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OncoMiner Pipeline | Submit Server

Welcome to the OncoMiner Pipeline. To submit a nucleotide variant file to the pipeline for processing. This server allows you two upload two kinds of files:. Nucleotide variant files in the format described below, typical of Otogenetics exome-sequencing results, which will be processed by the pipeline to provide PROVEAN scores and PubMed cross-references. A submitted job will produce four output files:. Jobname.annotated.csv: this file is in the same format as the jobname.PROVEAN.csv file...Jobname.P...

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OncoMiner Pipeline | Submit Server | oncominer.utep.edu Reviews
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Welcome to the OncoMiner Pipeline. To submit a nucleotide variant file to the pipeline for processing. This server allows you two upload two kinds of files:. Nucleotide variant files in the format described below, typical of Otogenetics exome-sequencing results, which will be processed by the pipeline to provide PROVEAN scores and PubMed cross-references. A submitted job will produce four output files:. Jobname.annotated.csv: this file is in the same format as the jobname.PROVEAN.csv file...Jobname.P...
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1 submit to provean
2 upload to circos
3 compute statistics
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OncoMiner Pipeline | Submit Server | oncominer.utep.edu Reviews

https://oncominer.utep.edu

Welcome to the OncoMiner Pipeline. To submit a nucleotide variant file to the pipeline for processing. This server allows you two upload two kinds of files:. Nucleotide variant files in the format described below, typical of Otogenetics exome-sequencing results, which will be processed by the pipeline to provide PROVEAN scores and PubMed cross-references. A submitted job will produce four output files:. Jobname.annotated.csv: this file is in the same format as the jobname.PROVEAN.csv file...Jobname.P...

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oncominer.utep.edu oncominer.utep.edu
1

OncoMiner Pipeline | Submit Server

http://oncominer.utep.edu/helpPage

OncoMiner Pipeline Help Page. Purpose of the OncoMiner Pipeline. The pipeline accepts nucleotide variant data in the format provided by Otogenetics Corporation. S exome sequencing servvices. Otogenetics provides their data in Microsoft Excel format; the files need to be saved in comma-separated-value (.CSV) format in order to be submitted to the OncoMiner pipeline. The pipeline will compute the following results for each variant in the inpute data:. The Human Genome Variation Society. Jobname.PROVEAN...

2

OncoMiner Pipeline | Upload Scored PROVEAN Data

http://oncominer.utep.edu/heatmapBuilder

OncoMiner Pipeline Upload to Circos. This page allows you to build a Circos heatmap diagram of the PROVEAN scores for multiple individuals, as computed by the OncoMiner Pipeline. You must start with a set of PROVEAN-scored and annotated datasets generated by the pipeline, whose filenames will be of the form DataSetTag.PROVEAN.full.annotated.csv. Click "Choose file" to choose a file to upload. If you add a "Choose file" button by mistake, click "Remove last file" to remove the last "Choose file" button.

3

OncoMiner Pipeline | Submit Server

http://oncominer.utep.edu/requiredFormat

OncoMiner Pipeline Required File Format. Required input format for nucleotide variant files. File names should not contain spaces, and should end with ".csv". The first line of the file must contain a comma-separated list of column names, indicating the names of the data in the corresponding positions on each successive line. Successive lines must contain comma-separated lists of data items in the order implied by the first line. The following columns must be present; other columns will be ignored:.

4

OncoMiner Pipeline | Submit Server

http://oncominer.utep.edu/getStatistics

OncoMiner Pipeline Compute Statistics. Once you have submitted files to be analyzed by PROVEAN. You may submit your scored .CSV files to the server so it can produce seperate information regarding genetic variation (i.e. which sequences presented the gene mutations). These produced .CSV files will allow for statistical analysis using Fisher's Exact Test. Among others. This will generate conclusions about what gene mutations are present between cancer patients and non cancer patients.

5

OncoMiner Pipeline | Submit Server

http://oncominer.utep.edu/upload

OncoMiner Pipeline Submit to PROVEAN. Upload your nucleotide variant file for processing. Click "Choose file" and select a nucleotide variant file to submit to the pipeline. See the format requirements. For details about the required format of uploaded files. Enter the email address to which this service should send a notification when your job is complete. Enter the same email address a second time for confirmation. Click "Submit" to submit your job to the service. Choose the sequence file to upload:.

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Bioinformatics at UTEP: Course Syllabi (BINF)

http://www.bioinformatics.utep.edu/syllabi.php

The University of Texas at El Paso 500 W. University Avenue El Paso, TX 79968 915.747.8484. Bioinformatics Program Bioinformatics Office Bell Hall 138 bioinformatics@utep.edu.

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Bioinformatics at UTEP: People

http://www.bioinformatics.utep.edu/people.php

The University of Texas at El Paso 500 W. University Avenue El Paso, TX 79968 915.747.8484. Bioinformatics Program Bioinformatics Office Bell Hall 138 bioinformatics@utep.edu.

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Bioinformatics at UTEP: Vision and Mission

http://www.bioinformatics.utep.edu/vision-mission.php

The University of Texas at El Paso 500 W. University Avenue El Paso, TX 79968 915.747.8484. Bioinformatics Program Bioinformatics Office Bell Hall 138 bioinformatics@utep.edu.

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Bioinformatics at UTEP: Career

http://www.bioinformatics.utep.edu/career.php

The University of Texas at El Paso 500 W. University Avenue El Paso, TX 79968 915.747.8484. Bioinformatics Program Bioinformatics Office Bell Hall 138 bioinformatics@utep.edu.

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Bioinformatics at UTEP: Poster Sessions

http://www.bioinformatics.utep.edu/postersessions.php

The University of Texas at El Paso 500 W. University Avenue El Paso, TX 79968 915.747.8484. Bioinformatics Program Bioinformatics Office Bell Hall 138 bioinformatics@utep.edu.

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Bioinformatics at UTEP: Site Map

http://www.bioinformatics.utep.edu/sitemap.php

The University of Texas at El Paso 500 W. University Avenue El Paso, TX 79968 915.747.8484. Bioinformatics Program Bioinformatics Office Bell Hall 138 bioinformatics@utep.edu.

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Bioinformatics at UTEP: Admission Process

http://www.bioinformatics.utep.edu/admission.php

The University of Texas at El Paso 500 W. University Avenue El Paso, TX 79968 915.747.8484. Bioinformatics Program Bioinformatics Office Bell Hall 138 bioinformatics@utep.edu.

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Bioinformatics at UTEP: Director's Message

http://www.bioinformatics.utep.edu/director.php

The University of Texas at El Paso 500 W. University Avenue El Paso, TX 79968 915.747.8484. Bioinformatics Program Bioinformatics Office Bell Hall 138 bioinformatics@utep.edu.

bioinformatics.utep.edu bioinformatics.utep.edu

Bioinformatics at UTEP: Students and Alumni

http://www.bioinformatics.utep.edu/studentsandalumni.php

The University of Texas at El Paso 500 W. University Avenue El Paso, TX 79968 915.747.8484. Bioinformatics Program Bioinformatics Office Bell Hall 138 bioinformatics@utep.edu.

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Bioinformatics at UTEP: Committees

http://www.bioinformatics.utep.edu/committees.php

Bioinformatics at UTEP: Committees. The University of Texas at El Paso 500 W. University Avenue El Paso, TX 79968 915.747.8484. Bioinformatics Program Bioinformatics Office Bell Hall 138 bioinformatics@utep.edu.

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OncoMiner Pipeline | Submit Server

Welcome to the OncoMiner Pipeline. To submit a nucleotide variant file to the pipeline for processing. This server allows you two upload two kinds of files:. Nucleotide variant files in the format described below, typical of Otogenetics exome-sequencing results, which will be processed by the pipeline to provide PROVEAN scores and PubMed cross-references. A submitted job will produce four output files:. Jobname.annotated.csv: this file is in the same format as the jobname.PROVEAN.csv file...Jobname.P...

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