One way to introduce new content into eArray is to upload a file of
probes. You can upload probe sequence and annotation data to eArray, and
use the uploaded probes to create a new probe group, or add the uploaded
probes to an existing probe group. Later, you can use the probes to create a microarray
design.
When you upload probes to eArray, you submit data to a database. The
purpose of a database is to store, and to let you search, unique records.
If your uploaded file contains duplicate probes, you can mark the Remove replicate probes from upload
option, and eArray removes the duplicates.
Parameter |
Instructions/Details |
Probe Parameter Details |
Species |
Select the desired species from the list. If you
do not want to select a species, or if the desired species does not appear
in the list, select Na. |
Remove replicate probes
from upload |
A replicate probe has the same Probe ID as another
probe in the file. If you mark this check box, eArray uploads the first
probe in each set of replicate probes in your file, and ignores the others.
Note:
If your probe file contains replicate probes, and you do not
mark Remove replicate probes from upload,
eArray displays an error message after you begin the upload, and does
not upload your file.
|
Probe Precedence |
These options specify what eArray does if it finds
probes in your uploaded file that match (have the same Probe ID and sequence
as) probes that already exist in the system. Select one of these options:
Overwrite matching
probes – The
annotation of the matching uploaded probe replaces the annotation of the
existing probe. You can use this option to reannotate existing probes.
Skip matching probes
– eArray ignores
the matching uploaded probe.
Cancel upload if
any probes already exist —
eArray cancels the entire upload process if it finds a matching uploaded
probe. |
Upload Probe File Details |
Upload Type |
Select one of these options:
Upload Probes Only
–
Creates probes from the data in the uploaded file, and makes them available
to you in eArray as individual probes.
Create New Probe
Group –
Creates probes from the data in the uploaded file, and puts all of the
probes into a probe group. Type a name for the probe group. |
Upload File |
Click Browse.
A dialog box appears.
Select the
desired file for upload, then click Open.
The name of the file appears in Upload File.
|
File Format |
Select MINIMAL
or COMPLETE. The file format defines
the specific types of data available in the uploaded file. See Probe
file formats and requirements for uploading. |
File Type |
Select the appropriate file type from the list. The
file type defines how the data items in the file are specified and separated.
eArray accepts tab-delimited text (*.tdt
and *.txt) and MS-Excel (*.xls) files.
|
Click Next.
The Define Upload File Columns pane appears at the bottom of the page,
with a preview of the first few lines of data in your file.
eArray does not interpret any existing
column heading data in a probe file. If the first row of your probe file
is actually a row of column headings, mark My
uploaded file contains column headings, so eArray does not interpret
the column headings in the file as a set of probe data.
In the Define Upload File pane, from
the list below each column, select the label that best matches the data
in the specific column above it.
If you want the upload process to ignore a specific column, select
Ignore. Use each label exactly
once, except Ignore, which you
can use any number of times.
Click Upload.
eArray processes the uploaded file, and creates the probes. If you
selected Create New Probe Group, it also creates a probe group. Be sure
to read the introduction to this topic for information about probe groups
and duplicate probes.
A message informs you that your file was successfully submitted to
the upload queue, and that eArray will send you an e-mail when the upload
process is finished.
Click Close.
You can monitor the progress of the upload in the Pending Jobs pane
on the workspace home page. After eArray finishes your upload, you can
search for your new probes and
probe group, and use them
in microarray designs.
The Probe Upload page appears, and you can set up another probe file
upload.