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Clickable Table of Content
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Main Search: Search 1 or More snoRNA Symbols
Global Search: Matches strings across entire table
(Including invisible columns: See Column Visibility for details)
Example -> Copy snora2a snord7[7-9](Regex for snord77 78 & 79) into the search bar and press Enter:
(Query results can be downloaded: See Download section for details)
Columns Search: Find exact matches within Column Groups
(Like Global Search, supports multiple space-separated terms and regex)
snoRNA Names ex: snord53 u13 Host Names ex: UTP5 TTI2
External IDs ex: HGNC:32711 NR_002741 Targets ex: 28S_C3848 CHST7
(Query results can be downloaded: See Download section for details)
Regex Examples
| Regex | Search Box | Effect |
|---|---|---|
| snora2 snora2\D | snoRNA Names | Show snoRNAs with the same name and if they have varying end letters |
| nr_\d+ | External IDs | Show all entries with a Refseq ID |
| hgnc:\d+ | External IDs | Show all entries with an HGNC ID |
| hgnc:\d.*ensg\d.*nr_\d+ | External IDs | Show all entries with an HGNC ID, an Ensembl ID & a Refseq ID |
| ^(?!.*(hgnc|nr_)).*$ | External IDs | Show all entries without an HGNC or Refseq ID |
Besides this tutorial, snoDB internally links to the following:
- About: Textual explanation of the site's components with references and contact information.
- Statistics: Graphical representations of some of the data found in snoDB.
- snoTHAW: Heatmap visualisation tool that appears under the table.
- Detail pages: Clicking on snoRNA Symbols links to individual pages for each entry.
- Experiment Details: Page illustrating the RNA-Seq pipeline used to obtain the expression data.
snoDB Links to the Following Resources:
snoRNA Databases
snoRNABase snOPY snoRNA Atlas
General Resources
RNAcentral Ensembl RefSeq HGNC Rfam
The Human Protein Atlas
RNA Interaction Data
RISE DATABASE Curated Articles
Toggle Column Visibility with buttons
Columns are grouped by similar data types and color coded to match columns in their group
Individual columns can be toggled by clicking on Column Visibility
Reorder Columns & Select Rows
Drag and drop Columns (except Symbol) to re-order them. Hold Ctrl to prevent sorting of the column.
Click on rows to highlight them.
- Hold Ctrl (Command on Mac) + Click = select non-contiguous rows
- Hold Shift + Click = select contiguous rows
snoDB Use Case: SNORD118(U8) mutations are linked to Leukoencephalopathy
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As the article states:
"Despite the U8 snoRNA being ubiquitously expressed, germline mutations in SNORD118 cause an exclusively neurological, progressive microangiopathy"
Next Slide >>>
They conclude without establishing a causal link:
"The precise link between U8 and cerebral vascular homeostasis awaits elucidation and may conceivably involve a direct effect on translation or other yet to be defined functions of U8."
Had they had access to snoDB, they would have known that SNORD118 has predicted RNA interactions with cerebrally enriched genes EHD3 & ZNF536 (as we can see in the Next Slide >>>) which opens up potentially interesting avenues to investigate.
