>=R-2.5.0 and >=Bioconductor-2.0
Rattus norvegicus RN230 rn230rnentrezg_9.0.1.tar.gz
rn230rnentrezg_9.0.1.zip
>=R-2.5.0 and >=Bioconductor-2.0
Rattus norvegicus RN34A
rn34arnentrezg_9.0.1.tar.gz
rn34arnentrezg_9.0.1.zip
>=R-2.5.0 and >=Bioconductor-2.0

Concluding remark:

If the annotation library that you need is lacking or if you are using an older version of R/BioC and cannot upgrade: please sent an email to me inquiring about the availability of supported arrays (see the bottom of this page for contact information).

A few words on the new annotation approach (R>=2.7.0 and Bioconductor >=2.2)

As from R-2.7.0 (Bioconductor 2.2), the annotation packages are no longer created as so-called 'environments', but are provided as database (.db) packages utilizing SQLite. That is: in R-2.7.0 (Bioconductor 2.2) you are still allowed to use the 'old-fashioned' environment annotation packages, but you'll get an 'deprecated warning' everytime you use them. In the next R/Bioconductor release, support for annotation environments are simply discarded! Therefore, I recommend to switch to the .db (database) packages. In principle, only minor changes are required for existing scripts to use the new annotation approach. For example, instead of loading e.g. 'library(mouse4302)' you need to call 'library(mouse4302.db)'. That's it! All other functions still work as you are used to because wrappers are available to hide the underlying database commands. For the die-hards: the wrappers have a performance price, as reported in the following snippet from the Bioconductor mailing list (Thu 17 April 2008):

If you want the SQLite-based packages to be close to the same speed as
the environment packages, you probably won't be able to use the
convenience functions that were written to allow naive users to get
similar results with the SQLite packages. Things like get(), mget(), etc
will probably always be slower than a directed SQL query.

 > library(GO)
 > sam <- sample(ls(GOTERM), 5000)
 > system.time(mget(sam, GOTERM))
    user  system elapsed
    0.02    0.00    0.02

 > library(GO.db)

 > sam <- sample(ls(GOTERM), 5000)
 > system.time( mget(sam, GOTERM))
    user  system elapsed
    5.25    0.02    5.27

 > samvec <- paste(paste("'", sam, "'", sep = ""), collapse = ",")
 > sql <- paste("SELECT term FROM go_term WHERE go_id IN (",samvec,");")
 > system.time(dbGetQuery(GO_dbconn(), sql))
    user  system elapsed
    0.09    0.01    0.11

See the vignette in the devel version of AnnotationDbi for more
information about these packages.

Contact:

Dr. Philip de Groot PhD
Nutrition, Metabolism and Genomics group
Division of Human Nutrition
Wageningen University
PO Box 8129
6700 EV Wageningen
The Netherlands
Phone: +31-317-485786
Fax:     +31-317-483342
Philip.deGroot@wur.nl


Update history:

2 August 2009:
22 July 2009:

13 January 2009:

5 November 2008:

28 October 2008:

22 October 2008:

18 June 2008:
10 June 2008:

9 June 2008:

21 april 2008:

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