pcbi.1008839.g006.tif (277.25 kB)
Mitigation strategy.
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posted on 2021-10-11, 17:42 authored by Matthew Z. DeMaere, Aaron E. DarlingA simple QA directed mitigation strategy, where Hi-C sequencing libraries are assessed for quality (SNR) using a small-scale pilot sequencing run. Very poor quality libraries can be rejected, while accepted libraries go on to deeper sequencing. The total required yield of paired reads can be calibrated by the inferred SNR. Given sufficient starting material, Hi-C library generation can be reattempted when previous libraries are abandoned.
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wide spatial interactionssolve challenging problemslab methods providedespite continued refinementscomplex laboratory protocolavoid costly failures3d structural analysisresulting quality indicatorsdiligent quality managementlarge genome assembliesc library remainsalgorithm builds uponinexact reference skewsalso provides referencec library qualitysample preparation methodproximity ligation eventsdiv >< pfree quality controlc qc toolproximity ligationsoftware toolcapture genomebased qcfree approachtotal fractionthroughput sequencingsuccessfully appliedsuccessful outcomesspecific criteriasequencing datareliance introducesreal datasetsnew algorithmnaturally occurmodest amountmodel organismsmags ).key postk free hienvironmental samplesenables higheasily applieddna moleculescurrent wetcrude assayassembled genomesaccurate resolution>- mers