pond.bioinfo.ucr.edu

POND

Plant Unknown-eome DB (POND). This page provides query and download options for the proteins of unknown functions (PUFs) from Arabidopsis. Three methods were used for their prediction: (1) BLASTP searches (SW) against the proteins of known function (PKF) from. 2) HMM searches (PF) against the Pfam domain database. And (3) retrieval of the 'unknown' annotations from the. Gene Ontology system (GO, MF). More details and a summary table are provided on the PUF Count. Page The unknown profiles. Similar to unk...

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Plant Unknown-eome DB (POND). This page provides query and download options for the proteins of unknown functions (PUFs) from Arabidopsis. Three methods were used for their prediction: (1) BLASTP searches (SW) against the proteins of known function (PKF) from. 2) HMM searches (PF) against the Pfam domain database. And (3) retrieval of the 'unknown' annotations from the. Gene Ontology system (GO, MF). More details and a summary table are provided on the PUF Count. Page The unknown profiles. Similar to unk...

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2 uc riverside

3 un reno

4 expression

5 pond

6 bap db

7 chemmine

8 links

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POND | pond.bioinfo.ucr.edu Reviews

https://pond.bioinfo.ucr.edu

Plant Unknown-eome DB (POND). This page provides query and download options for the proteins of unknown functions (PUFs) from Arabidopsis. Three methods were used for their prediction: (1) BLASTP searches (SW) against the proteins of known function (PKF) from. 2) HMM searches (PF) against the Pfam domain database. And (3) retrieval of the 'unknown' annotations from the. Gene Ontology system (GO, MF). More details and a summary table are provided on the PUF Count. Page The unknown profiles. Similar to unk...

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pond.bioinfo.ucr.edu

1

POND

http://pond.bioinfo.ucr.edu/external.html

Plant Unknown-eome DB (POND). Articles about Unknown Proteins. MiRNAs and small RNAs. All unknown articles in one PubMed list. Horan K, Jang C, Bailey-Serres J, Mittler R, Shelton C, Harper JF, Zhu JK, Cushman JJ, Gollery M, Girke T. 2008) Annotating Genes of Known and Unknown Function by Large-Scale Co-Expression Analysis. Plant Physiol: in print. PubMed. Gollery M, Harper J, Cushman J, Mittler T, Mittler R. 2007) POFs: what we don't know can hurt us. Trends Plant Sci: 12. Siew N, Fischer D. 2005) Genom...

2

POND_Stats

http://pond.bioinfo.ucr.edu/pondStats.html

Plant Unknown-eome DB (POND). The table contains the number of proteins of unknown function (PUFs) from Arabidopsis. The different PUF sets were predicted at the dates specified in the column titles. The complete PUF lists are available on the POND. Site The following methods were used for their prediction:. SW: BLASTP searches against the proteins of known function (PKF) from Swiss-Prot. E-value ≤ 1*10. PF: HMM searches against the Pfam domain database. E-value ≤ 1*10. GO SW: Overlap between GO and SW.

3

POND

http://pond.bioinfo.ucr.edu/index.html

Plant Unknown-eome DB (POND). Arabidopsis 2010 Project: Integrating the "Unknown-eome" with Abiotic Stress. Response Networks in Arabidopsis. Funded by the National Science Foundation, grants: #0420152. Long-Term Goal and Background. Specific Aims and Expected Outcome. Determine the change in stress tolerance for 1,600 plant lines with a disrupted expression of genes of unknown function. Determine the relationship of genes of unknown function within a global protein-protein interaction network. The hypot...

4

POND

http://pond.bioinfo.ucr.edu/scripts/unknownsDisplay.pl

Plant Unknown-eome DB (POND). This page provides query and download options for the proteins of unknown functions (PUFs) from Arabidopsis. Three methods were used for their prediction: (1) BLASTP searches (SW) against the proteins of known function (PKF) from. 2) HMM searches (PF) against the Pfam domain database. And (3) retrieval of the 'unknown' annotations from the. Gene Ontology system (GO, MF). More details and a summary table are provided on the PUF Count. Page The unknown profiles. Similar to unk...

5

PED

http://pond.bioinfo.ucr.edu/express.html

Plant Gene Expression Database (PED). Funded by the National Science Foundation ( #0420152. Scope of this Database. Gene-wise searches can be performed via the Genome Cluster Database (GCD). Using the following query types:. Gene descriptions, e.g. 'OEC'. Arabidopsis Gene Identifiers (AGI), e.g. 'At1g06680'. ATH1 probe set keys, e.g. '262632 at'. More search options: see GCD ReadMe. The hyperlinks on the subsequent GCD query result page. Redirect to the following expression information:. Allows searching...

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facility.bioinformatics.ucr.edu

Databases - Bioinformatics Facility

http://facility.bioinformatics.ucr.edu/resources/databases

Bioassay and Phenotype Database (BAP DB). Old Chemical Genetics Page. Genome Cluster Database (GCD). Plant Expression Database (PED). Plant Unknown-eome Database (POND). Cell Wall Navigator (CWN). Kawaguchi and Bailey-Serres 2005. Mustroph et al. 2009. Nuclear Receptor DNA Binding Project.

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pond.bioinfo.ucr.edu

POND

Plant Unknown-eome DB (POND). This page provides query and download options for the proteins of unknown functions (PUFs) from Arabidopsis. Three methods were used for their prediction: (1) BLASTP searches (SW) against the proteins of known function (PKF) from. 2) HMM searches (PF) against the Pfam domain database. And (3) retrieval of the 'unknown' annotations from the. Gene Ontology system (GO, MF). More details and a summary table are provided on the PUF Count. Page The unknown profiles. Similar to unk...

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