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kiki
Nuovo Arrivato
97 Messaggi |
 Inserito il - 10 agosto 2019 : 13:54:51
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Ciao a tutti!
Ho un dubbio,ho letto che esistono numerosi database di sequenze codificanti (Ensembl,UCSC,Refseq) che possono differire per quanto riguarda gli start e gli stop di alcuni trascritti e per le regioni codificanti che posson esser diverse..ma perchč le regioni codificanti di un gene dovrebbero differire tra un database e l'altro??Quale dovrei usare?
Grazie mille a tutti in anticipo!
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domi84
Moderatore
Cittā: Glasgow
1724 Messaggi |
Inserito il - 02 settembre 2019 : 12:06:39
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Da
https://genome.ucsc.edu/FAQ/FAQgenes.html#ens
What are the differences among Ensembl, GENCODE and RefSeq?
Different institutions have different rules on how they annotate genes. E.g. RefSeq's criteria are more stringent, so there are fewer RefSeq transcripts than Ensembl/GENCODE transcripts. Also, RefSeq transcripts have their own sequences independent of the genome assembly, so certain population-specific variants may be in RefSeq that are entirely missing from the reference genome sequence. This has the important implication that the position of genome variants are harder to map to RefSeq transcripts than for GENCODE since RefSeq transcripts can have additional sequence or missing sequence relative to the genome.
The links from either transcript model to other gene-related databases are different. In general, it seems that high-throughput sequencing data results, e.g. RNA-seq, are often using Ensembl/GENCODE annotations and human genetics results are reported using RefSeq annotations. It depends on your particular project which gene model set you want to use. Over time, the two transcript databases have been and are becoming more similar. |
Il mio blog: http://domi84.blogspot.com/
Le foto che ho scattato... |
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Database regioni codificanti
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