DOI: 10.5281/zenodo.15161944
title: Data for paper: Sharapov et al (2025) "A genome-wide association study in 10,000 individuals links plasma N-glycome to liver disease and anti-inflammatory proteins" (Replication GWAMA, N=3224, part 1)

description: The dataset contains results of genome-wide association study of human blood plasma glycome.

The TPNG_GWAMA_repl_part_aa contains summary statistics for 117 glycome traits from the replication GWAMA (Genome-Wide Association Meta-Analysis) conducted on participants, totaling 3,224 individuals.

The 117 files contain association summary statistics for 117 glycome traits, of which 36 were directly measured by UHPLC technology and 81 were derived glycome traits. 

Funding

The work of S.Sh., A.T., D.M., A.S., Y.S.A. was supported by the Research Program at the Moscow State University (MSU) Institute for Artificial Intelligence. The study was conducted using the UK Biobank resource under application #59345. The work of E.E., Y.A.T was supported by the budget project of the Institute of Cytology and Genetics FWNR-2022-0020. European Community’s Seventh Framework Programme funded project PainOmics (602736). TwinsUK is funded by the Wellcome Trust, Medical Research Council, Versus Arthritis, European Union Horizon 2020, Chronic Disease Research Foundation (CDRF), Zoe Ltd and the National Institute for Health Research (NIHR) Clinical Research Network (CRN) and Biomedical Research Centre based at Guy’s and St Thomas’ NHS Foundation Trust in partnership with King’s College London. The TwinsUK Study was approved by London-Westminster Research Ethics Committee (REC reference EC04/015), and Guy’s and St Thomas’ NHS Foundation Trust Research and Development (R&D). The TwinsUK BioBank was approved by the HRA - Liverpool East Research Ethics Committee (REC reference 19/NW/0187), IRAS ID 258513. Glycan analysis performed in Genos was supported by Horizon Europe grants GlycanSwitch (ERC Synergy grant # 101071386), INITIALISE (grant # 101094099) and SynHealth (grant #101159018). All participants provide written, informed consent. We thank Toma Keser, Mirna Šimurina, Marija Vilaj, Jerko Štambuk, Ivan Gudelj, Thomas S. Klarić, Jasminka Krištić, Jelena Šimunović, Julija Jurić, Ana Momčilović, Najda Rudman, and Maja Hanić for their assistance with glycan analysis.

Headers

rs_id - dbSNP ID.

chr - Chromosome number where the SNP is located.

bp - Base pair position of the SNP on the chromosome (build GRCh37/hg19).

ea - Effect allele.

ra - Reference allele.

eaf - Effect allele frequency.

af_ref - Frequency of the reference allele.

beta - Effect size estimate.

se - Standard error of the effect size estimate.

p - P-value for the association test.

n - Sample size used in the analysis.

z - Z-score for the association test.

info - Imputation information score.
description: Harmonized code
Trait
Description


PGP1
FA2
The percentage of FA2


PGP2
FA2B
The percentage of FA2B


PGP3
A2BG1
The percentage of A2BG1


PGP4
FA2G1
The percentage of FA2G1


PGP5
FA2G1
The percentage of FA2G1


PGP6
FA2BG1
The percentage of FA2BG1


PGP7
M6
The percentage of M6


PGP8
A2G2
The percentage of A2G2


PGP9
A2BG2
The percentage of A2BG2


PGP10
FA2G2
The percentage of FA2G2


PGP11
FA2BG2
The percentage of FA2BG2


PGP12
M7 + A2G2S1
The percentage of M7+A2G2S1


PGP13
FA2G1S1
The percentage of FA2G1S1


PGP14
A2G2S1
The percentage of A2G2S1+A2G2S1


PGP15
FA2G2S1
The percentage of FA2G2S1


PGP16
FA2BG2S1
The percentage of FA2BG2S1


PGP17
A2G2S2
The percentage of A2G2S2


PGP18
M9
The percentage of M9


PGP19
A2G2S2
The percentage of A2G2S2


PGP20
FA2G2S2
The percentage of FA2G2S2


PGP21
FA2BG2S2
The percentage of FA2BG2S2


PGP22
A3G3S2
The percentage of A3G3S2


PGP23
A3G3S2
The percentage of A3G3S2


PGP24
A3F1G3S2
The percentage of A3F1G3S2


PGP25
A3G3S3
The percentage of A3G3S3


PGP26
A3G3S3
The percentage of A3G3S3


PGP27
A3G3S3
The percentage of A3G3S3


PGP28
FA3G3S3
The percentage of FA3G3S3


PGP29
A3G3S3
The percentage of A3G3S3


PGP30
A3F1G3S3
The percentage of A3F1G3S3


PGP31
FA3G3S3
The percentage of FA3G3S3


PGP32
FA3F1G3S3
The percentage of FA3F1G3S3


PGP33
A4G4S3
The percentage of A4G4S3


PGP34
A4G4S4
The percentage of A4G4S4


PGP35
A4G4S4
The percentage of A4G4S4


PGP36
A4F1G4S4
The percentage of A4F1G4S4


PGP37
FGS/(FG+FGS)
The percentage of sialylation of core-fucosylated galactosylated structures without bisecting GlcNAc


PGP38
FBGS/(FBG+FBGS)
The percentage of sialylation of core-fucosylated galactosylated structures with bisecting GlcNAc


PGP39
FGS/(F+FG+FGS)
The percentage of sialylation of all core-fucosylated structures without bisecting GlcNAc


PGP40
FBGS/(FB+FBG+FBGS)
The percentage of sialylation of all core-fucosylated structures with bisecting GlcNAc


PGP41
FG1S1/(FG1+FG1S1)
The percentage of monosialylation of core-fucosylated monogalactosylated structures without bisecting GlcNAc


PGP42
FG2S1/(FG2+FG2S1+FG2S2)
The percentage of monosialylation of core-fucosylated digalactosylated structures without bisecting GlcNAc


PGP43
FG2S2/(FG2+FG2S1+FG2S2)
The percentage of disialylation of core-fucosylated digalactosylated structures without bisecting GlcNAc


PGP44
FBG2S1/(FBG2+FBG2S1+FBG2S2)
The percentage of monosialylation of core-fucosylated digalactosylated structures with bisecting GlcNAc


PGP45
FBG2S2/(FBG2+FBG2S1+FBG2S2)
The percentage of disialylation of core-fucosylated digalactosylated structures with bisecting GlcNAc


PGP46
FtotalS1/FtotalS2
Ratio of all fucosylated monosialylated and disialylated structures (+/- bisecting GlcNAc)


PGP47
FS1/FS2
Ratio of fucosylated monosialylated and disialylated structures (without bisecting GlcNAc)


PGP48
FBS1/FBS2
Ratio of fucosylated monosialylated and disialylated structures (with bisecting GlcNAc)


PGP49
FtotalS1/FtotalS3
Ratio of all core-fucosylated monosialylated and trisialylated structures (+/- bisecting GlcNAc)


PGP50
FS1/FS3
Ratio of core-fucosylated monosialylated and trisialylated structures (without bisecting GlcNAc)


PGP51
FtotalS2/FtotalS3
Ratio of all core-fucosylated disialylated and trisialylated structures (+/- bisecting GlcNAc)


PGP52
FS2/FS3
Ratio of core-fucosylated disialylated and trisialylated structures (without bisecting GlcNAc)


PGP53
FBStotal/FStotal
Ratio of all core-fucosylated sialylated structures with and without bisecting GlcNAc


PGP54
FBS1/FS1
Ratio of fucosylated monosialylated structures with and without bisecting GlcNAc


PGP55
FBS1/(FS1+FBS1)
The incidence of bisecting GlcNAc in all fucosylated monosialylated structures


PGP56
FBS2/FS2
Ratio of fucosylated disialylated structures with and without bisecting GlcNAc


PGP57
FBS2/(FS2+FBS2)
The incidence of bisecting GlcNAc in all fucosylated disialylated structures


PGP58
FA2n
The percentage of FA2 in total neutral plasma glycans (GPn)


PGP59
FA2Bn
The percentage of FA2B in total neutral plasma glycans (GPn)


PGP60
A2BG1n
The percentage of A2BG1 in total neutral plasma glycans (GPn)


PGP61
FA2G1n
The percentage of FA2G1 in total neutral plasma glycans (GPn)


PGP62
FA2G1n
The percentage of FA2G1 in total neutral plasma glycans (GPn)


PGP63
FA2BG1n
The percentage of FA2BG1 in total neutral plasma glycans (GPn)


PGP64
M6n
The percentage of M6 in total neutral plasma glycans (GPn)


PGP65
A2G2n
The percentage of A2G2 in total neutral plasma glycans (GPn)


PGP66
A2BG2n
The percentage of A2BG2 in total neutral plasma glycans (GPn)


PGP67
FA2G2n
The percentage of FA2G2 in total neutral plasma glycans (GPn)


PGP68
FA2BG2n
The percentage of FA2BG2 in total neutral plasma glycans (GPn)


PGP69
M9n
The percentage of M9 in total neutral plasma glycans (GPn)


PGP70
G0n
The percentage of agalactosylated structures in total neutral plasma glycans


PGP71
G1n
The percentage of monogalactosylated structures in total neutral plasma glycans


PGP72
G2n
The percentage of digalactosylated structures in total neutral plasma glycans


PGP73
Fn total
The percentage of all fucosylated structures (+/- bisecting GlcNAc) in total neutral plasma glycans


PGP74
FG1n total/G1n
The percentage of fucosylation of monogalactosylated structures in total neutral plasma glycans


PGP75
FG2n total /G2n
The percentage of fucosylation of digalactosylated structures in total neutral plasma glycans


PGP76
Fn
The percentage of fucosylated structures (without bisecting GlcNAc) in total neutral plasma glycans


PGP77
FG0n/G0n
The percentage of fucosylation of agalactosylated structures (without bisecting GlcNAc) in total neutral plasma glycans


PGP78
FG1n/G1n
The percentage of fucosylation of monogalactosylated structures (without bisecting GlcNAc) in total neutral plasma glycans


PGP79
FG2n/G2n
The percentage of fucosylation of digalactosylated structures (without bisecting GlcNAc) in total neutral plasma glycans


PGP80
FBn
The percentage of fucosylated structures (with bisecting GlcNAc) in total neutral plasma glycans


PGP81
FBG0n/G0n
The percentage of fucosylation of agalactosylated structures (with bisecting GlcNAc) in total neutral plasma glycans


PGP82
FBG1n/G1n
The percentage of fucosylation of monogalactosylated structures (with bisecting GlcNAc) in total neutral plasma glycans


PGP83
FBG2n/G2n
The percentage of fucosylation of digalactosylated structures (with bisecting GlcNAc) in total neutral plasma glycans


PGP84
FBn/Fn
Ratio of fucosylated structures with and without bisecting GlcNAc in total neutral plasma glycans


PGP85
FBn/Fn total
The incidence of bisecting GlcNAc in all fucosylated structures in total neutral plasma glycans


PGP86
Fn/(Bn+FBn)
Ratio of fucosylated non-bisecting GlcNAc structures and all structures with bisecting GlcNAc in total neutral plasma glycans


PGP87
Bn/(Fn+FBn)
Ratio of afucosylated structures with bisecting GlcNAc and all fucosylated structures (+/- bisecting GlcNAc) in total neutral plasma glycans


PGP88
FBG2n/FG2n
Ratio of fucosylated digalactosylated structures with and without bisecting GlcNAc in total neutral plasma glycans


PGP89
FBG2n /(FG2n+FBG2n )
The incidence of bisecting GlcNAc in all fucosylated digalactosylated structures in total neutral plasma glycans


PGP90
FG2n/(BG2n+FBG2n)
Ratio of fucosylated digalactosylated non-bisecting GlcNAc structures and all digalactosylated structures with bisecting GlcNAc in total neutral plasma glycans


PGP91
BG2n/(FG2n+FBG2n)
Ratio of afucosylated digalactosylated structures with bisecting GlcNAc and all fucosylated digalactosylated structures (+/- bisecting GlcNAc) in total neutral plasma glycans


PGP92
FUC-A
The percentage of antennary fucosylated structures in total plasma glycans


PGP93
FUC-C
The percentage of core fucosylated structures in total plasma glycans


PGP94
S0total
The percentage of neutral glycan structures in total plasma glycans


PGP95
S1total
the percentage of monosialylated structures in total plasma glycans


PGP96
S2total
the percentage of bisialylated structures in total plasma glycans


PGP97
S3total
the percentage of trisialylated structures in total plasma glycans


PGP98
S4total
the percentage of tetrasialylated structures in total plasma glycans


PGP99
G0total
The percentage of agalactosylated structures in total plasma glycans


PGP100
G1total
The percentage of monogalactosylated structures in total plasma glycans


PGP101
G2total
The percentage of digalactosylated structures in total plasma glycans


PGP102
G3total
The percentage of trigalactosylated structures in total plasma glycans


PGP103
G4total
The percentage of tetragalactosylated structures in total plasma glycans


PGP104
A2total
The percentage of biantennary structures in total plasma glycans


PGP105
A3total
The percentage of triantennary structures in total plasma glycans


PGP106
A4total
The percentage of tetraantennary structures in total plasma glycans


PGP107
Mtotal
The percentage of high-mannose structures in total plasma glycans


PGP108
Btotal
The percentage of glycan structures with bisecting GlcNAc in total plasma glycans


PGP109
G3S2/G3S3
Ratio of disialylated and trisialylated trigalactosylated structures


PGP110
G4S3/G4S4
Ratio of trisialylated and tetrasialylated tetragalactosylated structures


PGP111
FG3/G3total
The percentage of core-fucosylation of trigalactosylated structures


PGP112
G3Fa/G3total
The percentage of antennary-fucosylation of trigalactosylated structures


PGP113
G4Fa/G4total
The percentage of antennary-fucosylation of tetragalactosylated structures


PGP114
M7n
The percentage of M7 in total neutral plasma glycans (GPn)


PGP115
Stotal
The percentage of sialylated structures in total plasma glycans


PGP116
Gtotal
The percentage of galactosylated structures in total plasma glycans


PGP117
Gntotal
The percentage of galactosylated structures in total neutral plasma glycans