text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: replicate2_MSI content_50


status: PUBLIC

tag: attribute

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: NEWCASTLE UNIVERSITY, UK

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

tag: Namespace:NEWCASTLE UNIVERSITY, UK

characteristic: Submitter Id

text: human

characteristic: common name

text: LOWER LIMIT OF DETECTION- 25% MSI HIGH CONTENT. Mixing of MSI-high DNA from HCT116 cell line with MSS DNA extracted from peripheral blood leukocytes. Library capture and preparation carried out using single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess lower limit of detection. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

characteristic: description

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: replicate2_MSI content_25

characteristic: title


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: LOWER LIMIT OF DETECTION- 12.5% MSI HIGH CONTENT. Mixing of MSI-high DNA from HCT116 cell line with MSS DNA extracted from peripheral blood leukocytes. Library capture and preparation carried out using single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess lower limit of detection. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens

text: replicate2_MSI content_12.5


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: LOWER LIMIT OF DETECTION- 6.25% MSI HIGH CONTENT. Mixing of MSI-high DNA from HCT116 cell line with MSS DNA extracted from peripheral blood leukocytes. Library capture and preparation carried out using single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess lower limit of detection. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens

text: replicate2_MSI content_6.25


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: LOWER LIMIT OF DETECTION- 3.13% MSI HIGH CONTENT. Mixing of MSI-high DNA from HCT116 cell line with MSS DNA extracted from peripheral blood leukocytes. Library capture and preparation carried out using single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess lower limit of detection. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens

text: replicate2_MSI content_3.13


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: LOWER LIMIT OF DETECTION- 1.56% MSI HIGH CONTENT. Mixing of MSI-high DNA from HCT116 cell line with MSS DNA extracted from peripheral blood leukocytes. Library capture and preparation carried out using single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess lower limit of detection. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens

text: replicate2_MSI content_1.56


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: LOWER LIMIT OF DETECTION- 0.78% MSI HIGH CONTENT. Mixing of MSI-high DNA from HCT116 cell line with MSS DNA extracted from peripheral blood leukocytes. Library capture and preparation carried out using single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess lower limit of detection. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens

text: replicate2_MSI content_0.78


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: LOWER LIMIT OF DETECTION- 0% MSI HIGH CONTENT. Mixing of MSI-high DNA from HCT116 cell line with MSS DNA extracted from peripheral blood leukocytes. Library capture and preparation carried out using single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess lower limit of detection. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens

text: replicate2_MSI content_0


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: LOWER LIMIT OF DETECTION- 100% MSI HIGH CONTENT. Mixing of MSI-high DNA from HCT116 cell line with MSS DNA extracted from peripheral blood leukocytes. Library capture and preparation carried out using single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess lower limit of detection. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens

text: replicate3_MSI content_100


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: LOWER LIMIT OF DETECTION- 50% MSI HIGH CONTENT. Mixing of MSI-high DNA from HCT116 cell line with MSS DNA extracted from peripheral blood leukocytes. Library capture and preparation carried out using single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess lower limit of detection. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens

text: replicate3_MSI content_50


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: replicate3_MSI content_25


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: replicate3_MSI content_12.5


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: replicate3_MSI content_6.25


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: replicate3_MSI content_3.13


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: replicate3_MSI content_1.56


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: replicate3_MSI content_0.78


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: Homo sapiens

text: Homo sapiens

text: replicate3_MSI content_0


text: public

tag: Namespace:LONDON SCHOOL OF HYGIENE AND TROPICAL MEDICINE

text: Plasmodium knowlesi

text: Plasmodium knowlesi

text: Sequencing SWGA Pk submission 1


text: LONDON SCHOOL OF HYGIENE AND TROPICAL MEDICINE

text: public

text: Plasmodium knowlesi

text: Plasmodium knowlesi

text: Sequencing SWGA Pk submission 1


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS. 100ng DNA from MMR proficient K562 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS. 50ng DNA from MMR proficient K562 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS. 25ng DNA from MMR proficient K562 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS. 12.5ng DNA from MMR proficient K562 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS. 6.25ng DNA from MMR proficient K562 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS. 3.13ng DNA from MMR proficient K562 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS. 1.56ng DNA from MMR proficient K562 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS. 0.78ng DNA from MMR proficient K562 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS. 100ng DNA from MMR proficient H9 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS. 50ng DNA from MMR proficient H9 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS. 25ng DNA from MMR proficient H9 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS. 12.5ng DNA from MMR proficient H9 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS. 6.25ng DNA from MMR proficient H9 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS. 3.13ng DNA from MMR proficient H9 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS. 1.56ng DNA from MMR proficient H9 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS. 0.78ng DNA from MMR proficient H9 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 100ng DNA from MMR deficient HCT116 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 50ng DNA from MMR deficient HCT116 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 25ng DNA from MMR deficient HCT116 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 12.5ng DNA from MMR deficient HCT116 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 6.25ng DNA from MMR deficient HCT116 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 3.13ng DNA from MMR deficient HCT116 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 1.56ng DNA from MMR deficient HCT116 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 0.78ng DNA from MMR deficient HCT116 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 100ng DNA from MMR deficient FFPE treated sample 207950 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 50ng DNA from MMR deficient FFPE treated sample 207950 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 25ng DNA from MMR deficient FFPE treated sample 207950 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 12.5ng DNA from MMR deficient FFPE treated sample 207950 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 6.25ng DNA from MMR deficient FFPE treated sample 207950 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 3.13ng DNA from MMR deficient FFPE treated sample 207950 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 100ng DNA from MMR deficient FFPE treated sample 244881 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 50ng DNA from MMR deficient FFPE treated sample 244881 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 25ng DNA from MMR deficient FFPE treated sample 244881 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 12.5ng DNA from MMR deficient FFPE treated sample 244881 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 6.25ng DNA from MMR deficient FFPE treated sample 244881 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 3.13ng DNA from MMR deficient FFPE treated sample 244881 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 100ng DNA from MMR deficient FFPE treated sample 246847 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 50ng DNA from MMR deficient FFPE treated sample 246847 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 25ng DNA from MMR deficient FFPE treated sample 246847 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 12.5ng DNA from MMR deficient FFPE treated sample 246847 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 6.25ng DNA from MMR deficient FFPE treated sample 246847 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSI HIGH. 3.13ng DNA from MMR deficient FFPE treated sample 246847 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS . 100ng DNA from MMR proficient FFPE treated sample 213428 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS . 50ng DNA from MMR proficient FFPE treated sample 213428 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS . 25ng DNA from MMR proficient FFPE treated sample 213428 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS . 12.5ng DNA from MMR proficient FFPE treated sample 213428 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS . 6.25ng DNA from MMR proficient FFPE treated sample 213428 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS . 3.13ng DNA from MMR proficient FFPE treated sample 213428 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS . 100ng DNA from MMR proficient FFPE treated sample 215770 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS . 50ng DNA from MMR proficient FFPE treated sample 215770 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS . 25ng DNA from MMR proficient FFPE treated sample 215770 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS . 12.5ng DNA from MMR proficient FFPE treated sample 215770 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS . 6.25ng DNA from MMR proficient FFPE treated sample 215770 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS . 3.13ng DNA from MMR proficient FFPE treated sample 215770 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS . 100ng DNA from MMR proficient FFPE treated sample 231954 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS . 50ng DNA from MMR proficient FFPE treated sample 231954 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS . 25ng DNA from MMR proficient FFPE treated sample 231954 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS . 12.5ng DNA from MMR proficient FFPE treated sample 231954 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS . 6.25ng DNA from MMR proficient FFPE treated sample 231954 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: SAMPLE QUANTITY COHORT- MSS . 3.13ng DNA from MMR proficient FFPE treated sample 231954 was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed to assess the lowest limit of sample input quantity. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens


text: QUEEN'S UNIVERSITY BELFAST

text: public

tag: Namespace:QUEEN'S UNIVERSITY BELFAST

characteristic: collection date

text: cattle

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characteristic: environment (biome)

text: rumen

characteristic: environment (feature)

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characteristic: environment (material)

text: United Kingdom

characteristic: geographic location (country and/or sea)

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characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Ceredigion

characteristic: geographic location (region and locality)

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characteristic: host body habitat

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characteristic: host body product

text: bos taurus

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characteristic: host-associated environmental package

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characteristic: investigation type

text: Bos taurus

text: Nutritional impacts on rumen microbiome and meat quality

characteristic: project name

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characteristic: sample collection device or method

text: Bos taurus

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characteristic: sequencing method

text: Forage Fast 1


characteristic: ENA-CHECKLIST

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text: Concentrates 2

characteristic: title


text: QUEEN'S UNIVERSITY BELFAST

text: public

text: cattle

text: terrestrial

text: rumen

text: rumen fluid

characteristic: environment (material)

text: United Kingdom

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Ceredigion

characteristic: geographic location (region and locality)

text: rumen

characteristic: host body habitat

text: rumen fluid

characteristic: host body product

text: bos taurus

characteristic: host common name

text: male

characteristic: host sex

text: rumen fluid

characteristic: host substrate

characteristic: host taxid

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: Bos taurus

characteristic: project name

text: at slaughter

characteristic: sample collection device or method

text: Bos taurus

text: Illumina

characteristic: sequencing method

text: Concentrates 3


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: QUEEN'S UNIVERSITY BELFAST

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: cattle

characteristic: common name

text: terrestrial

characteristic: environment (biome)

text: rumen

characteristic: environment (feature)

text: rumen fluid

text: United Kingdom

text: Ceredigion

text: rumen

text: rumen fluid

text: bos taurus

text: male

text: rumen fluid

text: host-associated

text: metagenome

text: Bos taurus

characteristic: organism

text: at slaughter

text: Bos taurus

text: Illumina

text: Concentrates 4

characteristic: title


text: QUEEN'S UNIVERSITY BELFAST

text: public

text: cattle

text: terrestrial

text: rumen

text: rumen fluid

characteristic: environment (material)

text: United Kingdom

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Ceredigion

characteristic: geographic location (region and locality)

text: rumen

characteristic: host body habitat

text: rumen fluid

characteristic: host body product

text: bos taurus

characteristic: host common name

text: male

characteristic: host sex

text: rumen fluid

characteristic: host substrate

characteristic: host taxid

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: Bos taurus

characteristic: project name

text: at slaughter

characteristic: sample collection device or method

text: Bos taurus

text: Illumina

characteristic: sequencing method

text: Concentrates 5


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: QUEEN'S UNIVERSITY BELFAST

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: cattle

characteristic: common name

text: terrestrial

characteristic: environment (biome)

text: rumen

characteristic: environment (feature)

text: rumen fluid

text: United Kingdom

text: Ceredigion

text: rumen

text: rumen fluid

text: bos taurus

text: male

text: rumen fluid

text: host-associated

text: metagenome

text: Bos taurus

characteristic: organism

text: at slaughter

text: Bos taurus

text: Illumina

text: Concentrates 6

characteristic: title


text: QUEEN'S UNIVERSITY BELFAST

text: public

text: cattle

text: terrestrial

text: rumen

text: rumen fluid

characteristic: environment (material)

text: United Kingdom

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Ceredigion

characteristic: geographic location (region and locality)

text: rumen

characteristic: host body habitat

text: rumen fluid

characteristic: host body product

text: bos taurus

characteristic: host common name

text: male

characteristic: host sex

text: rumen fluid

characteristic: host substrate

characteristic: host taxid

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: Bos taurus

characteristic: project name

text: at slaughter

characteristic: sample collection device or method

text: Bos taurus

text: Illumina

characteristic: sequencing method

text: Concentrates 7


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: QUEEN'S UNIVERSITY BELFAST

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: cattle

characteristic: common name

text: terrestrial

characteristic: environment (biome)

text: rumen

characteristic: environment (feature)

text: rumen fluid

text: United Kingdom

text: Ceredigion

text: rumen

text: rumen fluid

text: bos taurus

text: male

text: rumen fluid

text: host-associated

text: metagenome

text: Bos taurus

characteristic: organism

text: at slaughter

text: Bos taurus

text: Illumina

text: Concentrates 8

characteristic: title


text: QUEEN'S UNIVERSITY BELFAST

text: public

text: cattle

text: terrestrial

text: rumen

text: rumen fluid

characteristic: environment (material)

text: United Kingdom

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Ceredigion

characteristic: geographic location (region and locality)

text: rumen

characteristic: host body habitat

text: rumen fluid

characteristic: host body product

text: bos taurus

characteristic: host common name

text: male

characteristic: host sex

text: rumen fluid

characteristic: host substrate

characteristic: host taxid

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: Bos taurus

characteristic: project name

text: at slaughter

characteristic: sample collection device or method

text: Bos taurus

text: Illumina

characteristic: sequencing method

text: Concentrates 9


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: QUEEN'S UNIVERSITY BELFAST

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

characteristic: collection date

text: cattle

characteristic: common name

text: terrestrial

characteristic: environment (biome)

text: rumen

characteristic: environment (feature)

text: rumen fluid

text: United Kingdom

text: Ceredigion

text: rumen

text: rumen fluid

text: bos taurus

text: male

text: rumen fluid

text: host-associated

text: metagenome

text: Bos taurus

characteristic: organism

text: at slaughter

text: Bos taurus

text: Illumina

text: Concentrates 10

characteristic: title


Con

text: QUEEN'S UNIVERSITY BELFAST

text: public

text: Con

text: cattle

text: terrestrial

text: rumen

text: rumen fluid

characteristic: environment (material)

text: United Kingdom

characteristic: geographic location (country and/or sea)

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: Ceredigion

characteristic: geographic location (region and locality)

text: rumen

characteristic: host body habitat

text: rumen fluid

characteristic: host body product

text: bos taurus

characteristic: host common name

text: male

characteristic: host sex

text: rumen fluid

characteristic: host substrate

characteristic: host taxid

text: host-associated

characteristic: host-associated environmental package

text: metagenome

characteristic: investigation type

text: Bos taurus

characteristic: project name

text: at slaughter

characteristic: sample collection device or method

text: Bos taurus

text: Illumina

characteristic: sequencing method

text: Control


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: NEWCASTLE UNIVERSITY, UK

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: Submitter Id

text: human

characteristic: common name

text: DNA from MMR proficient K562 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed applicability of the assay on NextSeq platform. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina NextSeq

characteristic: description

text: Homo sapiens

characteristic: organism

text: Homo sapiens

characteristic: title


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: DNA from MMR proficient H9 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed applicability of the assay on NextSeq platform. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina NextSeq

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: DNA from MMR deficient HCT116 celll line was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed applicability of the assay on NextSeq platform. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina NextSeq

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: DNA from MMR deficient FFPE treated CRC tumour sample was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed applicability of the assay on NextSeq platform. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina NextSeq

text: Homo sapiens

text: Homo sapiens


text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: DNA from MMR proficient FFPE treated CRC tumour sample was extracted for the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Specifically, the analysis was aimed applicability of the assay on NextSeq platform. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina NextSeq

text: Homo sapiens

text: Homo sapiens


text: Mus musculus

characteristic: ArrayExpress-SPECIES

text: SC

text: public

text: house mouse

text: Mus musculus

text: Mus musculus

characteristic: subject id


text: UNIVERSIDAD DE CONCEPCION

text: public

tag: Namespace:UNIVERSIDAD DE CONCEPCION

text: Cultured tanycytes

characteristic: cell type

text: Norway rat

text: Cultured tanycytes exposed to 2mM Glucose

text: Rattus norvegicus

text: Rattus norvegicus


characteristic: ENA-CHECKLIST

text: UNIVERSIDAD DE CONCEPCION

text: public

text: Cultured tanycytes

text: Norway rat

text: Cultured tanycytes exposed to 15mM Glucose

text: Rattus norvegicus

text: Rattus norvegicus


characteristic: ENA-FIRST-PUBLIC

text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: TRAINING COHORT- MSI HIGH. DNA from FFPE treated colorectal cancer tissue sample was extracted to carry out training of the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens

text: Training cohort_MSI-High


characteristic: ENA-LAST-UPDATE

text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: TRAINING COHORT- MSS. DNA from FFPE treated colorectal cancer tissue sample was extracted to carry out training of the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens

text: Training cohort_MSS


characteristic: External Id

text: NEWCASTLE UNIVERSITY, UK

text: public

text: human

text: TRAINING COHORT- MSS. DNA from mismatch repair proficient cell line was extracted to carry out training of the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens

text: Training cohort_MSS


text: NEWCASTLE UNIVERSITY, UK

characteristic: INSDC center name

text: public

text: human

text: TRAINING COHORT- MSI HIGH. DNA from mismatch repair deficient HCT116 cell line was extracted to carry out training of the single molecule molecular inversion probe (smMIP) approach for microsatellite instability testing. Custom library prep and capture was carried out using smMIPs and the pooled amplicons were sequenced on Illumina MiSeq.

text: Homo sapiens

text: Homo sapiens

text: Training cohort_MSI-High


text: BAYLOR COLLEGE OF ME

characteristic: INSDC first public

text: public

tag: Namespace:BAYLOR COLLEGE OF ME

text: Escherichia coli K-12

text: Escherichia coli K-12


characteristic: INSDC last update

text: public

tag: Namespace:University of Latvia Faculty of Medicine

text: synthetic construct

text: synthetic construct

text: ccRCC aptamers


text: University of Latvia Faculty of Medicine

text: public

characteristic: INSDC status

text: synthetic construct

text: synthetic construct

text: ccRCC aptamers


text: Salmonella enterica subsp. enterica serovar Typhi

text: SC

text: public

characteristic: SRA accession


text: Salmonella enterica subsp. enterica serovar Concord

text: SC

text: public

characteristic: Submitter Id


text: Salmonella enterica

text: SC

text: public

text: Salmonella enterica

characteristic: common name

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.07ba 5367

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.175 st.22 s1.1

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.04ba 1169

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.04ba 1466

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.04ba 6768-1

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.08ba 7043

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.04ba 6789-3

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.04ba 6789-1

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.06ba 1178

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.08ba 434

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.07ba 7874

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.04ba 8255

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.146 YAT-5

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.110 VAN-23

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.138 KAW-19

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.96 YEB-56

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.124 KOB-8

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.136 KAW-12

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.112 KAK-S

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.125 KOB-17

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.127 KPES-1

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.114 KAW-19

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.117 YAT-14

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.129 TIR-8

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.132 KAW-3

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.118 TIR-10

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.133 KAW-9

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.134 KAK-3

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.135 KAW-10

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.139 KWA-19

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.162 KAK-12

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.126 SEB-6

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.161 KAK-S

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.137 KAW-18

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.154 KAK-18

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.155 KAK-19

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.148 M1SGui

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.153 KAK-3

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Salmonella enterica

text: MA.163 KAK-V

text: SC

text: public

text: Salmonella enterica

text: Salmonella enterica

text: Salmonella enterica


text: Anopheles coluzzii

text: SC

text: public

text: Anopheles coluzzii

text: Zanclea sango

text: Zanclea sango


characteristic: ENA checklist

text: SSI

text: public

text: Statens Serum Institute

characteristic: collected by

characteristic: collection date

text: No

characteristic: environmental sample

text: Denmark

characteristic: geographic location

characteristic: geographic location (latitude)

characteristic: geographic location (longitude)

text: not collected

characteristic: host health state

text: Homo Sapiens

characteristic: host scientific name

text: Yes

characteristic: is the sequenced pathogen host associated?

characteristic: isolate

text: Salmonella enterica

text: Salmonella enterica

text: Mikawasima

characteristic: serovar

text: not ascertainable

characteristic: travel-relation


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Taipei Veterans General Hospital

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

characteristic: INSDC status

tag: Namespace:Taipei Veterans General Hospital

text: human

text: Homo sapiens

characteristic: organism

text: Homo sapiens

text: Fecal samples from normal and patients s/p gastric cancer surgery

characteristic: title


text: wild-type

characteristic: ArrayExpress-PHENOTYPE

text: mixed

characteristic: ArrayExpress-SEX

text: Caenorhabditis yunquensis

characteristic: ArrayExpress-SPECIES

text: SC

text: public

characteristic: SRA accession

characteristic: Submitter Id

text: Caenorhabditis yunquensis

characteristic: common name

text: Mixed

characteristic: gender

text: Caenorhabditis yunquensis

text: wild-type

characteristic: phenotype

text: Caenorhabditis yunquensis

characteristic: subject id

text: Caenorhabditis yunquensis


text: wild-type

text: mixed

text: Meloidogyne luci

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: SC

text: public

text: Meloidogyne luci

text: Mixed

text: Meloidogyne luci

text: wild-type

text: Meloidogyne luci

text: Meloidogyne luci


text: wild-type

characteristic: ArrayExpress-Phenotype

text: mixed

characteristic: ArrayExpress-Sex

text: Caenorhabditis yunquensis

characteristic: ArrayExpress-Species

characteristic: ArrayExpress-StrainOrLine

characteristic: External Id

text: SC

characteristic: INSDC center name

characteristic: INSDC first public

text: public

text: Caenorhabditis yunquensis

text: Caenorhabditis yunquensis

text: HMW DNA purified by Karen Oliver's group

characteristic: sample description

text: Caenorhabditis yunquensis

characteristic: strain

text: Caenorhabditis yunquensis


E-MTAB-7175:Sample 1

text: Diabetes Center at UCSF

characteristic: INSDC last update

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-7175:Sample 1

tag: Namespace:Diabetes Center at UCSF

characteristic: Submitter Id

text: 12 to 16

unit: week

characteristic: age

text: ArrayExpress

characteristic: broker name

text: house mouse

text: Protocols: Dissection from brown fat, white fat and skeletal muscle tissue of the mice at room temperature (23C) Trizol and Qiagen RNeasy extraction kit Libraries were generated according to TruSeq Stranded Total RNA Library Prep kit (Illumina) Protocol

characteristic: description

text: mouse 1

characteristic: individual

text: Mus musculus

characteristic: organism

text: Mus musculus

text: brown adipose tissue

characteristic: organism part

text: Mus musculus

text: male

characteristic: sex

text: Sample 1

characteristic: title


E-MTAB-7175:Sample 2

characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Diabetes Center at UCSF

text: public

text: E-MTAB-7175:Sample 2

text: 12 to 16

text: ArrayExpress

text: house mouse

characteristic: common name

text: mouse 2

text: Mus musculus

text: Mus musculus

text: brown adipose tissue

text: Mus musculus

text: male

text: Sample 2


E-MTAB-7175:Sample 3

text: Diabetes Center at UCSF

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-7175:Sample 3

text: 12 to 16

text: ArrayExpress

text: house mouse

text: mouse 3

text: Mus musculus

text: Mus musculus

text: brown adipose tissue

text: Mus musculus

text: male

characteristic: strain

text: Sample 3


E-MTAB-7175:Sample 4

text: Diabetes Center at UCSF

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-7175:Sample 4

characteristic: Submitter Id

text: 12 to 16

characteristic: age

text: ArrayExpress

text: house mouse

text: mouse 1

text: Mus musculus

text: Mus musculus

text: skeletal muscle tissue

text: Mus musculus

text: male

text: Sample 4


E-MTAB-7175:Sample 5

text: Diabetes Center at UCSF

text: public

text: E-MTAB-7175:Sample 5

text: 12 to 16

text: ArrayExpress

characteristic: broker name

text: house mouse

characteristic: description

text: mouse 2

characteristic: individual

text: Mus musculus

characteristic: organism

text: Mus musculus

text: skeletal muscle tissue

text: Mus musculus

text: male

text: Sample 5


E-MTAB-7175:Sample 6

characteristic: ENA-CHECKLIST

text: Diabetes Center at UCSF

text: public

text: E-MTAB-7175:Sample 6

text: 12 to 16

text: ArrayExpress

text: house mouse

text: mouse 3

text: Mus musculus

text: Mus musculus

text: skeletal muscle tissue

characteristic: organism part

text: Mus musculus

text: male

characteristic: sex

text: Sample 6

characteristic: title


E-MTAB-7175:Sample 7

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

characteristic: External Id

text: Diabetes Center at UCSF

text: public

text: E-MTAB-7175:Sample 7

text: 12 to 16

text: ArrayExpress

text: house mouse

characteristic: common name

text: mouse 1

text: Mus musculus

text: Mus musculus

text: white adipose tissue

text: Mus musculus

text: male

text: Sample 7


E-MTAB-7175:Sample 8

text: Diabetes Center at UCSF

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: E-MTAB-7175:Sample 8

text: 12 to 16

text: ArrayExpress

text: house mouse

text: mouse 2

text: Mus musculus

text: Mus musculus

text: white adipose tissue

text: Mus musculus

text: male

characteristic: strain

text: Sample 8


E-MTAB-7175:Sample 9

text: Diabetes Center at UCSF

text: public

characteristic: INSDC status

characteristic: SRA accession

text: E-MTAB-7175:Sample 9

characteristic: Submitter Id

text: 12 to 16

characteristic: age

text: ArrayExpress

text: house mouse

text: mouse 3

text: Mus musculus

text: Mus musculus

text: white adipose tissue

text: Mus musculus

text: male

text: Sample 9


text: public

text: PwD/PhJ

characteristic: StrainOrLine

text: embase-sample-22462:CSS_mRNA_3E-MK-12a-MZ3

tag: Namespace:EUROPEAN MOLECUALR BIOLOGY LABORATORY, GENOME BIOLOGY UNIT

text: 9-12 weeks

text: Primary B-cells

characteristic: cell line

text: Marginal Zone B-cells

characteristic: cell type

text: house mouse

text: Protocols : Growth Protocol: Bone marrow cells were isolated from pooled femur and tibia harvested from mouse. Both ends of the bones were cut-off and bone marrow was flushed using 25-gauge needle and a 12 cc syringe filled with IMDM supplemented with 10% FBS and 2 mM EDTA, onto a 50 ml screw top Falcon tube fitted with a 70 micrometer filter (BD). Filtered cells were collected by centrifugation at 2000 rcf for 10 minutes and used for downstream analysis. To isolate spleen cells, abdominal cavity was incised and spleen was removed and placed in phosphate buffer saline (PBS, pH 7.4). Spleen was grinned between frosted glass slides and passed through 70 micrometer filter to prepare single cell suspension. Filtered cells were collected as explained above and used for downstream analysis. To purify B cell subpopulations, BM and spleen cells were subjected to flow-cytometry analysis. Briefly, RBCs lysed total bone marrow and spleen cells were stained for 30 minutes with a combination of the following monoclonal rat anti-mouse antibodies: anti-CD45 (BD Biosciences Cat# 558702 Lot# RRID: AB_1645215 or BD Biosciences Cat# 561586 Lot# RRID: AB_10896305), anti-CD19 (BD Biosciences Cat# 557655 Lot# RRID: AB_396770), anti-CD21/35 (BD Biosciences Cat# 552957 Lot# RRID: AB _394532), anti-IgM (BD Biosciences Cat# 553437 Lot# RRID: AB_394857) and anti-IgD (BD Biosciences Cat# 558597 Lot# RRID:AB_647211). Cell sorting was then performed on a FACS Aria III (Becton Dickinson, RRID: SCR_008418) with customized optical layout. The following sort parameters were used: 70 Âµm nozzle; 15,000 events/second; 35 psi. Cells were either sorted in IMDM for further assays or in Trizol (Sigma, RRID: SCR_008988) for total RNA isolation.

characteristic: description

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Spleen

characteristic: sampletype

text: Mus musculus

text: male


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EUROPEAN MOLECUALR BIOLOGY LABORATORY, GENOME BIOLOGY UNIT

text: public

text: embase-sample-22463:CSS_mRNA_9B-MK-8-MZ-16

text: 9-12 weeks

text: Primary B-cells

text: Marginal Zone B-cells

text: house mouse

text: Mus musculus

text: Mus musculus

text: Spleen

characteristic: organism part

text: Mus musculus

text: male

characteristic: sex

characteristic: title


characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: embase-sample-22464:CSS_mRNA_8D-MK-8-MZ-18

text: 9-12 weeks

text: Primary B-cells

text: Marginal Zone B-cells

text: house mouse

characteristic: common name

text: Mus musculus

text: Mus musculus

text: Spleen

text: Mus musculus

text: male


text: public

characteristic: INSDC status

characteristic: SRA accession

text: PwD/PhJ

characteristic: StrainOrLine

text: embase-sample-22465:CSS_mRNA_4E-MK-12b-MZ4

characteristic: Submitter Id

text: 9-12 weeks

characteristic: age

text: Primary B-cells

text: Marginal Zone B-cells

text: house mouse

text: Mus musculus

text: Mus musculus

text: Spleen

text: Mus musculus

text: male


text: public

text: embase-sample-22466:CSS_mRNA_13E-MK-11b-MZ13

text: 9-12 weeks

text: Primary B-cells

characteristic: cell line

text: Marginal Zone B-cells

characteristic: cell type

text: house mouse

characteristic: description

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Spleen

characteristic: sampletype

text: Mus musculus

text: male


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: PwD/PhJ

text: embase-sample-22467:CSS_mRNA_17E-MK-12-MZ17

text: 9-12 weeks

text: Primary B-cells

text: Marginal Zone B-cells

text: house mouse

text: Mus musculus

text: Mus musculus

text: Spleen

characteristic: organism part

text: Mus musculus

text: male

characteristic: sex


characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: embase-sample-22468:CSS_mRNA_9D-MK-8-MZ-19

text: 9-12 weeks

text: Primary B-cells

text: Marginal Zone B-cells

text: house mouse

text: Mus musculus

text: Mus musculus

text: Spleen

text: Mus musculus

text: male

characteristic: title


text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: StrainOrLine

text: embase-sample-22469:CSS_mRNA_11B-MK-11-MZ-17

characteristic: Submitter Id

text: 9-12 weeks

text: Primary B-cells

text: Marginal Zone B-cells

text: house mouse

characteristic: common name

text: Mus musculus

text: Mus musculus

text: Spleen

text: Mus musculus

text: male


text: public

text: embase-sample-22470:CSS_mRNA_6C-MK-11-MR-14

text: 9-12 weeks

characteristic: age

text: Primary B-cells

characteristic: cell line

text: Mature B-cells

characteristic: cell type

text: house mouse

characteristic: description

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Bone marrow

text: Mus musculus

text: male


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: embase-sample-22471:CSS-mRNA_19E-MK-11b-FO19

text: 9-12 weeks

text: Primary B-cells

text: Follicular B-cells

text: house mouse

text: Mus musculus

text: Mus musculus

text: Spleen

characteristic: organism part

characteristic: sampletype

text: Mus musculus

text: male


characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: embase-sample-22472:CSS-mRNA_1F-MK-8A-FO

text: 9-12 weeks

text: Primary B-cells

text: Follicular B-cells

text: house mouse

text: Mus musculus

text: Mus musculus

text: Spleen

text: Mus musculus

text: male

characteristic: sex


text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: StrainOrLine

text: embase-sample-22473:CSS-mRNA_20E-MK-11a-FO20

characteristic: Submitter Id

text: 9-12 weeks

text: Primary B-cells

text: Follicular B-cells

text: house mouse

text: Mus musculus

text: Mus musculus

text: Spleen

text: Mus musculus

text: male

characteristic: title


text: public

text: embase-sample-22474:CSS-mRNA_5F-MK-8B-FO

text: 9-12 weeks

characteristic: age

text: Primary B-cells

characteristic: cell line

text: Follicular B-cells

characteristic: cell type

text: house mouse

characteristic: common name

characteristic: description

text: Mus musculus

text: Mus musculus

text: Spleen

text: Mus musculus

text: male


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: public

text: PwD/PhJ

text: embase-sample-22475:CSS-mRNA_16E-MK-12-FO16

text: 9-12 weeks

text: Primary B-cells

text: Follicular B-cells

text: house mouse

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Spleen

characteristic: organism part

text: Mus musculus

text: male


characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: PwD/PhJ

text: embase-sample-22476:CSS-mRNA_8E-MK-12b-FO8

text: 9-12 weeks

text: Primary B-cells

text: Follicular B-cells

text: house mouse

text: Mus musculus

text: Mus musculus

text: Spleen

characteristic: sampletype

text: Mus musculus

text: male


text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: StrainOrLine

text: embase-sample-22477:CSS-mRNA_9F-MK-8C-FO

characteristic: Submitter Id

text: 9-12 weeks

text: Primary B-cells

text: Follicular B-cells

text: house mouse

text: Mus musculus

text: Mus musculus

text: Spleen

text: Mus musculus

text: male

characteristic: sex


text: public

text: PwD/PhJ

text: embase-sample-22478:CSS-mRNA_7E-MK-12a-FO7

text: 9-12 weeks

characteristic: age

text: Primary B-cells

characteristic: cell line

text: Follicular B-cells

characteristic: cell type

text: house mouse

characteristic: common name

text: Protocols : Growth Protocol: Bone marrow cells were isolated from pooled femur and tibia harvested from mouse. Both ends of the bones were cut-off and bone marrow was flushed using 25-gauge needle and a 12 cc syringe filled with IMDM supplemented with 10% FBS and 2 mM EDTA, onto a 50 ml screw top Falcon tube fitted with a 70 micrometer filter (BD). Filtered cells were collected by centrifugation at 2000 rcf for 10 minutes and used for downstream analysis. To isolate spleen cells, abdominal cavity was incised and spleen was removed and placed in phosphate buffer saline (PBS, pH 7.4). Spleen was grinned between frosted glass slides and passed through 70 micrometer filter to prepare single cell suspension. Filtered cells were collected as explained above and used for downstream analysis. To purify B cell subpopulations, BM and spleen cells were subjected to flow-cytometry analysis. Briefly, RBCs lysed total bone marrow and spleen cells were stained for 30 minutes with a combination of the following monoclonal rat anti-mouse antibodies: anti-CD45 (BD Biosciences Cat# 558702 Lot# RRID: AB_1645215 or BD Biosciences Cat# 561586 Lot# RRID: AB_10896305), anti-CD19 (BD Biosciences Cat# 557655 Lot# RRID: AB_396770), anti-CD21/35 (BD Biosciences Cat# 552957 Lot# RRID: AB _394532), anti-IgM (BD Biosciences Cat# 553437 Lot# RRID: AB_394857) and anti-IgD (BD Biosciences Cat# 558597 Lot# RRID:AB_647211). Cell sorting was then performed on a FACS Aria III (Becton Dickinson, RRID: SCR_008418) with customized optical layout. The following sort parameters were used: 70 Âµm nozzle; 15,000 events/second; 35 psi. Cells were either sorted in IMDM for further assays or in Trizol (Sigma, RRID: SCR_008988) for total RNA isolation.

text: Mus musculus

text: Mus musculus

text: Spleen

text: Mus musculus

text: male

characteristic: title


characteristic: ENA-CHECKLIST

characteristic: ENA-FIRST-PUBLIC

characteristic: ENA-LAST-UPDATE

text: EUROPEAN MOLECUALR BIOLOGY LABORATORY, GENOME BIOLOGY UNIT

text: public

text: embase-sample-22479:CSS-mRNA_3F-MK-8A-PP

text: 9-12 weeks

text: Primary B-cells

text: PrePro B-cells

text: house mouse

characteristic: description

text: Mus musculus

characteristic: organism

text: Mus musculus

text: Bone marrow

text: Mus musculus

text: male


characteristic: External Id

characteristic: INSDC center name

characteristic: INSDC first public

characteristic: INSDC last update

text: public

text: embase-sample-22480:CSS-mRNA_7B-MK-11-MR-11

text: 9-12 weeks

text: Primary B-cells

text: Mature B-cells

text: house mouse

text: Mus musculus

text: Mus musculus

text: Bone marrow

characteristic: organism part

text: Mus musculus

text: male


text: public

characteristic: INSDC status

characteristic: SRA accession

characteristic: StrainOrLine

text: embase-sample-22481:CSS-mRNA_4F-MK-8A-MR

characteristic: Submitter Id

text: 9-12 weeks

text: Primary B-cells

text: Mature B-cells

text: house mouse

text: Mus musculus

text: Mus musculus

text: Bone marrow

characteristic: sampletype

text: Mus musculus

text: male