Virus Dataset Detail

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Dataset Information
Accession GSE224901
Status 2023/2/26
Title Sera of individuals chronically infected with hepatitis B virus (HBV) contain diverse RNA types produced by HBV replication or derived from integrated HBV DNA
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary This study aimed to better characterize the repertoire of serum HBV RNAs during chronic HBV infection in humans, which remains understudied. Using RT-PCR, qPCR, RNA-sequencing and immuno-precipitation, we found that (i) >50% of serum samples bore different amounts of HBV replication-derived RNAs (rd-RNAs); (ii) a few samples contained RNAs transcribed from integrated HBV DNA including 5'-HBV-human-3' RNAs (integrant-derived RNAs or id-RNAs) and 5'-human-HBV-3' transcripts as a minority of serum HBV RNAs; (iii) spliced HBV RNAs were abundant in <50% of analyzed samples; (iv) most serum rd-RNAs were polyadenylated via conventional HBV polyadenylation signal; (v) pre-genomic RNA (pgRNA) was the major component of the pool of serum RNAs; (vi) area of HBV positions 1531-1739 had very high RNA reads coverage and thus should be used as a target for detecting serum HBV RNAs; (vii) vast majority of rd-RNAs and pgRNA were associated with HBV virions, but not with unenveloped capsids, exosomes, classic microvesicles or apoptotic vesicles and bodies; (viii) considerable rd-RNAs presence in the circulating immune complexes was found in a few samples; and (ix) serum rcDNA and rd-RNAs should be quantified simultaneously to evaluate HBV replication status and efficacy of anti-HBV therapy with nucleos(t)ide analogs. In summary, sera contain various HBV RNA types of different origin, which are likely secreted via different mechanisms. In addition, since we previously showed that id-RNAs were abundant or predominant HBV RNAs in many of liver and hepatocellular carcinoma tissues comparing to rd-RNAs, there is likely a mechanism favoring the egress of the replication-derived RNAs.
Samples
GSM ID Sample info Characteristics Description
GSM7035312 HBV infected human sample #02 age:39; Sex:M; ethnicity:Asian; tissue:Liver; infection:HBV; sample type:serum 002-b
GSM7035314 HBV infected human sample #03 age:54; Sex:F; ethnicity:Asian; tissue:Liver; infection:HBV; sample type:serum 003-b
GSM7035315 HBV infected human sample #07 age:56; Sex:M; ethnicity:Other, Non Hispanic, Latino or Spanish Origin; tissue:Liver; infection:HBV; sample type:serum 007-b
GSM7035317 HBV infected human sample #15 age:45; Sex:F; ethnicity:Asian; tissue:Liver; infection:HBV; sample type:serum 015-b
GSM7035319 HBV infected human sample #17 age:43; Sex:F; ethnicity:Other, Non Hispanic, Latino or Spanish Origin; tissue:Liver; infection:HBV; sample type:serum 017-b
GSM7035321 HBV infected human sample #18 age:63; Sex:M; ethnicity:White or Caucasian; tissue:Liver; infection:HBV; sample type:serum 018-b
GSM7035322 HBV infected human sample #20 age:28; Sex:M; ethnicity:Asian; tissue:Liver; infection:HBV; sample type:serum 020-b
GSM7035324 HBV infected human sample #24 age:32; Sex:M; ethnicity:Asian; tissue:Liver; infection:HBV; sample type:serum 024-b
GSM7035325 HBV infected human sample #27 age:18; Sex:F; ethnicity:White or Caucasian; tissue:Liver; infection:HBV; sample type:serum 027-b
GSM7035327 HBV infected human sample #32 age:36; Sex:M; ethnicity:Asian; tissue:Liver; infection:HBV; sample type:serum 032-b
GSM7035328 HBV infected human sample #33 age:38; Sex:F; ethnicity:Asian; tissue:Liver; infection:HBV; sample type:serum 033-b
GSM7035330 HBV infected human sample #34 age:55; Sex:M; ethnicity:Asian; tissue:Liver; infection:HBV; sample type:serum 034-b
GSM7035332 HBV infected human sample #35 age:39; Sex:M; ethnicity:Asian; tissue:Liver; infection:HBV; sample type:serum 035-b
GSM7035334 HBV infected human sample #40 age:73; Sex:F; ethnicity:Asian; tissue:Liver; infection:HBV; sample type:serum 040-b
GSM7035336 HBV infected human sample #41 age:29; Sex:M; ethnicity:Asian; tissue:Liver; infection:HBV; sample type:serum 041-b
GSM7035338 HBV infected human sample #43 age:48; Sex:M; ethnicity:Asian; tissue:Liver; infection:HBV; sample type:serum 043-b
GSM7035340 HBV infected human sample #44 age:36; Sex:F; ethnicity:Other, Hispanic, Latino or Spanish Origin; tissue:Liver; infection:HBV; sample type:serum 044-b
GSM7035342 HBV infected human sample #46 age:32; Sex:M; ethnicity:Asian; tissue:Liver; infection:HBV; sample type:serum 046-b
GSM7035344 HBV infected human sample #50 age:27; Sex:M; ethnicity:Other, Non Hispanic, Latino or Spanish Origin; tissue:Liver; infection:HBV; sample type:serum 050-b
GSM7035345 HBV infected human sample #52 age:49; Sex:M; ethnicity:Asian; tissue:Liver; infection:HBV; sample type:serum 052-b
GSM7035346 Huh7 cells transfected with the plasmid pTHBV1.3 age:57; Sex:M; ethnicity:Japanese; cell line:Huh7 cells; treatment:plasmid pTHBV1.3 1C
Platform GPL24676  : Illumina NovaSeq 6000 (Homo sapiens)
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* p<0.05 ** p<0.01