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Table 2 Summary information for 15 viral contig bins associated with cirrhosis (+) or healthy (−) patients samples

From: VirFinder: a novel k-mer based tool for identifying viral sequences from assembled metagenomic data

Bin Coefficients of association with cirrhosisa No. of contigs in bin Total nucleotides in bin (bp) No. of predicted proteins in bin No. of contigs with significant blastn hit to nt b Bin contains proteins with similarity to viral proteinsc
2 −0.04 46 82431 92 3 Y
6 0.06 88 295063 357 2 Y
35 0.00 1 1214 2 1 N
41 0.23 40 259266 360 15 Y
48 0.05 3 4940 5 0 N
51 −0.19 36 84134 112 6 Y
59 −0.10 68 184455 245 3 Y
64 −0.05 29 130154 148 1 Y
66 0.12 6 8500 7 5 N
69 0.00 1 1197 1 0 N
72 −0.05 29 77421 110 6 Y
78 −0.05 21 43329 48 1 Y
93 0.03 1 1295 1 0 N
106 −0.06 2 5243 7 0 N
127 0.01 18 72694 110 0 Y
  1. aCoefficients determined by the logistic regression with lasso regularization method for variable selection (see Methods)
  2. bContig had at least one blastn hit to NCBI’s non-redundant nucleotide database (nt) with an E value of ≤1e-10 and an alignment length of ≥100 bp
  3. cBin contains at least one protein for which its best blastp search results against NCBI’s non-redundant protein database (nr) was a viral protein or the protein had significant similarity to a viral Pfam domain (see Methods). Similarity requirements: E value of ≤1e-5, bit score ≥ 50