June 03, 2009: annotation table updated with netaffx build 28 June 21, 2012: annotation table updated with netaffx build 32 July 06, 2016: annotation table updated with netaffx build 35
Global transcriptomic profiling of lactacystin-mediated neuronal death
Data table header descriptions
ID
Affymetrix Probe Set ID
GB_ACC
GenBank Accession Number
SPOT_ID
identifies controls
Species Scientific Name
The genus and species of the organism represented by the probe set.
Annotation Date
The date that the annotations for this probe array were last updated. It will generally be earlier than the date when the annotations were posted on the Affymetrix web site.
Sequence Type
Sequence Source
The database from which the sequence used to design this probe set was taken.
Target Description
Representative Public ID
The accession number of a representative sequence. Note that for consensus-based probe sets, the representative sequence is only one of several sequences (sequence sub-clusters) used to build the consensus sequence and it is not directly used to derive the probe sequences. The representative sequence is chosen during array design as a sequence that is best associated with the transcribed region being interrogated by the probe set. Refer to the "Sequence Source" field to determine the database used.
Gene Title
Title of Gene represented by the probe set.
Gene Symbol
A gene symbol, when one is available (from UniGene).
ENTREZ_GENE_ID
Entrez Gene Database UID
RefSeq Transcript ID
References to multiple sequences in RefSeq. The field contains the ID and Description for each entry, and there can be multiple entries per ProbeSet.
Gene Ontology Biological Process
Gene Ontology Consortium Biological Process derived from LocusLink. Each annotation consists of three parts: "Accession Number // Description // Evidence". The description corresponds directly to the GO ID. The evidence can be "direct", or "extended".
Gene Ontology Cellular Component
Gene Ontology Consortium Cellular Component derived from LocusLink. Each annotation consists of three parts: "Accession Number // Description // Evidence". The description corresponds directly to the GO ID. The evidence can be "direct", or "extended".
Gene Ontology Molecular Function
Gene Ontology Consortium Molecular Function derived from LocusLink. Each annotation consists of three parts: "Accession Number // Description // Evidence". The description corresponds directly to the GO ID. The evidence can be "direct", or "extended".
0016020 // membrane // inferred from electronic annotation /// 0016021 // integral component of membrane // inferred from electronic annotation /// 0030133 // transport vesicle // not recorded
0007163 // establishment or maintenance of cell polarity // not recorded /// 0007166 // cell surface receptor signaling pathway // not recorded /// 0015031 // protein transport // not recorded /// 0070228 // regulation of lymphocyte apoptotic process // not recorded
0016020 // membrane // inferred from electronic annotation /// 0016021 // integral component of membrane // inferred from electronic annotation /// 0042105 // alpha-beta T cell receptor complex // inferred from direct assay
0004888 // transmembrane signaling receptor activity // not recorded /// 0005515 // protein binding // inferred from physical interaction /// 0046982 // protein heterodimerization activity // not recorded
0001666 // response to hypoxia // not recorded /// 0003151 // outflow tract morphogenesis // inferred from mutant phenotype /// 0006810 // transport // inferred from electronic annotation /// 0006811 // ion transport // inferred from electronic annotation /// 0006816 // calcium ion transport // inferred from direct assay /// 0006816 // calcium ion transport // not recorded /// 0006874 // cellular calcium ion homeostasis // inferred from electronic annotation /// 0006936 // muscle contraction // inferred from direct assay /// 0006936 // muscle contraction // inferred from mutant phenotype /// 0006937 // regulation of muscle contraction // traceable author statement /// 0007275 // multicellular organismal development // inferred from electronic annotation /// 0014808 // release of sequestered calcium ion into cytosol by sarcoplasmic reticulum // inferred from mutant phenotype /// 0031000 // response to caffeine // not recorded /// 0034765 // regulation of ion transmembrane transport // inferred from direct assay /// 0043588 // skin development // inferred from mutant phenotype /// 0043931 // ossification involved in bone maturation // inferred from mutant phenotype /// 0048741 // skeletal muscle fiber development // inferred from mutant phenotype /// 0051209 // release of sequestered calcium ion into cytosol // inferred from mutant phenotype /// 0051209 // release of sequestered calcium ion into cytosol // not recorded /// 0051480 // cytosolic calcium ion homeostasis // not recorded /// 0055085 // transmembrane transport // inferred from electronic annotation /// 0070296 // sarcoplasmic reticulum calcium ion transport // not recorded /// 0070588 // calcium ion transmembrane transport // inferred from mutant phenotype /// 0071313 // cellular response to caffeine // inferred from mutant phenotype
0005622 // intracellular // inferred from mutant phenotype /// 0005623 // cell // inferred from mutant phenotype /// 0005737 // cytoplasm // not recorded /// 0005790 // smooth endoplasmic reticulum // inferred from direct assay /// 0005886 // plasma membrane // not recorded /// 0005938 // cell cortex // not recorded /// 0016020 // membrane // inferred from direct assay /// 0016021 // integral component of membrane // inferred from electronic annotation /// 0016529 // sarcoplasmic reticulum // inferred from direct assay /// 0016529 // sarcoplasmic reticulum // not recorded /// 0030314 // junctional membrane complex // inferred from direct assay /// 0030315 // T-tubule // inferred from direct assay /// 0031234 // extrinsic component of cytoplasmic side of plasma membrane // not recorded /// 0031674 // I band // not recorded /// 0033017 // sarcoplasmic reticulum membrane // inferred from direct assay /// 0033017 // sarcoplasmic reticulum membrane // not recorded /// 0042383 // sarcolemma // not recorded /// 0043234 // protein complex // inferred from direct assay /// 0070062 // extracellular vesicular exosome // not recorded
0002020 // protease binding // inferred from physical interaction /// 0005216 // ion channel activity // inferred from electronic annotation /// 0005219 // ryanodine-sensitive calcium-release channel activity // inferred from mutant phenotype /// 0005219 // ryanodine-sensitive calcium-release channel activity // not recorded /// 0005245 // voltage-gated calcium channel activity // inferred from direct assay /// 0005262 // calcium channel activity // inferred from mutant phenotype /// 0005509 // calcium ion binding // inferred from electronic annotation /// 0005515 // protein binding // inferred from physical interaction /// 0005516 // calmodulin binding // inferred from electronic annotation /// 0019899 // enzyme binding // inferred from physical interaction
0000077 // DNA damage checkpoint // not recorded /// 0006974 // cellular response to DNA damage stimulus // inferred from electronic annotation /// 0016180 // snRNA processing // not recorded /// 0071479 // cellular response to ionizing radiation // not recorded
0005634 // nucleus // inferred from electronic annotation /// 0005694 // chromosome // not recorded /// 0032039 // integrator complex // not recorded
0005488 // binding // inferred from electronic annotation /// 0005515 // protein binding // inferred from electronic annotation
0006915 // apoptotic process // inferred from electronic annotation /// 0007165 // signal transduction // inferred from electronic annotation /// 0007250 // activation of NF-kappaB-inducing kinase activity // inferred from electronic annotation /// 0007275 // multicellular organismal development // inferred from electronic annotation /// 0007585 // respiratory gaseous exchange // inferred from mutant phenotype /// 0016567 // protein ubiquitination // inferred from electronic annotation /// 0030323 // respiratory tube development // inferred from mutant phenotype /// 0042981 // regulation of apoptotic process // inferred from electronic annotation /// 0045860 // positive regulation of protein kinase activity // not recorded /// 0046330 // positive regulation of JNK cascade // not recorded /// 0090073 // positive regulation of protein homodimerization activity // not recorded
0005634 // nucleus // not recorded /// 0005737 // cytoplasm // not recorded /// 0005856 // cytoskeleton // inferred from electronic annotation /// 0005886 // plasma membrane // inferred from electronic annotation /// 0005923 // tight junction // inferred from electronic annotation /// 0016020 // membrane // inferred from electronic annotation /// 0030054 // cell junction // inferred from electronic annotation /// 0048471 // perinuclear region of cytoplasm // inferred from electronic annotation
0004842 // ubiquitin-protein transferase activity // inferred from electronic annotation /// 0005515 // protein binding // inferred from electronic annotation /// 0008270 // zinc ion binding // inferred from electronic annotation /// 0019901 // protein kinase binding // inferred from physical interaction /// 0031625 // ubiquitin protein ligase binding // not recorded /// 0031996 // thioesterase binding // not recorded /// 0046872 // metal ion binding // inferred from electronic annotation /// 0050699 // WW domain binding // not recorded
0005737 // cytoplasm // inferred from direct assay /// 0005886 // plasma membrane // inferred from direct assay /// 0016020 // membrane // inferred from electronic annotation /// 0016021 // integral component of membrane // inferred from electronic annotation
0005509 // calcium ion binding // inferred from electronic annotation /// 0046872 // metal ion binding // inferred from electronic annotation
0000122 // negative regulation of transcription from RNA polymerase II promoter // not recorded /// 0006351 // transcription, DNA-templated // inferred from electronic annotation /// 0006355 // regulation of transcription, DNA-templated // inferred from electronic annotation
0005634 // nucleus // not recorded
0003714 // transcription corepressor activity // not recorded /// 0005515 // protein binding // inferred from electronic annotation /// 0008134 // transcription factor binding // not recorded /// 0008766 // UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diaminopimelate-D-alanyl-D-alanine ligase activity // inferred from electronic annotation /// 0016874 // ligase activity // inferred from electronic annotation /// 0018169 // ribosomal S6-glutamic acid ligase activity // inferred from electronic annotation /// 0043773 // coenzyme F420-0 gamma-glutamyl ligase activity // inferred from electronic annotation /// 0043774 // coenzyme F420-2 alpha-glutamyl ligase activity // inferred from electronic annotation /// 0046872 // metal ion binding // inferred from electronic annotation /// 0070735 // protein-glycine ligase activity // inferred from electronic annotation /// 0070736 // protein-glycine ligase activity, initiating // inferred from electronic annotation /// 0070737 // protein-glycine ligase activity, elongating // inferred from electronic annotation /// 0070738 // tubulin-glycine ligase activity // inferred from electronic annotation /// 0070739 // protein-glutamic acid ligase activity // inferred from electronic annotation /// 0070740 // tubulin-glutamic acid ligase activity // inferred from electronic annotation
0000122 // negative regulation of transcription from RNA polymerase II promoter // inferred from genetic interaction /// 0001649 // osteoblast differentiation // not recorded /// 0001654 // eye development // inferred from electronic annotation /// 0001708 // cell fate specification // inferred from mutant phenotype /// 0001714 // endodermal cell fate specification // not recorded /// 0002052 // positive regulation of neuroblast proliferation // inferred from mutant phenotype /// 0006351 // transcription, DNA-templated // inferred from electronic annotation /// 0006355 // regulation of transcription, DNA-templated // inferred from direct assay /// 0006355 // regulation of transcription, DNA-templated // not recorded /// 0006357 // regulation of transcription from RNA polymerase II promoter // inferred from direct assay /// 0006366 // transcription from RNA polymerase II promoter // not recorded /// 0007050 // cell cycle arrest // not recorded /// 0007275 // multicellular organismal development // inferred from electronic annotation /// 0007605 // sensory perception of sound // inferred from mutant phenotype /// 0009611 // response to wounding // inferred from electronic annotation /// 0010033 // response to organic substance // inferred from direct assay /// 0010468 // regulation of gene expression // not recorded /// 0019827 // stem cell maintenance // inferred from mutant phenotype /// 0021879 // forebrain neuron differentiation // inferred from mutant phenotype /// 0021983 // pituitary gland development // inferred from electronic annotation /// 0021984 // adenohypophysis development // inferred from mutant phenotype /// 0021987 // cerebral cortex development // inferred from mutant phenotype /// 0030178 // negative regulation of Wnt signaling pathway // inferred from genetic interaction /// 0030539 // male genitalia development // inferred from mutant phenotype /// 0030858 // positive regulation of epithelial cell differentiation // inferred from direct assay /// 0030900 // forebrain development // inferred from electronic annotation /// 0030910 // olfactory placode formation // inferred from genetic interaction /// 0032526 // response to retinoic acid // inferred from direct assay /// 0035019 // somatic stem cell maintenance // not recorded /// 0042472 // inner ear morphogenesis // inferred from mutant phenotype /// 0043281 // regulation of cysteine-type endopeptidase activity involved in apoptotic process // not recorded /// 0043410 // positive regulation of MAPK cascade // not recorded /// 0043586 // tongue development // inferred from mutant phenotype /// 0045165 // cell fate commitment // inferred from direct assay /// 0045596 // negative regulation of cell differentiation // inferred from mutant phenotype /// 0045665 // negative regulation of neuron differentiation // inferred from direct assay /// 0045666 // positive regulation of neuron differentiation // inferred from mutant phenotype /// 0045668 // negative regulation of osteoblast differentiation // inferred from direct assay /// 0045747 // positive regulation of Notch signaling pathway // inferred from direct assay /// 0045893 // positive regulation of transcription, DNA-templated // not recorded /// 0045944 // positive regulation of transcription from RNA polymerase II promoter // inferred from direct assay /// 0045944 // positive regulation of transcription from RNA polymerase II promoter // inferred from genetic interaction /// 0045944 // positive regulation of transcription from RNA polymerase II promoter // inferred from mutant phenotype /// 0045944 // positive regulation of transcription from RNA polymerase II promoter // not recorded /// 0046148 // pigment biosynthetic process // inferred from mutant phenotype /// 0048286 // lung alveolus development // inferred from direct assay /// 0048568 // embryonic organ development // inferred from mutant phenotype /// 0048646 // anatomical structure formation involved in morphogenesis // inferred from mutant phenotype /// 0048663 // neuron fate commitment // inferred from mutant phenotype /// 0048839 // inner ear development // inferred from electronic annotation /// 0048852 // diencephalon morphogenesis // inferred from mutant phenotype /// 0048863 // stem cell differentiation // inferred from direct assay /// 0050680 // negative regulation of epithelial cell proliferation // not recorded /// 0050767 // regulation of neurogenesis // inferred from genetic interaction /// 0050910 // detection of mechanical stimulus involved in sensory perception of sound // inferred from mutant phenotype /// 0050973 // detection of mechanical stimulus involved in equilibrioception // inferred from mutant phenotype /// 0060042 // retina morphogenesis in camera-type eye // inferred from mutant phenotype /// 0060235 // lens induction in camera-type eye // inferred from genetic interaction /// 0060441 // epithelial tube branching involved in lung morphogenesis // inferred from direct assay /// 0070848 // response to growth factor // not recorded /// 0090090 // negative regulation of canonical Wnt signaling pathway // inferred from direct assay /// 0090090 // negative regulation of canonical Wnt signaling pathway // not recorded /// 0097150 // neuronal stem cell maintenance // inferred from genetic interaction
0005634 // nucleus // inferred by curator /// 0005634 // nucleus // inferred from direct assay /// 0005634 // nucleus // not recorded /// 0005667 // transcription factor complex // inferred from direct assay /// 0005737 // cytoplasm // inferred from direct assay /// 0005737 // cytoplasm // not recorded /// 0005829 // cytosol // not recorded /// 0044798 // nuclear transcription factor complex // inferred from direct assay
0000976 // transcription regulatory region sequence-specific DNA binding // not recorded /// 0000981 // sequence-specific DNA binding RNA polymerase II transcription factor activity // inferred from direct assay /// 0001077 // RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription // not recorded /// 0003677 // DNA binding // inferred from direct assay /// 0003677 // DNA binding // inferred from genetic interaction /// 0003677 // DNA binding // not recorded /// 0003682 // chromatin binding // inferred from direct assay /// 0003700 // sequence-specific DNA binding transcription factor activity // inferred from direct assay /// 0003700 // sequence-specific DNA binding transcription factor activity // not recorded /// 0005515 // protein binding // inferred from physical interaction /// 0008134 // transcription factor binding // inferred from physical interaction /// 0035198 // miRNA binding // not recorded /// 0043565 // sequence-specific DNA binding // inferred from direct assay /// 0043565 // sequence-specific DNA binding // not recorded /// 0044212 // transcription regulatory region DNA binding // inferred from direct assay /// 0044212 // transcription regulatory region DNA binding // not recorded /// 0046982 // protein heterodimerization activity // inferred from direct assay
0006351 // transcription, DNA-templated // inferred from electronic annotation /// 0006355 // regulation of transcription, DNA-templated // inferred from electronic annotation /// 1901653 // cellular response to peptide // inferred from electronic annotation
0005634 // nucleus // inferred from electronic annotation
0003676 // nucleic acid binding // inferred from electronic annotation /// 0003677 // DNA binding // inferred from sequence or structural similarity /// 0046872 // metal ion binding // inferred from electronic annotation
0006351 // transcription, DNA-templated // inferred from electronic annotation /// 0006355 // regulation of transcription, DNA-templated // inferred from electronic annotation /// 1901653 // cellular response to peptide // inferred from electronic annotation
0005634 // nucleus // inferred from electronic annotation
0003676 // nucleic acid binding // inferred from electronic annotation /// 0003677 // DNA binding // inferred from sequence or structural similarity /// 0046872 // metal ion binding // inferred from electronic annotation
0006810 // transport // inferred from electronic annotation
0005764 // lysosome // not recorded /// 0005765 // lysosomal membrane // inferred from electronic annotation /// 0005887 // integral component of plasma membrane // inferred from electronic annotation /// 0016020 // membrane // inferred from electronic annotation /// 0016021 // integral component of membrane // inferred from electronic annotation
0001672 // regulation of chromatin assembly or disassembly // not recorded /// 0006468 // protein phosphorylation // not recorded /// 0006974 // cellular response to DNA damage stimulus // not recorded /// 0007049 // cell cycle // inferred from electronic annotation /// 0007059 // chromosome segregation // not recorded /// 0007275 // multicellular organismal development // inferred from electronic annotation /// 0007283 // spermatogenesis // inferred from electronic annotation /// 0016310 // phosphorylation // inferred from electronic annotation /// 0016568 // chromatin modification // inferred from electronic annotation /// 0018105 // peptidyl-serine phosphorylation // not recorded /// 0030154 // cell differentiation // inferred from electronic annotation /// 0032435 // negative regulation of proteasomal ubiquitin-dependent protein catabolic process // not recorded /// 0035556 // intracellular signal transduction // not recorded /// 0071480 // cellular response to gamma radiation // not recorded
0005634 // nucleus // inferred from direct assay /// 0005634 // nucleus // not recorded /// 0005730 // nucleolus // not recorded /// 0005737 // cytoplasm // inferred from electronic annotation /// 0005856 // cytoskeleton // inferred from electronic annotation /// 0005882 // intermediate filament // inferred from direct assay /// 0005882 // intermediate filament // not recorded /// 0048471 // perinuclear region of cytoplasm // inferred from direct assay /// 0048471 // perinuclear region of cytoplasm // not recorded
0000166 // nucleotide binding // inferred from electronic annotation /// 0004672 // protein kinase activity // inferred from electronic annotation /// 0004674 // protein serine/threonine kinase activity // not recorded /// 0004713 // protein tyrosine kinase activity // inferred from electronic annotation /// 0005515 // protein binding // inferred from electronic annotation /// 0005524 // ATP binding // not recorded /// 0016301 // kinase activity // inferred from electronic annotation /// 0016740 // transferase activity // inferred from electronic annotation /// 0016772 // transferase activity, transferring phosphorus-containing groups // inferred from electronic annotation
0006468 // protein phosphorylation // inferred from electronic annotation /// 0015758 // glucose transport // inferred from direct assay /// 0016310 // phosphorylation // inferred from electronic annotation /// 0018108 // peptidyl-tyrosine phosphorylation // not recorded /// 0046777 // protein autophosphorylation // not recorded
0005737 // cytoplasm // not recorded /// 0005794 // Golgi apparatus // not recorded /// 0005815 // microtubule organizing center // inferred from electronic annotation /// 0005829 // cytosol // inferred from electronic annotation /// 0005856 // cytoskeleton // inferred from electronic annotation /// 0005886 // plasma membrane // not recorded /// 0016020 // membrane // inferred from electronic annotation /// 0070062 // extracellular vesicular exosome // not recorded
0000166 // nucleotide binding // inferred from electronic annotation /// 0004672 // protein kinase activity // inferred from electronic annotation /// 0004713 // protein tyrosine kinase activity // not recorded /// 0004715 // non-membrane spanning protein tyrosine kinase activity // inferred from electronic annotation /// 0005154 // epidermal growth factor receptor binding // not recorded /// 0005515 // protein binding // inferred from physical interaction /// 0005524 // ATP binding // inferred from electronic annotation /// 0016301 // kinase activity // inferred from electronic annotation /// 0016740 // transferase activity // inferred from electronic annotation /// 0016772 // transferase activity, transferring phosphorus-containing groups // inferred from electronic annotation /// 0019899 // enzyme binding // not recorded /// 0044325 // ion channel binding // not recorded
0006351 // transcription, DNA-templated // inferred from electronic annotation /// 0006355 // regulation of transcription, DNA-templated // inferred from electronic annotation /// 0006979 // response to oxidative stress // inferred from mutant phenotype /// 0045893 // positive regulation of transcription, DNA-templated // inferred from mutant phenotype /// 0045944 // positive regulation of transcription from RNA polymerase II promoter // inferred from direct assay /// 0045944 // positive regulation of transcription from RNA polymerase II promoter // not recorded /// 0046686 // response to cadmium ion // inferred from mutant phenotype
0005634 // nucleus // inferred by curator /// 0005634 // nucleus // not recorded
0000979 // RNA polymerase II core promoter sequence-specific DNA binding // inferred from direct assay /// 0001047 // core promoter binding // not recorded /// 0003676 // nucleic acid binding // inferred from electronic annotation /// 0003677 // DNA binding // inferred from direct assay /// 0003700 // sequence-specific DNA binding transcription factor activity // inferred from direct assay /// 0005515 // protein binding // inferred from electronic annotation /// 0035035 // histone acetyltransferase binding // inferred from physical interaction /// 0046872 // metal ion binding // inferred from electronic annotation
0001649 // osteoblast differentiation // not recorded /// 0001657 // ureteric bud development // inferred from expression pattern /// 0007155 // cell adhesion // inferred from electronic annotation /// 0007507 // heart development // inferred from mutant phenotype /// 0008347 // glial cell migration // not recorded
0005576 // extracellular region // inferred from direct assay /// 0005578 // proteinaceous extracellular matrix // inferred from direct assay /// 0005615 // extracellular space // not recorded /// 0016020 // membrane // not recorded /// 0031012 // extracellular matrix // not recorded /// 0043231 // intracellular membrane-bounded organelle // not recorded
0005509 // calcium ion binding // inferred from electronic annotation /// 0005515 // protein binding // inferred from electronic annotation /// 0005540 // hyaluronic acid binding // inferred from electronic annotation /// 0030246 // carbohydrate binding // inferred from electronic annotation
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