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Protocols

TetraFGD specifications

Information


Unique identifier OMICS_24636
Name TetraFGD
Alternative name Tetrahymena Functional Genomics Database
Restrictions to use None
Community driven No
Data access Browse
User data submission Not allowed
Maintained Yes

Maintainers


  • person_outline Honghui Zeng
  • person_outline Wei Miao

Publication for Tetrahymena Functional Genomics Database

TetraFGD citations

 (6)
call_split

Compositionally distinct nuclear pore complexes of functionally distinct dimorphic nuclei in the ciliate Tetrahymena

2017
PMCID: 5450191
PMID: 28386019
DOI: 10.1242/jcs.199398
call_split See protocol

[…] CBI website and Tetrahymena Genome Database Wiki (http://ciliate.org/index.php/home/welcome) (; ). Expression profiles based on microarray data (http://tfgd.ihb.ac.cn/tool/exp) were obtained from the TetraFGD (http://tfgd.ihb.ac.cn/) (). We identified the candidate proteins as Nups when the expression profile satisfied two conditions: first, that the amount of expression is lower in vegetative sta […]

call_split

Nonsense mediated mRNA decay in Tetrahymena is EJC independent and requires a protozoa specific nuclease

2017
Nucleic Acids Res
PMCID: 5499736
PMID: 28402567
DOI: 10.1093/nar/gkx256
call_split See protocol

[…] ence similarity using ESPript 3.0 (). Phylogenetic trees were constructed using Mega5 with default settings (neighbor-joining method) (). Gene expression profiles shown in Figure were retrieved from TetraFGD (http://tfgd.ihb.ac.cn/) (). […]

library_books

A Zip3 like protein plays a role in crossover formation in the SC less meiosis of the protist Tetrahymena

2017
Mol Biol Cell
PMCID: 5349789
PMID: 28100637
DOI: 10.1091/mbc.E16-09-0678

[…] udied the gene TTHERM_00049220, previously known as COI20 (for Conjugation Induced; ), because it is specifically expressed in cells at the early conjugation stage, that is, when meiosis takes place (TetraFGD; http://tfgd.ihb.ac.cn; ; ). The predicted protein, TTHERM 00049220p, consists of 415 amino acids and has a molecular weight of 49.6 kDa. Orthologous proteins can be identified in Tetrahymena […]

library_books

Genome Wide Analysis of the Phosphoinositide Kinome from Two Ciliates Reveals Novel Evolutionary Links for Phosphoinositide Kinases in Eukaryotic Cells

2013
PLoS One
PMCID: 3823935
PMID: 24244373
DOI: 10.1371/journal.pone.0078848

[…] . were searched to establish expression of PIKs that were not included in the Miao et al. study. For gene network analysis of Tetrahymena type III PI4Ks the available networks were retrieved at the TetraFGD site (http://tfgd.ihb.ac.cn/). In order to establish the validity of this approach we first searched if there are co-regulated genes in the Tetrahymena PIK networks that code for enzymes that […]

library_books

A Single Cohesin Complex Performs Mitotic and Meiotic Functions in the Protist Tetrahymena

2013
PLoS Genet
PMCID: 3610610
PMID: 23555314
DOI: 10.1371/journal.pgen.1003418

[…] han Rec8. ORFs TTHERM_01048090 and TTHERM_00294810 encode clear Smc1 and Smc3 homologs, respectively , . It is likely that the SMC3 ORF prediction is incorrect , because cDNA coverage for SMC3 in the Tetrahymena Functional Genomics Database (http://tfgd.ihb.ac.cn) suggests a protein of only 1187 amino acids. To confirm that putative cohesin proteins form a complex in Tetrahymena, an immunoprecipit […]

library_books

Transcriptome Analysis of the Model Protozoan, Tetrahymena thermophila, Using Deep RNA Sequencing

2012
PLoS One
PMCID: 3274533
PMID: 22347391
DOI: 10.1371/journal.pone.0030630

[…] nibus (http://www.ncbi.nlm.nih.gov/geo) under accession no. GSE27971 including GSM692081, GSM692082, GSM692083, GSM692084, GSM692085 and GSM692086. Corrected gene models will be made public through a Tetrahymena Functional Genomics Database (TetraFGD) (http://tfgd.ihb.ac.cn/). […]

Citations

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TetraFGD institution(s)
Key Laboratory of Aquatic Biodiversity and Conservation, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, China; State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China; University of Chinese Academy of Sciences, Beijing, China
TetraFGD funding source(s)
Supported by Knowledge Innovation Program of CAS (KSCX2-EW-G-6-4); the Scientific Research Foundation for the Returned Overseas Chinese Scholars State Education Ministry; the open foundation of the State Key Laboratory of Genetics Resources and Evolution (GREKF10-09); National Scientific Data Sharing Platform for population and health, biologic medicine information center of China (2005DKA32402).

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