doc_id	sent_index	relation_id	relation	trigger	trigger_offset	arg_num	arg_base_np	arg_protein	arg_domain	arg_site	arg_sugar	PSource	SiteSource	NProtein	NID	SiteName	sent_text
34552909	6	8	gly	modified	1140:1147	arg3	Most glycosites AND non-sialylated O-glycans			Most glycosites	non-sialylated O-glycans					glycosites	Most glycosites were modified by non-sialylated O-glycans such as HexNAc(1) and HexNAc(1)Hex (1).
34552909	6	19	gly	non-sialylated	1152:1165	arg1	non-sialylated O-glycans				non-sialylated O-glycans						Most glycosites were modified by non-sialylated O-glycans such as HexNAc(1) and HexNAc(1)Hex (1).
34552909	6	38	gly	glycosites	1124:1133	arg2	Most glycosites			Most glycosites						glycosites	Most glycosites were modified by non-sialylated O-glycans such as HexNAc(1) and HexNAc(1)Hex (1).
34552909	6	8	gly	modified	1140:1147	arg3	Most glycosites AND HexNAc(1)			glycosites	HexNAc(1)					glycosites	Most glycosites were modified by non-sialylated O-glycans such as HexNAc(1) and HexNAc(1)Hex (1).
34552909	6	19	gly	non-sialylated	1152:1165	arg1	HexNAc(1)				HexNAc(1)						Most glycosites were modified by non-sialylated O-glycans such as HexNAc(1) and HexNAc(1)Hex (1).
32290896	10	32	gly	glutamate	1972:1980	arg1	malonate, creatine, choline, myo-inositol, 2-oxoglutarate, alanine, glycerol, carnosine, histidine, glutamate			malonate, creatine, choline, myo-inositol, 2-oxoglutarate, alanine, glycerol, carnosine, histidine, glutamate						histidine	According to the variable importance in projection score, the most important metabolites to differentiate between the CON and the CHI group were hippurate, acetate, hypoxanthine, arginine, malonate, creatine, choline, myo-inositol, 2-oxoglutarate, alanine, glycerol, carnosine, histidine, glutamate and 3-hydroxyisobutyrate.
33421637	3	38	gly	glycoproteins	706:718	arg1	SMME-separated glycoproteins	SMME-separated glycoproteins				Fterm		glycoproteins			Furthermore, we have developed a fixation method for the lectin blotting of SMME-separated glycoproteins by immersing the SMME membranes into acetone solvent followed by heating.
33783000	10	3	gly	used	1111:1114	arg2	An enzyme's peptide sequence			An enzyme's peptide sequence						sequence	An enzyme's peptide sequence was obtained by mass spectrometry and used to retrieve a glucoamylase within the annotated genome of A. wentii v1.0.
32594109	10	11	gly	glycosylation	1451:1463	arg1	prothrombin	prothrombin				PUBTATOR		prothrombin	2147		Eight types of glycan were characterized in both groups, although generation of PIVKA-II in the warfarin-treated individuals did not lead to variation in glycosylation of prothrombin.
33379036	1	57	gly	N-glycoproteins	205:219	arg1	numerous N-glycoproteins	numerous N-glycoproteins				Fterm		N-glycoproteins			Human milk contains numerous N-glycoproteins with functions that provide protection to the infant.
33379036	6	91	gly	glycosylation	1457:1469	arg2	glycosylation site			glycosylation site						site	We compared the capacity of higher-energy collision dissociation, electron-transfer dissociation and electron-transfer/higher-energy collision dissociation (EThcD) to produce fragment ions that would enable effective identification of the glycan composition, peptide sequence and glycosylation site.
34988116	6	53	gly	HexNAc	1564:1569	arg1	HNK-1 epitope			HNK-1 epitope	HNK-1 epitope						In particular, 3-O-sulfation of terminal Gal was commonly found, whereas terminal sulfated HexNAc as in GalNAcβ1-4GlcNAc (LacdiNAc), and 3-O-sulfated hexuronic acid as in HNK-1 epitope (SO3-3GlcAβ1-3Galβ1-4GlcNAc) were identified only in the brain and not in the intestine or ovaries analyzed in parallel.
34076032	6	56	gly	sialylated	1018:1027	arg1	a sialylated glycan				a sialylated glycan						Interestingly, a sialylated glycan also has a remarkable inhibitory effect on the gel formation, which highlights the high selectivity of the gel dynamic response system.
33908003	6	35	gly	glycopeptide	920:931	arg2	glycopeptide			glycopeptide						glycopeptide	In this chapter, we described a glycopeptide enrichment method combining strong anion exchange, electrostatic repulsion, and hydrophilic interaction chromatography (SAX-ERLIC).
34552909	1	70	gly	glycosylated	69:80	arg1	The densely glycosylated spike (S) proteins	The densely glycosylated spike (S) proteins				Fterm		proteins			The densely glycosylated spike (S) proteins that are highly exposed on the surface of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) facilitate viral attachment, entry, and membrane fusion.
32812835	7	2	gly	afucosylated	1339:1350	arg1	afucosylated N-glycans				afucosylated N-glycans						These experiments suggest that afucosylated N-glycans are not critical for the in vitro phagocytic activity of a recombinant antibody whose target is aggregated Aβ and uses Fc effector function as part of its MOA.
34988116	2	39	gly	sialylated	582:591	arg1	Galβ1-4GlcNAc				Galβ1-4GlcNAc						Unambiguous identification of adult zebrafish glycotopes is particularly challenging due to the presence of extra β4-galactosylation on the basic building block of Galβ1-4GlcNAc that can be fucosylated and variably sialylated by N-acetyl, N-glycolyl, or deaminated neuraminic acids.
33908003	4	3	gly	nonglycosylated	748:762	arg1	nonglycosylated peptides			nonglycosylated peptides						peptides	However, such analysis is often complicated by extensive glycan diversity and the low abundance of glycopeptides in a complex mixture relative to nonglycosylated peptides.
33908003	4	26	gly	glycopeptides	701:713	arg1	extensive glycan diversity			glycopeptides	extensive glycan diversity					glycopeptides	However, such analysis is often complicated by extensive glycan diversity and the low abundance of glycopeptides in a complex mixture relative to nonglycosylated peptides.
33599092	8	68	gly	glycopeptides	1525:1537	arg2	IgG glycopeptides			IgG glycopeptides						glycopeptides	CONCLUSIONS AND CLINICAL RELEVANCE Through the simple and high-throughput procedures, this study revealed the important role of IgG glycopeptides in the premature pathology of CRC.
31937642	11	50	gly	N-glycopeptides	1892:1906	arg2	human milk and mucosal fucosylated N-glycopeptides			human milk and mucosal fucosylated N-glycopeptides						N-glycopeptides	GlcNAc-Asn hydrolysis generates aspartate and GlcNAc, which is used as a fermentable source by L.casei These data establish the existence in a commensal bacterial species of an exclusive metabolic pathway likely to scavenge human milk and mucosal fucosylated N-glycopeptides in the gastrointestinal tract.IMPORTANCE The gastrointestinal tract accommodates more than 1014 microorganisms that have an enormous impact on human health.
31937642	11	118	gly	fucosylated	1880:1890	arg1	human milk and mucosal fucosylated N-glycopeptides			human milk and mucosal fucosylated N-glycopeptides						N-glycopeptides	GlcNAc-Asn hydrolysis generates aspartate and GlcNAc, which is used as a fermentable source by L.casei These data establish the existence in a commensal bacterial species of an exclusive metabolic pathway likely to scavenge human milk and mucosal fucosylated N-glycopeptides in the gastrointestinal tract.IMPORTANCE The gastrointestinal tract accommodates more than 1014 microorganisms that have an enormous impact on human health.
32812835	0	64	gly	afucosylated	26:37	arg1	afucosylated glycoforms				afucosylated glycoforms						Assessment of the role of afucosylated glycoforms on the in vitro antibody-dependent phagocytosis activity of an antibody to Aβ aggregates.
34286807	0	46	gly	glycosylated	36:47	arg1	glycosylated protein	glycosylated protein				Fterm		protein			Preparation and characterization of glycosylated protein nanoparticles for astaxanthin mitochondria targeting delivery.
32663564	6	13	gly	FOS	1255:1257	arg1	total carbohydrate	FOS			total carbohydrate	OGER		FOS	P01100		Moreover, this inulinase was capable of hydrolyzing Cynara scolymus leaves into reducing sugar and 15 FOS with different DP, total carbohydrate, and protein content under different conditions designed by central composite design (CCD).
32979942	5	25	gly	glycoprotein	739:750	arg1	the recombinant glycoprotein glycans				the recombinant glycoprotein glycans						Compositions of the N-linked glycans from the native spikes were analyzed by mass spectrometry, which revealed overall processing states of the native glycans highly similar to that of the recombinant glycoprotein glycans.
34398423	9	72	gly	used	1431:1434	arg2	Nanoencapsulated lipopeptides			Nanoencapsulated lipopeptides						lipopeptides	Nanoencapsulated lipopeptides could be used as a potential delivery system of lipopeptides to improve their anti-adhesive effect against C. albicans cells colonizing medical devices and their anti-infectious activity against leishmania.
33244234	2	18	gly	P-glycoprotein	282:295	arg1	P-glycoprotein	P-glycoprotein				PUBTATOR		P-glycoprotein	5243		Multidrug resistance (MDR) in cancer is mainly caused by the high expression of P-glycoprotein encoded by the MDR1 gene, which is an ATP-dependent protease.
33845441	4	31	gly	used	560:563	arg2	A reduced graphene oxide-chitosan-gold nanoparticles composite			A reduced graphene oxide-chitosan-gold nanoparticles composite						composite	A reduced graphene oxide-chitosan-gold nanoparticles composite was used as a biocompatible substrate for the receptor stabilization.
32112830	2	24	gly	used	379:382	arg2	Reduced graphene oxide/silver nanocomposites			Reduced graphene oxide/silver nanocomposites						nanocomposites	Reduced graphene oxide/silver nanocomposites, rGO/Ag, were also used into the mats due to the strong antibacterial activity of rGO/Ag nanocomposites.
33908003	7	73	gly	glycopeptides	1181:1193	arg2	glycopeptides			glycopeptides						glycopeptides	Following enzymatic digestion of proteins into peptides, SAX-ERLIC is performed by solid phase extraction to enrich glycopeptides from biological samples with subsequent LC-MS/MS analysis.
32965647	8	60	gly	activity	996:1003	arg1	the Xylt2-/-	Xylt2			activity	PUBTATOR		Xylt2	217119		Because the residual XylT activity in the Xylt2-/- is due to xylosyltransferase 1 (XylT1), these studies indicate that both XylT1 and XylT2 have important roles in PG biosynthesis and organ homeostasis.
32577656	6	18	gly	N-glycosylation	1211:1225	arg1	known glycan sites				known glycan sites						In order to aid structure-based design and analysis of the spike glycoprotein, CoV3D permits visualization and download of spike structures with modeled N-glycosylation at known glycan sites, and contains structure-based classification of spike conformations, generated by unsupervised clustering.
32577656	6	35	gly	glycoprotein	1123:1134	arg1	the spike glycoprotein	the spike glycoprotein				Fterm		glycoprotein			In order to aid structure-based design and analysis of the spike glycoprotein, CoV3D permits visualization and download of spike structures with modeled N-glycosylation at known glycan sites, and contains structure-based classification of spike conformations, generated by unsupervised clustering.
33075342	9	59	gly	used	1499:1502	arg2	nanocomposites			nanocomposites						nanocomposites	The prepared samples could be potentially used as coatings, emulsifiers, and nanocomposites reinforcing agents.
32381549	1	4	gly	found	156:160	arg2	ECM AND a critical proteoglycan	ECM			a critical proteoglycan	OGER		ECM	B2RPV6		Perlecan is a critical proteoglycan found in the extracellular matrix (ECM) of cartilage.
32408255	6	81	gly	glycoprotein	1145:1156	arg1	glycoprotein (PRG4) recruitment	glycoprotein (PRG4) recruitment				Fterm		glycoprotein			Clear evidence of glycoprotein (PRG4) recruitment by Chi-C increased the softness of SyCF, which also improved nanoscale lubrication in vitro, decreasing the friction coefficient from 0.06 to 0.03.
35515389	4	84	gly	glycoproteins	795:807	arg1	salivary glycoproteins	salivary glycoproteins				Fterm		glycoproteins			A method combining the lectin microarray and lectin blotting was employed to investigate and confirm the altered glycopatterns in salivary glycoproteins.
34321166	2	7	gly	glycoprotein	677:688	arg1	glycoprotein IIb/IIIa inhibitors	glycoprotein IIb/IIIa inhibitors				Fterm		glycoprotein			Whether this advantage persists in patients at high risk of bleeding according to contemporary practice characterized by frequent use of radial-artery access and novel P2Y12 inhibitors, and low use of glycoprotein IIb/IIIa inhibitors (GPIs) is unclear.
32119847	5	72	gly	glycopeptides	771:783	arg2	glycopeptides			glycopeptides						glycopeptides	However, the m/z distribution of glycopeptides is different to that of unmodified peptides because of their large glycan structures.
34390125	2	34	gly	composition	388:398	arg1	the genetic determinants			position	the genetic determinants					position	Here, we aimed to clarify the genetic determinants of body composition in individuals with type 2 diabetes.
32766583	5	29	gly	glycosylation	621:633	arg1	the ACE2 receptor	the ACE2 receptor				PUBTATOR		ACE2 receptor	Q9BYF1		We further observed that glycosylation of the ACE2 receptor enhances SARS-CoV-2 infectivity.
33379036	7	113	gly	N-glycopeptide	1604:1617	arg2	human milk N-glycopeptide profiling			human milk N-glycopeptide profiling						N-glycopeptide	Of these methods, a combination of EtOH precipitation, HILIC-SPE and EThcD-fragmentation was the most effective for human milk N-glycopeptide profiling.
34965723	5	16	gly	glycopeptides	782:794	arg2	The synthesized ACTIVE glycopeptides			The synthesized ACTIVE glycopeptides						glycopeptides	The synthesized ACTIVE glycopeptides with intrinsic icephilicity could localize on the membrane surface of human erythrocytes and improve cryopreservation with trehalose, so that remarkable post-thaw cryosurvival of human erythrocytes was achieved with a slight variation in cell morphology and functions.
32561280	2	57	gly	used	736:739	arg2	The PNIPAAm copolymer/GO composite			The PNIPAAm copolymer/GO composite						composite	The PNIPAAm copolymer/GO composite was synthesized by free-radical copolymerization of (N-isopropylacrylamide) (NIPAAm), itaconic acid (IA) and maleic anhydride-modified poly(ethylene glycol) (PEG) in the presence of GO and used for the preparation of the hydrogels.
32428561	1	45	gly	glycosylated	127:138	arg1	highly glycosylated proteins	highly glycosylated proteins				Fterm		proteins			Mucins are highly glycosylated proteins that are characterized by a higher proportion of threonine, serine, and proline residues in their sequences.
32083322	3	5	gly	Cel	705:707	arg1	glucose	Cel			glucose	OGER		Cel	P19835		Residuals of models obtained from the peaks of GP [0-8 h (GP-8), > 8-24 h (GP-24), > 24-48 h (GP-48) and > 24-81 h (GP-81)] of 0.02, 0.04, 0.08, 0.12 and 0.20 g of glucose (Glu), St and Cel respectively.
33908003	3	58	gly	glycopeptides	491:503	arg2	intact glycopeptides			intact glycopeptides						glycopeptides	In particular, the analysis of intact glycopeptides by mass spectrometry allows information about glycan location and composition to be ascertained.
34056092	3	10	gly	O-glycoproteins	282:296	arg1	mucins-high molecular weight O-glycoproteins	mucins-high molecular weight O-glycoproteins				Fterm		O-glycoproteins			The primary components of mucus hydrogels are mucins-high molecular weight O-glycoproteins that adopt extended linear structures.
34564432	4	14	gly	isoform	530:536	arg1	Man-Tf	isoform			Man-Tf	Fterm		isoform			We found that a unique mannosylated-glycan is carried by a Tf isoform in CSF (Man-Tf).
34965723	7	2	gly	glycopeptide	1374:1385	arg2	glycopeptide			glycopeptide						glycopeptide	Analyses of differential scanning calorimetry, Raman spectroscopy, and dynamic ice shaping suggested that this cryopreservation protocol combined with the ACTIVE glycopeptide and trehalose could enhance the hydrogen bond network in nonfrozen solutions, resulting in inhibition of recrystallization and growth of ice.
32890396	5	0	gly	glycoprotein	847:858	arg1	the spike glycoprotein	the spike glycoprotein				PUBTATOR		spike glycoprotein	43740568		Integrated molecular viewers allow users to visualize structures of the spike glycoprotein, which is the major target of neutralizing antibodies and vaccine design efforts, as well as sets of spike-antibody complexes, spike sequence variability, and known polymorphisms.
33093930	1	6	gly	heterogeneity	86:98	arg1	glycans				glycans						The heterogeneity, mobility and complexity of glycans in glycoproteins have been, and currently remain, significant challenges in structural biology.
33093930	1	12	gly	glycans	128:134	arg1	glycoproteins	glycoproteins			glycans	Fterm		glycoproteins			The heterogeneity, mobility and complexity of glycans in glycoproteins have been, and currently remain, significant challenges in structural biology.
33093930	1	35	gly	glycoproteins	139:151	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			The heterogeneity, mobility and complexity of glycans in glycoproteins have been, and currently remain, significant challenges in structural biology.
32090575	7	20	gly	glycopeptide	1150:1161	arg2	endogenously intact N-linked and O-linked glycopeptide			endogenously intact N-linked and O-linked glycopeptide						glycopeptide	This is the first study reporting the identification of endogenously intact N-linked and O-linked glycopeptide and is also the largest data set of endogenously intact glycopeptides reported so far.
32090575	7	75	gly	glycopeptides	1219:1231	arg2	endogenously intact glycopeptides			endogenously intact glycopeptides						glycopeptides	This is the first study reporting the identification of endogenously intact N-linked and O-linked glycopeptide and is also the largest data set of endogenously intact glycopeptides reported so far.
33600144	3	20	gly	glycopeptide	513:524	arg2	glycopeptide enrichment			glycopeptide enrichment						glycopeptide	In this work, novel hollow MnFe2O4@C@APBA nanospheres (HMCAs) with magnetic and pH responsiveness were prepared for glycopeptide enrichment.
33421637	8	26	gly	glycoproteins	1737:1749	arg1	SMME-separated glycoproteins	SMME-separated glycoproteins				Fterm		glycoproteins			Furthermore, we successfully developed a fixation method for lectin blotting of SMME-separated glycoproteins and applied to the detection of glycosylation patterns of serum glycoproteins from Fut8+/+ and Fut8-/- mice, also, the method is promising for detecting glycan profiling differences between two samples in both research and clinical settings.
33421637	8	91	gly	glycosylation	1783:1795	arg1	serum glycoproteins	serum glycoproteins				Fterm		glycoproteins			Furthermore, we successfully developed a fixation method for lectin blotting of SMME-separated glycoproteins and applied to the detection of glycosylation patterns of serum glycoproteins from Fut8+/+ and Fut8-/- mice, also, the method is promising for detecting glycan profiling differences between two samples in both research and clinical settings.
33421637	8	95	gly	glycoproteins	1815:1827	arg1	serum glycoproteins	serum glycoproteins				Fterm		glycoproteins			Furthermore, we successfully developed a fixation method for lectin blotting of SMME-separated glycoproteins and applied to the detection of glycosylation patterns of serum glycoproteins from Fut8+/+ and Fut8-/- mice, also, the method is promising for detecting glycan profiling differences between two samples in both research and clinical settings.
32119847	6	48	gly	glycopeptides	974:986	arg2	glycopeptides			glycopeptides						glycopeptides	Here, we improved the performance of DIA glycoproteomics by using variable width windows optimized for glycopeptides.
32119847	7	81	gly	glycopeptides	1048:1060	arg2	glycopeptides			glycopeptides						glycopeptides	This method allocates narrow windows at m/z ranges rich in glycopeptides, improving analytical specificity and performance.
35515389	10	74	gly	glycoproteins	1724:1736	arg1	salivary glycoproteins	salivary glycoproteins				Fterm		glycoproteins			These results indicated that the glycopattern of LacNAc is increased in salivary glycoproteins from T2DM patients, and an increase in LacNAc-containing N/O-glycans may contribute to this alteration.
33599092	7	15	gly	IgG2	1320:1323	arg1	two galactose	IgG2			two galactose	OGER		IgG2	P01859		The changes of glycan features were elucidated by the exploration of individual glycopeptides, showing the biantennary fucosylated glycan without galactose (H3N4F1) or with two galactose (H5N4F1) of IgG1 and IgG2 could distinguish cancer group from both benign and control groups.
33599092	7	21	gly	glycopeptides	1192:1204	arg2	individual glycopeptides			individual glycopeptides						glycopeptides	The changes of glycan features were elucidated by the exploration of individual glycopeptides, showing the biantennary fucosylated glycan without galactose (H3N4F1) or with two galactose (H5N4F1) of IgG1 and IgG2 could distinguish cancer group from both benign and control groups.
33599092	7	34	gly	fucosylated	1231:1241	arg1	the biantennary fucosylated glycan				the biantennary fucosylated glycan						The changes of glycan features were elucidated by the exploration of individual glycopeptides, showing the biantennary fucosylated glycan without galactose (H3N4F1) or with two galactose (H5N4F1) of IgG1 and IgG2 could distinguish cancer group from both benign and control groups.
33599092	7	55	gly	IgG1	1311:1314	arg1	two galactose	IgG1			two galactose	OGER		IgG1	P01857		The changes of glycan features were elucidated by the exploration of individual glycopeptides, showing the biantennary fucosylated glycan without galactose (H3N4F1) or with two galactose (H5N4F1) of IgG1 and IgG2 could distinguish cancer group from both benign and control groups.
34552909	10	49	gly	O-glycoprotein	1689:1702	arg1	an O-glycoprotein	an O-glycoprotein				Fterm		O-glycoprotein			Our results reveal that the SARS-CoV-2 S protein is an O-glycoprotein; the O-glycosites and O-glycan compositions vary with the host cell type.
34552909	10	49	gly	O-glycoprotein	1689:1702	arg1	the SARS-CoV-2 S protein	the SARS-CoV-2 S protein				PUBTATOR		S protein	P04004		Our results reveal that the SARS-CoV-2 S protein is an O-glycoprotein; the O-glycosites and O-glycan compositions vary with the host cell type.
32812835	4	13	gly	afucosylated	678:689	arg1	afucosylated N-glycans				afucosylated N-glycans						However, it is unclear how the composition and levels of afucosylated N-glycans can modulate the biological activities for a recombinant antibody whose target is not a cell surface receptor, as is the case with ADCC.
33600144	6	26	gly	glycoproteins	1301:1313	arg1	210 glycoproteins	210 glycoproteins				Fterm		glycoproteins			In order to verify the application of materials in practice, the HMCAs were used for the analysis of complex samples and it was found that 474 glycopeptides were identified from 210 glycoproteins in three replicate analyses of 2 μL of human serum.
33600144	6	55	gly	glycopeptides	1262:1274	arg2	474 glycopeptides			474 glycopeptides						glycopeptides	In order to verify the application of materials in practice, the HMCAs were used for the analysis of complex samples and it was found that 474 glycopeptides were identified from 210 glycoproteins in three replicate analyses of 2 μL of human serum.
32135251	10	34	gly	used	1375:1378	arg2	the magnetic alginate/rice husk bio-composite			the magnetic alginate/rice husk bio-composite						bio-composite	The results showed that the magnetic alginate/rice husk bio-composite as low-cost and eco-friendly adsorbent can be effectively used for cationic dye removal steps in the environmental engineering applications.
32507195	2	32	gly	used	378:381	arg2	natural composition			natural composition						position	In this study, natural composition of cellaburate (cellulose-ester) and colophony (pine-resin) was used to prepare films to control ibuprofen release from its amorphous solid dispersion.
32090575	4	8	gly	glycopeptides	705:717	arg2	the endogenously intact glycopeptides			the endogenously intact glycopeptides						glycopeptides	In this platform, the high-temperature acid denaturation, ultrafiltration, and hydrophilic interaction chromatography steps are combined together for the highly efficient extraction of the endogenously intact glycopeptides from a small amount of serum.
32119847	8	87	gly	glycopeptide	1193:1204	arg2	accurate glycopeptide measurement			accurate glycopeptide measurement						glycopeptide	We show that related glycoforms must fall in separate windows to allow accurate glycopeptide measurement.
32890396	6	20	gly	glycoprotein	1105:1116	arg1	the spike glycoprotein	the spike glycoprotein				PUBTATOR		spike glycoprotein	43740568		In order to aid structure-based design and analysis of the spike glycoprotein, CoV3D permits visualization and download of spike structures with modeled N-glycosylation at known glycan sites, and contains structure-based classification of spike conformations, generated by unsupervised clustering.
32890396	6	51	gly	N-glycosylation	1193:1207	arg1	known glycan sites				known glycan sites						In order to aid structure-based design and analysis of the spike glycoprotein, CoV3D permits visualization and download of spike structures with modeled N-glycosylation at known glycan sites, and contains structure-based classification of spike conformations, generated by unsupervised clustering.
32090575	1	56	gly	glycopeptides	127:139	arg2	Endogenous glycopeptides			Endogenous glycopeptides						glycopeptides	Endogenous glycopeptides in serum are an invaluable resource for biomarker discovery.
33908003	8	54	gly	glycopeptide	1354:1365	arg2	total and unique glycopeptide identifications			total and unique glycopeptide identifications						glycopeptide	Glycopeptide data generated using the SAX-ERLIC enrichment yields a high number of total and unique glycopeptide identifications which can be mapped back to proteins.
34229015	1	9	gly	utilized	385:392	arg2	Chitosan/montmorillonite (CTS/MMT) and chitosan‑gold nanoparticles/montmorillonite (CTS-Au/MMT) composites			Chitosan/montmorillonite (CTS/MMT) and chitosan‑gold nanoparticles/montmorillonite (CTS-Au/MMT) composites						composites	Chitosan/montmorillonite (CTS/MMT) and chitosan‑gold nanoparticles/montmorillonite (CTS-Au/MMT) composites were prepared, characterized through Fourier transformed infrared (FT-IR), X-ray powder diffraction (XRD), and scanning electron microscopy (SEM), and utilized as support for immobilization of polyphenol oxidase (PPO).
34108935	0	79	gly	Sex-Differences	32:46	arg1	Pancreatic Heparan Sulfate Glycosaminoglycans	Sex			Pancreatic Heparan Sulfate Glycosaminoglycans	OGER		Sex	P51805		Offspring of Obese Dams Exhibit Sex-Differences in Pancreatic Heparan Sulfate Glycosaminoglycans and Islet Insulin Secretion.
32090575	6	59	gly	N-glycopeptides	948:962	arg2	223 intact N-glycopeptides			223 intact N-glycopeptides						N-glycopeptides	In total, 223 intact N-glycopeptides and 51 intact O-glycopeptides are identified from only 40 μL of the human serum sample.
32090575	6	64	gly	O-glycopeptides	978:992	arg2	51 intact O-glycopeptides			51 intact O-glycopeptides						O-glycopeptides	In total, 223 intact N-glycopeptides and 51 intact O-glycopeptides are identified from only 40 μL of the human serum sample.
32090575	3	42	gly	glycopeptides	481:493	arg2	N-linked and O-linked endogenously intact glycopeptides			N-linked and O-linked endogenously intact glycopeptides						glycopeptides	Herein, an integrated platform is fabricated for the identification of N-linked and O-linked endogenously intact glycopeptides.
34965723	3	20	gly	glycopeptide	429:440	arg1	L-lysine			lysine	saccharide-grafted ε-poly					lysine	Herein, we develop a novel ACTIVE glycopeptide of saccharide-grafted ε-poly(L-lysine), that can be credited with adsorption on membrane surfaces, cryopreservation with trehalose, and icephilicity for validity of human erythrocytes.
34965723	3	20	gly	glycopeptide	429:440	arg2	a novel ACTIVE glycopeptide			glycopeptide	saccharide-grafted ε-poly					glycopeptide	Herein, we develop a novel ACTIVE glycopeptide of saccharide-grafted ε-poly(L-lysine), that can be credited with adsorption on membrane surfaces, cryopreservation with trehalose, and icephilicity for validity of human erythrocytes.
33093930	6	1	gly	glycoprotein	1055:1066	arg1	3D glycoprotein structures	3D glycoprotein structures				Fterm		glycoprotein			In the present work, we will describe how the Privateer carbohydrate structure validation software has been extended to harness results from glycomics projects, and its use to greatly improve the validation of 3D glycoprotein structures.
34564432	3	35	gly	Tf	377:378	arg1	Glycan structures	Tf			Glycan structures	Cterm		Tf	P02787		Glycan structures of CSF Tf were analyzed by ultra-performance liquid chromatography followed by mass spectrometry.
32817557	1	39	gly	O-glycosylated	116:129	arg1	Densely O-glycosylated mucin domains			Densely O-glycosylated mucin domains						domains	Densely O-glycosylated mucin domains are found in a broad range of cell surface and secreted proteins, where they play key physiological roles.
32764206	0	11	gly	Increase	0:7	arg1	the Lipopolysaccharide Activity	Increase			the Lipopolysaccharide Activity	Fterm		Increase			Increase in the Lipopolysaccharide Activity and Accumulation of Gram-Negative Bacteria in the Stomach With Low Acidity.
32008582	1	88	gly	sialylated	198:207	arg1	a sialylated phosphorylated peptide			a sialylated phosphorylated peptide						peptide	Bovine κ-casein glycomacropeptide (GMP) found in cheese whey is a sialylated phosphorylated peptide which is thought to be a potential ingredient for functional food as well as dietetic food.
32008582	1	88	gly	sialylated	198:207	arg1	Bovine κ-casein glycomacropeptide			Bovine κ-casein glycomacropeptide						glycomacropeptide	Bovine κ-casein glycomacropeptide (GMP) found in cheese whey is a sialylated phosphorylated peptide which is thought to be a potential ingredient for functional food as well as dietetic food.
32693125	13	96	gly	used	1405:1408	arg2	These composites			These composites						composites	These composites were used to treat cotton fabric to produce easily applicable and extended-release transdermal patches.
33600144	7	80	gly	glycopeptide	1454:1465	arg2	glycopeptide			glycopeptide						glycopeptide	The results showed that the HMCAs could be used as a promising enrichment material for glycopeptide characterization in MS-based glycoproteomics and related fields.
32090575	8	0	gly	glycans	1271:1277	arg1	peptides			peptides	peptides		Site			peptides	The distributions of glycans among peptides and proteins and cleavage sites on peptides are further analyzed to seek the regulation of endogenous glycosylation for disease mechanism.
34847186	3	66	gly	non-glycosylated	414:429	arg1	a non-glycosylated protein	a non-glycosylated protein				Fterm		protein			The FDA-approved human tissue plasminogen activator Reteplase (rPA) is a non-glycosylated protein produced in E. coli.
34847186	3	66	gly	non-glycosylated	414:429	arg1	The FDA-approved human tissue plasminogen activator Reteplase	The FDA-approved human tissue plasminogen activator Reteplase				OGER		tissue plasminogen activator Reteplase	P00750		The FDA-approved human tissue plasminogen activator Reteplase (rPA) is a non-glycosylated protein produced in E. coli.
32553963	5	44	gly	used	745:748	arg2	the prepared nanocomposite			the prepared nanocomposite						nanocomposite	Then the prepared nanocomposite used as superior antibacterial materials with minimum toxicity.
31937642	3	10	gly	core-fucosylated	631:646	arg1	the core-fucosylated structures				the core-fucosylated structures						We have identified in Lactobacillus casei strain BL23 a gene cluster (alf-2) involved in the catabolism of the glycoamino acid fucosyl-α-1,6-N-GlcNAc-Asn (6'FN-Asn), a constituent of the core-fucosylated structures of mammalian N-glycoproteins.
31937642	3	38	gly	N-glycoproteins	672:686	arg1	the core-fucosylated structures	N-glycoproteins			the core-fucosylated structures	Fterm		N-glycoproteins			We have identified in Lactobacillus casei strain BL23 a gene cluster (alf-2) involved in the catabolism of the glycoamino acid fucosyl-α-1,6-N-GlcNAc-Asn (6'FN-Asn), a constituent of the core-fucosylated structures of mammalian N-glycoproteins.
33379036	9	28	gly	glycoproteins	2062:2074	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			The advancement in methods for human milk N-glycoproteins provided by this study represents a key step for better understanding the function of glycoproteins within the breast milk-fed infant.
33379036	9	73	gly	N-glycoproteins	1960:1974	arg1	human milk N-glycoproteins	human milk N-glycoproteins				Fterm		N-glycoproteins			The advancement in methods for human milk N-glycoproteins provided by this study represents a key step for better understanding the function of glycoproteins within the breast milk-fed infant.
33421637	5	37	gly	glycosylation	974:986	arg1	serum proteins	serum proteins				Fterm		proteins			We applied these techniques for the detection of glycosylation patterns of serum proteins from Fut8+/+ and Fut8-/- mice, further analyzed N-linked and O-linked glycans from the separated γ-bands by mass spectrometry, and demonstrated that there are α2,8-sialylated O-glycans contained in mouse sera glycoproteins.
33421637	5	92	gly	α2,8-sialylated	1174:1188	arg1	α2,8-sialylated O-glycans				α2,8-sialylated O-glycans						We applied these techniques for the detection of glycosylation patterns of serum proteins from Fut8+/+ and Fut8-/- mice, further analyzed N-linked and O-linked glycans from the separated γ-bands by mass spectrometry, and demonstrated that there are α2,8-sialylated O-glycans contained in mouse sera glycoproteins.
33421637	5	97	gly	glycoproteins	1224:1236	arg1	mouse sera glycoproteins	mouse sera glycoproteins				Fterm		glycoproteins			We applied these techniques for the detection of glycosylation patterns of serum proteins from Fut8+/+ and Fut8-/- mice, further analyzed N-linked and O-linked glycans from the separated γ-bands by mass spectrometry, and demonstrated that there are α2,8-sialylated O-glycans contained in mouse sera glycoproteins.
33232701	7	54	gly	used	1116:1119	arg2	CS-PVA@CuO polymer nanocomposite			CS-PVA@CuO polymer nanocomposite						nanocomposite	Remarkably, the results reveal the highest adsorption capacity of the CS-PVA@CuO was 171.4 mg/g at 313 K. To be specific, CS-PVA@CuO polymer nanocomposite can be effectively used as a suitable adsorbent material for the potential elimination of anionic AB25 dye from the aqueous solutions.
34965723	8	76	gly	glycopeptide	1551:1562	arg2	the ACTIVE glycopeptide			the ACTIVE glycopeptide						glycopeptide	Therefore, the ACTIVE glycopeptide can be applied as a trehalose-associated "chaperone", providing a new way to serve as a candidate in glycerol-free human erythrocyte cryopreservation.
35515389	5	19	gly	glycoproteins	852:864	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Then, lectin-mediated affinity capture of glycoproteins and MALDI-TOF/TOF-MS were performed to obtain the precise structural information of the altered glycans.
33379036	5	63	gly	glycopeptide	996:1007	arg2	tryptic glycopeptide enrichment			tryptic glycopeptide enrichment						glycopeptide	To decrease interference from non-target molecules, we compared techniques for protein extraction, including ethanol (EtOH) precipitation, trichloroacetic acid precipitation, molecular weight cut-off filtration and techniques for tryptic glycopeptide enrichment, including C18-, porous graphitized carbon and hydrophilic interaction liquid chromatography (HILIC)-solid phase extraction (SPE) and acetone precipitation.
33379036	0	19	gly	N-glycoproteins	159:173	arg1	human milk N-glycoproteins	human milk N-glycoproteins				Fterm		N-glycoproteins			Systematic examination of protein extraction, proteolytic glycopeptide enrichment and MS/MS fragmentation techniques for site-specific profiling of human milk N-glycoproteins.
33379036	0	53	gly	glycopeptide	58:69	arg2	proteolytic glycopeptide enrichment			proteolytic glycopeptide enrichment						glycopeptide	Systematic examination of protein extraction, proteolytic glycopeptide enrichment and MS/MS fragmentation techniques for site-specific profiling of human milk N-glycoproteins.
33908003	5	34	gly	glycopeptides	788:800	arg2	glycopeptides			glycopeptides						glycopeptides	Enrichment of glycopeptides from a protein enzymatic digest is an effective approach to overcome such challenges.
32324770	1	0	gly	found	201:205	arg2	insect glycoproteins AND BACKGROUND Cross-reactive carbohydrate determinant (CCD) structures	insect glycoproteins			BACKGROUND Cross-reactive carbohydrate determinant (CCD) structures	Fterm		glycoproteins			BACKGROUND Cross-reactive carbohydrate determinant (CCD) structures found in plant and insect glycoproteins are commonly recognized by IgE antibodies as epitopes that can lead to extensive cross-reactivity and obscure in vitro diagnostic (IVD) serology results.
32324770	1	76	gly	glycoproteins	227:239	arg1	insect glycoproteins	insect glycoproteins				Fterm		glycoproteins			BACKGROUND Cross-reactive carbohydrate determinant (CCD) structures found in plant and insect glycoproteins are commonly recognized by IgE antibodies as epitopes that can lead to extensive cross-reactivity and obscure in vitro diagnostic (IVD) serology results.
32027899	11	45	gly	used	1407:1410	arg2	this functionalized magnetic hybrid composite			this functionalized magnetic hybrid composite						composite	Therefore, this functionalized magnetic hybrid composite might be used to immobilize laccase, an industrially important enzyme.
32812835	2	26	gly	Afucosylated	264:275	arg1	Afucosylated N-glycans				Afucosylated N-glycans						Afucosylated N-glycans have been shown to significantly alter binding to FcγRIIIa and affect antibody-dependent cell-mediated cytotoxicity (ADCC).
34552909	7	21	gly	O-glycopeptides	1291:1305	arg2	407 intact O-glycopeptides			407 intact O-glycopeptides						O-glycopeptides	In contrast, in the human cell-expressed S protein S1 subunit, 407 intact O-glycopeptides composed of 34 peptides sequences and 30 O-glycosites were discovered by HCD, and 11 O-glycosites were unambiguously assigned by EThcD.
34552909	7	46	gly	O-glycosites	1392:1403	arg2	11 O-glycosites			11 O-glycosites						O-glycosites	In contrast, in the human cell-expressed S protein S1 subunit, 407 intact O-glycopeptides composed of 34 peptides sequences and 30 O-glycosites were discovered by HCD, and 11 O-glycosites were unambiguously assigned by EThcD.
34552909	7	58	gly	O-glycosites	1348:1359	arg2	30 O-glycosites			30 O-glycosites						O-glycosites	In contrast, in the human cell-expressed S protein S1 subunit, 407 intact O-glycopeptides composed of 34 peptides sequences and 30 O-glycosites were discovered by HCD, and 11 O-glycosites were unambiguously assigned by EThcD.
34076032	7	39	gly	sialylated	1230:1239	arg1	sialylated glycan				sialylated glycan						Analysis of the mechanism reveals that the sialic acid or sialylated glycan can interact closely with two PyHis molecules stacked together in the assemblies via hydrogen bonding interactions, thereby preventing the ordered accumulation of the gelators.
34906850	4	43	gly	N-glycosylation	925:939	arg1	high mannose-type N-glycans				high mannose-type N-glycans						In vivo imaging revealed that circulation, clearance, and organotropic biodistribution of cancer glyconanosomes in mice depend strongly on cancer cell-type-specific N-glycosylation patterns, the compositions of key glycotypes, particularly dominant abundances of high mannose-type N-glycans and the position-specific sialylation.
34906850	4	64	gly	sialylation	1077:1087	arg1	high mannose-type N-glycans				high mannose-type N-glycans						In vivo imaging revealed that circulation, clearance, and organotropic biodistribution of cancer glyconanosomes in mice depend strongly on cancer cell-type-specific N-glycosylation patterns, the compositions of key glycotypes, particularly dominant abundances of high mannose-type N-glycans and the position-specific sialylation.
32378017	3	2	gly	serine	542:547	arg1	previously undescribed O-linked monosaccharide compositions			serine 141	previously undescribed O-linked monosaccharide compositions			factor IX	P00740	serine 141	Here, we investigated the post-translational modifications of human serum-derived Factor IX and report previously undescribed O-linked monosaccharide compositions at serine 141 and a novel site of glycosylation.
32378017	3	22	gly	glycosylation	573:585	arg2	a novel site			a novel site						site	Here, we investigated the post-translational modifications of human serum-derived Factor IX and report previously undescribed O-linked monosaccharide compositions at serine 141 and a novel site of glycosylation.
33407116	1	106	gly	glycosylated	281:292	arg1	hydroxyproline-rich proteins	hydroxyproline-rich proteins				Fterm		proteins			BACKGROUND Arabinogalactan-proteins (AGPs) are a class of hydroxyproline-rich proteins (HRGPs) that are heavily glycosylated (> 90%) with type II arabinogalactans (AGs).
32410075	4	8	gly	ECM	715:717	arg1	proteoglycans	ECM			proteoglycans	OGER		ECM	Q13201		In this study, a novel network model was developed to incorporate the combinatorial effect of lung tissue ECM constituents such as collagen, elastin and proteoglycans (PGs) and used to mimic the experimentally derived length-tension response of the tissue to uniaxial loading.
34847186	11	33	gly	fucosylated	1746:1756	arg1	α2,6-sialylated and α1,6-core fucosylated N-glycans				α2,6-sialylated and α1,6-core fucosylated N-glycans						Finally, we addressed concerns with the plant-specific glycosylation by modulating rPA-Fc glycosylation towards serum-like structures including α2,6-sialylated and α1,6-core fucosylated N-glycans completely devoid of plant core fucose and xylose residues.
34847186	11	60	gly	α2,6-sialylated	1716:1730	arg1	α2,6-sialylated and α1,6-core fucosylated N-glycans				α2,6-sialylated and α1,6-core fucosylated N-glycans						Finally, we addressed concerns with the plant-specific glycosylation by modulating rPA-Fc glycosylation towards serum-like structures including α2,6-sialylated and α1,6-core fucosylated N-glycans completely devoid of plant core fucose and xylose residues.
33125406	4	5	gly	%	731:731	arg1	0% carbohydrate	90% fat, 10			0% carbohydrate	OGER		90% fat, 10	Q921A3		After male Wistar rats (8 weeks of age) were assigned randomly to a control group (CON) and a ketogenic diet group (KD), they were fed for 4 weeks respectively with a control diet (10% fat, 10% protein, 80% carbohydrate) and a ketogenic diet (90% fat, 10% protein, 0% carbohydrate).
33125406	4	92	gly	%	669:669	arg1	80% carbohydrate	10% fat, 10			80% carbohydrate	OGER		10% fat, 10	Q921A3		After male Wistar rats (8 weeks of age) were assigned randomly to a control group (CON) and a ketogenic diet group (KD), they were fed for 4 weeks respectively with a control diet (10% fat, 10% protein, 80% carbohydrate) and a ketogenic diet (90% fat, 10% protein, 0% carbohydrate).
34552909	9	3	gly	modified	1536:1543	arg3	Most glycosites AND sialylated O-glycans			Most glycosites	sialylated O-glycans					glycosites	Most glycosites were modified by sialylated O-glycans such as HexNAc(1)Hex (1)NeuAc (1) and HexNAc(1)Hex (1)NeuAc (2).
34552909	9	3	gly	modified	1536:1543	arg3	Most glycosites AND HexNAc(1)Hex (1)NeuAc (1)			Most glycosites	HexNAc(1)Hex (1)NeuAc (1)					glycosites	Most glycosites were modified by sialylated O-glycans such as HexNAc(1)Hex (1)NeuAc (1) and HexNAc(1)Hex (1)NeuAc (2).
34552909	9	3	gly	modified	1536:1543	arg3	Most glycosites AND HexNAc(1)Hex (1)NeuAc (2)			Most glycosites	HexNAc(1)Hex (1)NeuAc (2)					glycosites	Most glycosites were modified by sialylated O-glycans such as HexNAc(1)Hex (1)NeuAc (1) and HexNAc(1)Hex (1)NeuAc (2).
34552909	9	27	gly	glycosites	1520:1529	arg2	Most glycosites			Most glycosites						glycosites	Most glycosites were modified by sialylated O-glycans such as HexNAc(1)Hex (1)NeuAc (1) and HexNAc(1)Hex (1)NeuAc (2).
34552909	9	34	gly	sialylated	1548:1557	arg1	sialylated O-glycans				sialylated O-glycans						Most glycosites were modified by sialylated O-glycans such as HexNAc(1)Hex (1)NeuAc (1) and HexNAc(1)Hex (1)NeuAc (2).
34552909	9	34	gly	sialylated	1548:1557	arg1	HexNAc(1)Hex (1)NeuAc (1)				HexNAc(1)Hex (1)NeuAc (1)						Most glycosites were modified by sialylated O-glycans such as HexNAc(1)Hex (1)NeuAc (1) and HexNAc(1)Hex (1)NeuAc (2).
34552909	9	34	gly	sialylated	1548:1557	arg1	HexNAc(1)Hex (1)NeuAc (2)				HexNAc(1)Hex (1)NeuAc (2)						Most glycosites were modified by sialylated O-glycans such as HexNAc(1)Hex (1)NeuAc (1) and HexNAc(1)Hex (1)NeuAc (2).
32119847	2	76	gly	glycoproteins	384:396	arg1	glycoproteins	glycoproteins				Fterm		glycoproteins			Sequential window acquisition of all theoretical fragment ion spectra mass spectrometry (SWATH) has proven useful as a data independent acquisition (DIA) MS method for analysis of glycoproteins and their glycan modifications.
32490561	5	25	gly	used	627:630	arg2	calcitonin-gene-related peptide			calcitonin-gene-related peptide						peptide	Naringin (NG) and calcitonin-gene-related peptide (CGRP) were used as osteogenic factors in the fabrication of drug-loaded scaffolds.
32119847	9	71	gly	glycopeptides	1393:1405	arg2	glycopeptides			glycopeptides						glycopeptides	We demonstrate the utility of the method by comparing the cell wall glycoproteomes of wild-type and N-glycan biosynthesis deficient yeast and showing improved measurement of glycopeptides with different glycan structures.
32148852	8	60	gly	glycosylated	1440:1451	arg1	native LAP	native LAP				PUBTATOR		LAP	Q9HC77		Although native LAP is heavily glycosylated, solution scattering experiments show that the overall folding and flexibility of unbound LAP are not influenced by glycan modification.
33379036	8	0	gly	glycoproteins	1902:1914	arg1	11 glycoproteins	11 glycoproteins				Fterm		glycoproteins			This optimized approach significantly increased the number of N-glycopeptides and precursor N-glycoproteins (246 N-glycopeptides from 29 glycoproteins) compared with a more common extraction approach with no protein extraction and C18 clean-up (62 N-glycopeptides from 11 glycoproteins).
33379036	8	64	gly	glycoproteins	1767:1779	arg1	29 glycoproteins	29 glycoproteins				Fterm		glycoproteins			This optimized approach significantly increased the number of N-glycopeptides and precursor N-glycoproteins (246 N-glycopeptides from 29 glycoproteins) compared with a more common extraction approach with no protein extraction and C18 clean-up (62 N-glycopeptides from 11 glycoproteins).
33379036	8	79	gly	N-glycopeptides	1692:1706	arg2	N-glycopeptides			N-glycopeptides						N-glycopeptides	This optimized approach significantly increased the number of N-glycopeptides and precursor N-glycoproteins (246 N-glycopeptides from 29 glycoproteins) compared with a more common extraction approach with no protein extraction and C18 clean-up (62 N-glycopeptides from 11 glycoproteins).
33379036	8	95	gly	extraction	1846:1855	arg1	62 N-glycopeptides			62 N-glycopeptides						62 N-glycopeptides	This optimized approach significantly increased the number of N-glycopeptides and precursor N-glycoproteins (246 N-glycopeptides from 29 glycoproteins) compared with a more common extraction approach with no protein extraction and C18 clean-up (62 N-glycopeptides from 11 glycoproteins).
33379036	8	62	gly	N-glycoproteins	1722:1736	arg1	246 N-glycopeptides	N-glycoproteins		246 N-glycopeptides		Fterm		N-glycoproteins		246 N-glycopeptides	This optimized approach significantly increased the number of N-glycopeptides and precursor N-glycoproteins (246 N-glycopeptides from 29 glycoproteins) compared with a more common extraction approach with no protein extraction and C18 clean-up (62 N-glycopeptides from 11 glycoproteins).
33379036	8	29	gly	246 N-glycopeptides	1739:1757	arg2	246 N-glycopeptides	glycoproteins		246 N-glycopeptides		Fterm		glycoproteins		246 N-glycopeptides	This optimized approach significantly increased the number of N-glycopeptides and precursor N-glycoproteins (246 N-glycopeptides from 29 glycoproteins) compared with a more common extraction approach with no protein extraction and C18 clean-up (62 N-glycopeptides from 11 glycoproteins).
33379036	8	109	gly	62 N-glycopeptides	1875:1892	arg1	11 glycoproteins	glycoproteins		62 N-glycopeptides		Fterm		glycoproteins		62 N-glycopeptides	This optimized approach significantly increased the number of N-glycopeptides and precursor N-glycoproteins (246 N-glycopeptides from 29 glycoproteins) compared with a more common extraction approach with no protein extraction and C18 clean-up (62 N-glycopeptides from 11 glycoproteins).
33093930	0	39	gly	glycoprotein	29:40	arg1	glycoprotein 3D structure	glycoprotein 3D structure				Fterm		glycoprotein			Leveraging glycomics data in glycoprotein 3D structure validation with Privateer.
32829815	4	52	gly	used	750:753	arg2	An in-situ grafting polymerized cellulose nanocrystal (CNC)/PBAT (CNC-g-PBAT) nanocomposite			An in-situ grafting polymerized cellulose nanocrystal (CNC)/PBAT (CNC-g-PBAT) nanocomposite						nanocomposite	An in-situ grafting polymerized cellulose nanocrystal (CNC)/PBAT (CNC-g-PBAT) nanocomposite consisting of ungrafted/free PBAT (PBATf) was used as an inclusion directly to reinforce a commercial PBAT.
32422052	8	3	gly	contained	1138:1146	arg1	black eyed peas AND total soluble sugars	black eyed peas			total soluble sugars	OGER		peas	Q9BQ90		Yellow split beans, large lima, and black eyed peas contained higher amounts of total soluble sugars (79.8-83.6 mg/g), whereas lower amounts were observed in speckled butter peas and lentils (53.6-56.6 mg/g).
32119847	0	25	gly	glycoprotein	77:88	arg1	improved data independent acquisition glycoprotein analysis	improved data independent acquisition glycoprotein analysis				Fterm		glycoprotein			Glycopeptide variable window SWATH for improved data independent acquisition glycoprotein analysis.
32577656	5	8	gly	glycoprotein	865:876	arg1	the spike glycoprotein	the spike glycoprotein				Fterm		glycoprotein			Integrated molecular viewers allow users to visualize structures of the spike glycoprotein, which is the major target of neutralizing antibodies and vaccine design efforts, as well as sets of spike-antibody complexes, spike sequence variability, and known polymorphisms.
33987106	0	65	gly	Lipopolysaccharide	112:129	arg1	Mice	Mice			Lipopolysaccharide	Cterm		Mice			Gut Microbiota Mediates the Preventive Effects of Dietary Capsaicin Against Depression-Like Behavior Induced by Lipopolysaccharide in Mice.
33600144	2	66	gly	nonglycopeptides	379:394	arg2	nonglycopeptides			nonglycopeptides						nonglycopeptides	Enrichment materials play a key role in this process; they must have an effective sample-screening ability to eliminate the interference of nonglycopeptides.
34206199	3	29	gly	used	733:736	arg2	bacterial cellulose composites			bacterial cellulose composites						composites	Osmotica large enough to be excluded from plant cell walls and bacterial cellulose composites with other cell wall polysaccharides were used to alter their water content and to demonstrate that the relationship between water potential and degree of hydration of these materials is affected by their composition.
34206199	3	60	gly	composites	680:689	arg1	other cell wall polysaccharides			composites	other cell wall polysaccharides					composites	Osmotica large enough to be excluded from plant cell walls and bacterial cellulose composites with other cell wall polysaccharides were used to alter their water content and to demonstrate that the relationship between water potential and degree of hydration of these materials is affected by their composition.
34552909	4	11	gly	proteins	661:668	arg1	the GalNAc-type O-glycosylation pattern	S proteins			the GalNAc-type O-glycosylation pattern	Cterm		S proteins	43740568		Following digestion with trypsin and trypsin/Glu-C, and de-N-glycosylation using PNGase F, we determined the GalNAc-type O-glycosylation pattern of S proteins, including O-glycosites and the six most common O-glycans occupying them, via Byonic identification and manual validation.
34552909	4	52	gly	O-glycosites	681:692	arg2	O-glycosites			O-glycosites						O-glycosites	Following digestion with trypsin and trypsin/Glu-C, and de-N-glycosylation using PNGase F, we determined the GalNAc-type O-glycosylation pattern of S proteins, including O-glycosites and the six most common O-glycans occupying them, via Byonic identification and manual validation.
34552909	4	64	gly	S	659:659	arg1	the six most common O-glycans	S proteins			the six most common O-glycans	Cterm		S proteins	43740568		Following digestion with trypsin and trypsin/Glu-C, and de-N-glycosylation using PNGase F, we determined the GalNAc-type O-glycosylation pattern of S proteins, including O-glycosites and the six most common O-glycans occupying them, via Byonic identification and manual validation.
34552909	4	74	gly	O-glycosylation	632:646	arg1	O-glycosites	S proteins		O-glycosites		Cterm		S proteins	43740568	O-glycosites	Following digestion with trypsin and trypsin/Glu-C, and de-N-glycosylation using PNGase F, we determined the GalNAc-type O-glycosylation pattern of S proteins, including O-glycosites and the six most common O-glycans occupying them, via Byonic identification and manual validation.
34552909	4	74	gly	O-glycosylation	632:646	arg1	the six most common O-glycans	S proteins			the six most common O-glycans	Cterm		S proteins	43740568		Following digestion with trypsin and trypsin/Glu-C, and de-N-glycosylation using PNGase F, we determined the GalNAc-type O-glycosylation pattern of S proteins, including O-glycosites and the six most common O-glycans occupying them, via Byonic identification and manual validation.
34552909	4	74	gly	O-glycosylation	632:646	arg1	the six most common O-glycans			O-glycosites	the six most common O-glycans					O-glycosites	Following digestion with trypsin and trypsin/Glu-C, and de-N-glycosylation using PNGase F, we determined the GalNAc-type O-glycosylation pattern of S proteins, including O-glycosites and the six most common O-glycans occupying them, via Byonic identification and manual validation.
31937642	2	73	gly	N-glycoproteins	282:296	arg1	N-glycoproteins	N-glycoproteins				Fterm		N-glycoproteins			The use of the glycosidic moiety of N-glycoproteins by bacteria has been reported, but the role of N-glycopeptides or glycoamino acids as the substrates for bacterial growth has not been evaluated.
31937642	2	123	gly	N-glycopeptides	345:359	arg2	N-glycopeptides or glycoamino acids			N-glycopeptides or glycoamino acids						N-glycopeptides	The use of the glycosidic moiety of N-glycoproteins by bacteria has been reported, but the role of N-glycopeptides or glycoamino acids as the substrates for bacterial growth has not been evaluated.
33407116	6	91	gly	glycosylated	1228:1239	arg1	significantly less glycosylated AGPs	significantly less glycosylated AGPs				OGER		AGPs	O00116		AGPs analysis of higher-order galt mutants (galt2 galt5, galt3 galt4 galt6, and galt2 galt3 galt4 galt5 gal6) demonstrated significantly less glycosylated AGPs in rosette leaves, stems, and siliques compared to the corresponding wild-type organs.
32944295	3	33	gly	N-glycosylation	318:332	arg2	all N-glycosylation sites			all N-glycosylation sites						sites	We model the trimeric Spike protein, including flexible loops and all N-glycosylation sites, in order to elucidate accessible epitopes for antibody-based diagnostics, therapeutics and vaccine development.
32817557	0	34	gly	glycoproteins	93:105	arg1	mucin-domain glycoproteins	mucin-domain glycoproteins				Fterm		glycoproteins			An enzymatic toolkit for selective proteolysis, detection, and visualization of mucin-domain glycoproteins.
34552909	5	6	gly	O-glycosites	870:881	arg2	43 O-glycosites			43 O-glycosites						O-glycosites	Finally, 255 intact O-glycopeptides composed of 50 peptides sequences and 43 O-glycosites were discovered by higher energy collision-induced dissociation (HCD), and three O-glycosites were confidently identified by electron transfer/higher energy collision-induced dissociation (EThcD) in the insect cell-expressed S protein.
34552909	5	23	gly	O-glycosites	964:975	arg2	three O-glycosites			three O-glycosites						O-glycosites	Finally, 255 intact O-glycopeptides composed of 50 peptides sequences and 43 O-glycosites were discovered by higher energy collision-induced dissociation (HCD), and three O-glycosites were confidently identified by electron transfer/higher energy collision-induced dissociation (EThcD) in the insect cell-expressed S protein.
34552909	5	44	gly	O-glycopeptides	813:827	arg2	255 intact O-glycopeptides			255 intact O-glycopeptides						O-glycopeptides	Finally, 255 intact O-glycopeptides composed of 50 peptides sequences and 43 O-glycosites were discovered by higher energy collision-induced dissociation (HCD), and three O-glycosites were confidently identified by electron transfer/higher energy collision-induced dissociation (EThcD) in the insect cell-expressed S protein.
31972331	6	91	gly	domain	1134:1139	arg1	TG type 1-6 repeat			domain	TG type 1-6 repeat					domain	Sequencing analyses revealed three random mutations, which accidentally emerged during the course of cloning: c.1712T>C [p.L571P] in the linker domain (amino acid positions 360 to 604), c.2027A>G [p.Q676R] in TG type 1-6 repeat and c.2720A>G [p.Q907R] in the TG type 1-7 repeat.
32812835	6	22	gly	fucosylated	1184:1194	arg1	fucosylated glycoforms				fucosylated glycoforms						While either the presence of complex biantennary or high mannose afucosylated glycoforms significantly increased FcγRIIIa binding activity compared to fucosylated glycoforms, they did not similarly increase aggregated Aβ uptake activity mediated by different effector cells.
32812835	6	31	gly	afucosylated	1098:1109	arg1	high mannose afucosylated glycoforms				high mannose afucosylated glycoforms						While either the presence of complex biantennary or high mannose afucosylated glycoforms significantly increased FcγRIIIa binding activity compared to fucosylated glycoforms, they did not similarly increase aggregated Aβ uptake activity mediated by different effector cells.
32812835	6	56	gly	glycoforms	1111:1120	arg1	high mannose afucosylated glycoforms				high mannose afucosylated glycoforms						While either the presence of complex biantennary or high mannose afucosylated glycoforms significantly increased FcγRIIIa binding activity compared to fucosylated glycoforms, they did not similarly increase aggregated Aβ uptake activity mediated by different effector cells.
32812835	5	5	gly	afucosylated	899:910	arg1	enriched afucosylated N-glycan species				enriched afucosylated N-glycan species						The impact of different types and varying levels of enriched afucosylated N-glycan species on the in vitro bioactivities is assessed for an antibody whose target is aggregated amyloid beta (Aβ).
32758606	8	3	gly	used	1390:1393	arg2	the synthesized polymer composite			the synthesized polymer composite						composite	Adsorption-desorption experiments revealed that the synthesized polymer composite could be used for up to four consecutive cycles.
32090575	2	86	gly	glycopeptides	325:337	arg2	endogenously intact glycopeptides			endogenously intact glycopeptides						glycopeptides	Due to the low abundance and the poor fragmentation in tandem mass spectrometry, the identification of endogenously intact glycopeptides still faces many challenges.
34192263	7	8	gly	sites	1049:1053	arg1	different glycan structures			sites	different glycan structures					sites	In addition to previously proposed and observed glycosylation sites, our map shows density at other sites, as well as different glycan structures.
34192263	7	47	gly	glycosylation	997:1009	arg2	observed glycosylation sites			observed glycosylation sites						sites	In addition to previously proposed and observed glycosylation sites, our map shows density at other sites, as well as different glycan structures.
33379036	2	56	gly	glycoproteins	337:349	arg1	human milk glycoproteins	human milk glycoproteins				Fterm		glycoproteins			Increasing understanding of the functional role of human milk glycoproteins within the infant requires toolsets to comprehensively profile their site-specific glycosylation patterns.
31972331	1	107	gly	glycosylated	110:121	arg1	Thyroglobulin	Thyroglobulin				PUBTATOR		Thyroglobulin	P01266		Thyroglobulin (TG), a large glycosylated protein secreted by thyrocytes into the thyroid follicular lumen, plays an essential role in thyroid hormone biosynthesis.
31972331	1	107	gly	glycosylated	110:121	arg1	a large glycosylated protein	a large glycosylated protein				Fterm		protein			Thyroglobulin (TG), a large glycosylated protein secreted by thyrocytes into the thyroid follicular lumen, plays an essential role in thyroid hormone biosynthesis.
32090575	5	36	gly	glycopeptides	898:910	arg2	N-linked and O-linked endogenous glycopeptides			N-linked and O-linked endogenous glycopeptides						glycopeptides	Additionally, the twin-spectra scheme and in silico deglycosylation strategy were applied for the identification of N-linked and O-linked endogenous glycopeptides, respectively.
32817557	8	56	gly	glycoproteins	1304:1316	arg1	mucin-domain glycoproteins	mucin-domain glycoproteins				Fterm		glycoproteins			We demonstrated that these catalytically inactive point mutants enable robust detection and visualization of mucin-domain glycoproteins by flow cytometry, Western blot, and immunohistochemistry.
31937642	14	74	gly	core-fucosylated	2537:2552	arg1	the core-fucosylated N-glycoproteins	the core-fucosylated N-glycoproteins				Fterm		N-glycoproteins			Here, we have identified in the commensal species Lactobacillus casei a novel metabolic pathway for the utilization of the glycoamino acid fucosyl-α-1,6-N-GlcNAc-Asn, which is present in the core-fucosylated N-glycoproteins from mammalians.
31937642	14	89	gly	N-glycoproteins	2554:2568	arg1	the core-fucosylated N-glycoproteins	N-glycoproteins			the glycoamino acid fucosyl-α-1,6-N-GlcNAc-Asn	Fterm		N-glycoproteins			Here, we have identified in the commensal species Lactobacillus casei a novel metabolic pathway for the utilization of the glycoamino acid fucosyl-α-1,6-N-GlcNAc-Asn, which is present in the core-fucosylated N-glycoproteins from mammalians.
31937642	14	91	gly	present	2522:2528	arg1	the core-fucosylated N-glycoproteins AND the glycoamino acid fucosyl-α-1,6-N-GlcNAc-Asn	N-glycoproteins			the glycoamino acid fucosyl-α-1,6-N-GlcNAc-Asn	Fterm		N-glycoproteins			Here, we have identified in the commensal species Lactobacillus casei a novel metabolic pathway for the utilization of the glycoamino acid fucosyl-α-1,6-N-GlcNAc-Asn, which is present in the core-fucosylated N-glycoproteins from mammalians.
33421637	0	47	gly	glycosylation	6:18	arg1	mouse serum glycoproteins	mouse serum glycoproteins				Fterm		glycoproteins			Rapid glycosylation analysis of mouse serum glycoproteins separated by supported molecular matrix electrophoresis.
33421637	0	100	gly	glycoproteins	44:56	arg1	mouse serum glycoproteins	mouse serum glycoproteins				Fterm		glycoproteins			Rapid glycosylation analysis of mouse serum glycoproteins separated by supported molecular matrix electrophoresis.
34564432	2	27	gly	glycan-biomarkers	255:271	arg1	Tf	Tf			glycan-biomarkers	Cterm		Tf	P02787		Aim of this study is to explore glycan-biomarkers on transferrin (Tf) for Alzheimer's disease (AD) in cerebrospinal fluid (CSF).
34564432	2	27	gly	glycan-biomarkers	255:271	arg1	transferrin	transferrin			glycan-biomarkers	OGER		transferrin	P02787		Aim of this study is to explore glycan-biomarkers on transferrin (Tf) for Alzheimer's disease (AD) in cerebrospinal fluid (CSF).
34364648	16	20	gly	used	2438:2441	arg2	some Lys			some Lys						Lys	Our results demonstrate that sdLys supply is important for milk protein when dietary starch is low, and some Lys may be preferentially used for muscle protein synthesis at the expense of milk protein when sdLys is high.
34076032	2	38	gly	sialylated	510:519	arg1	sialylated glycans				sialylated glycans						However, due to the subtle structural differences of sialic acid species and the complicated composition of glycans, the precise recognition of sialylated glycans is difficult.
33600144	1	1	gly	glycopeptides	152:164	arg2	glycopeptides			glycopeptides						glycopeptides	Enrichment and detection of glycopeptides are an important clinical measure for the diagnosis of complex diseases.
33908003	2	25	gly	glycans	299:305	arg1	proteins	proteins			glycans	Fterm		proteins			The emergence of glycoproteomic technologies to identify and characterize glycans on proteins has the potential to enable a better understanding the role of glycosylation in biology, disease states, and other areas of interest.
33600144	4	25	gly	glycopeptides	768:780	arg2	the glycopeptides			the glycopeptides						glycopeptides	The as-prepared composites have a suitable hollow structure and large specific surface area, and the boron hydroxyl group in their cavities can fix or disconnect the hydrophilic groups of the glycopeptides at different pH, so the glycopeptides can be adsorbed or desorbed in a controllable way.
33600144	4	40	gly	glycopeptides	730:742	arg2	the glycopeptides			the glycopeptides						glycopeptides	The as-prepared composites have a suitable hollow structure and large specific surface area, and the boron hydroxyl group in their cavities can fix or disconnect the hydrophilic groups of the glycopeptides at different pH, so the glycopeptides can be adsorbed or desorbed in a controllable way.