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  • Nicki Packer
2020

GlyGen: computational and informatics resources for glycoscience

York, W. S., Mazumder, R., Ranzinger, R., Edwards, N., Kahsay, R., Aoki-Kinoshita, K. F., Campbell, M. P., Cummings, R. D., Feizi, T., Martin, M., Natale, D. A., Packer, N. H., Woods, R. J., Agarwal, G., Arpinar, S., Bhat, S., Blake, J., Castro, L. J. G., Fochtman, B., Gildersleeve, J. & 16 others, Goldman, R., Holmes, X., Jain, V., Kulkarni, S., Mahadik, R., Mehta, A., Mousavi, R., Nakarakommula, S., Navelkar, R., Pattabiraman, N., Pierce, M. J., Ross, K., Vasudev, P., Vora, J., Williamson, T. & Zhang, W., Feb 2020, In : Glycobiology. 30, 2, p. 72-73 2 p.

Research output: Contribution to journalLetter

1 Citation (Scopus)

Lipopolysaccharide and morphine-3-glucuronide-induced immune signalling increases the expression of polysialic acid in PC12 Cells

Iqbal, S., Parker, L. M., Everest Dass, A. V., Moh, E. S. X., Sayyadi, N., Hutchinson, M. R. & Packer, N. H., Feb 2020, In : Molecular Neurobiology. 57, 2, p. 964-975 12 p.

Research output: Contribution to journalArticle

NIST interlaboratory study on glycosylation analysis of monoclonal antibodies: comparison of results from diverse analytical methods

De Leoz, M. L. A., Duewer, D. L., Fung, A., Liu, L., Yau, H. K., Potter, O., Staples, G. O., Furuki, K., Frenkel, R., Hu, Y., Sosic, Z., Zhang, P., Altmann, F., Grünwald-Grube, C., Shao, C., Zaia, J., Evers, W., Pengelley, S., Suckau, D., Wiechmann, A. & 142 others, Resemann, A., Jabs, W., Beck, A., Froehlich, J. W., Huang, C., Li, Y., Liu, Y., Sun, S., Wang, Y., Seo, Y., An, H. J., Reichardt, N. C., Ruiz, J. E., Archer-Hartmann, S., Azadi, P., Bell, L., Lakos, Z., An, Y., Cipollo, J. F., Pucic-Bakovic, M., Štambuk, J., Lauc, G., Li, X., Wang, P. G., Bock, A., Hennig, R., Rapp, E., Creskey, M., Cyr, T. D., Nakano, M., Sugiyama, T., Leung, P-K. A., Link-Lenczowski, P., Jaworek, J., Yang, S., Zhang, H., Kelly, T., Klapoetke, S., Cao, R., Kim, J. Y., Lee, H. K., Lee, J. Y., Yoo, J. S., Kim, S-R., Suh, S-K., de Haan, N., Falck, D., Lageveen-Kammeijer, G. S. M., Wuhrer, M., Emery, R. J., Kozak, R. P., Liew, L. P., Royle, L., Urbanowicz, P. A., Packer, N. H., Song, X., Everest-Dass, A., Lattová, E., Cajic, S., Alagesan, K., Kolarich, D., Kasali, T., Lindo, V., Chen, Y., Goswami, K., Gau, B., Amunugama, R., Jones, R., Stroop, C. J. M., Kato, K., Yagi, H., Kondo, S., Yuen, C. T., Harazono, A., Shi, X., Magnelli, P. E., Kasper, B. T., Mahal, L., Harvey, D. J., O'Flaherty, R., Rudd, P. M., Saldova, R., Hecht, E. S., Muddiman, D. C., Kang, J., Bhoskar, P., Menard, D., Saati, A., Merle, C., Mast, S., Tep, S., Truong, J., Nishikaze, T., Sekiya, S., Shafer, A., Funaoka, S., Toyoda, M., de Vreugd, P., Caron, C., Pradhan, P., Tan, N. C., Mechref, Y., Patil, S., Rohrer, J. S., Chakrabarti, R., Dadke, D., Lahori, M., Zou, C., Cairo, C., Reiz, B., Whittal, R. M., Lebrilla, C. B., Wu, L., Guttman, A., Szigeti, M., Kremkow, B. G., Lee, K. H., Sihlbom, C., Adamczyk, B., Jin, C., Karlsson, N. G., Örnros, J., Larson, G., Nilsson, J., Meyer, B., Wiegandt, A., Komatsu, E., Perreault, H., Bodnar, E. D., Said, N., Francois, Y-N., Leize-Wagner, E., Maier, S., Zeck, A., Heck, A. J. R., Yang, Y., Haselberg, R., Yu, Y. Q., Alley, W., Leone, J. W., Yuan, H. & Stein, S. E., Jan 2020, In : Molecular and Cellular Proteomics. 19, 1, p. 11-30 20 p.

Research output: Contribution to journalArticle

Open Access
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2 Citations (Scopus)
10 Downloads (Pure)

The GlySpace Alliance: toward a collaborative global glycoinformatics community

Aoki-Kinoshita, K. F., Lisacek, F., Mazumder, R., York, W. S. & Packer, N. H., Feb 2020, In : Glycobiology. 30, 2, p. 70-71 2 p.

Research output: Contribution to journalLetter

2019

3D sub-diffraction imaging in a conventional confocal configuration by exploiting super-linear emitters

Denkova, D., Ploschner, M., Das, M., Parker, L., Zheng, X., Lu, Y., Orth, A., Packer, N. & Piper, J., 16 Aug 2019, In : Nature Communications. 10, 12 p., 3695.

Research output: Contribution to journalArticle

Open Access
File
13 Downloads (Pure)

Bright upconversion nanoparticles under light-emitting diode excitation

Cao, Y., Zheng, X., Piper, J. A., Packer, N. H. & Lu, Y., 2019, Biophotonics Australasia 2019. Goldys, E. M. & Gibson, B. C. (eds.). Bellingham : WA: SPIE, Vol. 11202. 2 p. 112021P

Research output: Chapter in Book/Report/Conference proceedingConference abstract

Chemoenzymatic glycan labelling as a platform for site-specific IgM-antibody drug conjugates

Moh, E. S. X., Sayyadi, N. & Packer, N. H., 1 Nov 2019, In : Analytical Biochemistry. 584, p. 1-7 7 p., 113385.

Research output: Contribution to journalArticle

Comparing the chemical composition of dietary fibres prepared from sugarcane, psyllium husk and wheat dextrin

Chong, R. W. W., Ball, M., McRae, C. & Packer, N. H., 15 Nov 2019, In : Food Chemistry. 298, p. 1-8 8 p., 125032.

Research output: Contribution to journalArticle

1 Citation (Scopus)

Controllable in vitro glycoengineering with an artificial Golgi column

DeBono, N. J., Lin, C-H., Packer, N. H. (ed.) & Moh, E. S. X., 2019.

Research output: Contribution to conferenceAbstract

Differential involvement of glycans in the binding of Staphylococcus epidermidis and Corynebacterium spp. to human sweat

Lin, C-H., Peterson, R. A., Gueniche, A., de Beaumais, S. A., Hourblin, V., Breton, L., Dalko, M. & Packer, N. H., Mar 2019, In : Microbiological Research. 220, p. 53-60 8 p.

Research output: Contribution to journalArticle

GlyConnect: glycoproteomics goes visual, interactive, and analytical

Alocci, D., Mariethoz, J., Gastaldello, A., Gasteiger, E., Karlsson, N. G., Kolarich, D., Packer, N. H. & Lisacek, F., Feb 2019, In : Journal of Proteome Research. 18, 2, p. 664-677 14 p.

Research output: Contribution to journalArticle

6 Citations (Scopus)

Human glycan expression patterns influence Group A streptococcal colonization of epithelial cells

De Oliveira, D. M. P., Everest-Dass, A., Hartley-Tassell, L., Day, C. J., Indraratna, A., Brouwer, S., Cleary, A., Kautto, L., Gorman, J., Packer, N. H., Jennings, M. P., Walker, M. J. & Sanderson-Smith, M. L., Oct 2019, In : FASEB journal : official publication of the Federation of American Societies for Experimental Biology. 33, 10, p. 10808-10818 11 p.

Research output: Contribution to journalArticle

Influence of surface chemistry on the formation of a protein corona on nanodiamonds

Garcia-Bennett, A. E., Everest-Dass, A., Moroni, I., Rastogi, I. D., Parker, L. M., Packer, N. H. & Brown, L. J., 7 Jun 2019, In : Journal of Materials Chemistry B. 7, 21, p. 3383-3389 7 p.

Research output: Contribution to journalArticle

3 Citations (Scopus)

MALDI mass spectrometry imaging of early- and late-stage serous ovarian cancer tissue reveals stage-specific N-glycans

Briggs, M. T., Condina, M. R., Ho, Y. Y., Everest-Dass, A. V., Mittal, P., Kaur, G., Oehler, M. K., Packer, N. H. & Hoffmann, P., Nov 2019, In : Proteomics. 19, 21-22, p. 1-11 11 p., 1800482.

Research output: Contribution to journalArticle

Post-column make-up flow (PCMF) enhances the performance of capillary-flow PGC-LC-MS/MS-based glycomics

Hinneburg, H., Chatterjee, S., Schirmeister, F., Nguyen-Khuong, T., Packer, N. H., Rapp, E. & Thaysen-Andersen, M., 2 Apr 2019, In : Analytical Chemistry. 91, 7, p. 4559-4567 9 p.

Research output: Contribution to journalArticle

4 Citations (Scopus)

Protein paucimannosylation is an enriched N-glycosylation signature of human cancers

Chatterjee, S., Lee, L. Y., Kawahara, R., Abrahams, J. L., Adamczyk, B., Anugraham, M., Ashwood, C., Sumer-Bayraktar, Z., Briggs, M. T., Chik, J. H. L., Everest-Dass, A., Förster, S., Hinneburg, H., Leite, K. R. M., Loke, I., Möginger, U., Moh, E. S. X., Nakano, M., Recuero, S., Sethi, M. K. & 14 others, Srougi, M., Stavenhagen, K., Venkatakrishnan, V., Wongtrakul-Kish, K., Diestel, S., Hoffmann, P., Karlsson, N. G., Kolarich, D., Molloy, M. P., Muders, M. H., Oehler, M. K., Packer, N. H., Palmisano, G. & Thaysen-Andersen, M., Nov 2019, In : Proteomics. 19, 21-22, p. 1-13 13 p., 1900010.

Research output: Contribution to journalArticle

2 Citations (Scopus)

Specific sialoforms required for the immune suppressive activity of human soluble CD52

Shathili, A. M., Bandala-Sanchez, E., John, A., Goddard-Borger, E. D., Thaysen-Andersen, M., Everest-Dass, A. V., Adams, T. E., Harrison, L. C. & Packer, N. H., 27 Aug 2019, In : Frontiers in Immunology. 10, p. 1-13 13 p., 1967.

Research output: Contribution to journalArticle

Open Access
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3 Downloads (Pure)

Standardization of PGC-LC-MS-based glycomics for sample specific glycotyping

Ashwood, C., Pratt, B., Maclean, B. X., Gundry, R. L. & Packer, N. H., 7 Jun 2019, In : Analyst. 144, 11, p. 3601-3612 12 p.

Research output: Contribution to journalArticle

3 Citations (Scopus)

Time-gated luminescent in situ hybridization (LISH): highly sensitive detection of pathogenic Staphylococcus aureus

Sayyadi, N., Connally, R. E., Lawson, T. S., Yuan, J., Packer, N. H. & Piper, J. A., 1 Jun 2019, In : Molecules. 24, 11, 16 p., 2083.

Research output: Contribution to journalArticle

Open Access
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12 Downloads (Pure)

Towards a standardized bioinformatics infrastructure for N- and O-glycomics

Rojas-Macias, M. A., Mariethoz, J., Andersson, P., Jin, C., Venkatakrishnan, V., Aoki, N. P., Shinmachi, D., Ashwood, C., Madunic, K., Zhang, T., Miller, R. L., Horlacher, O., Struwe, W. B., Watanabe, Y., Okuda, S., Levander, F., Kolarich, D., Rudd, P. M., Wuhrer, M., Kettner, C. & 4 others, Packer, N. H., Aoki-Kinoshita, K. F., Lisacek, F. & Karlsson, N. G., 22 Jul 2019, In : Nature Communications. 10, p. 1-10 10 p., 3275.

Research output: Contribution to journalReview article

Open Access
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4 Citations (Scopus)
2 Downloads (Pure)

Translating N-Glycan analytical applications into clinical strategies for ovarian cancer

Briggs, M. T., Condina, M. R., Klingler-Hoffmann, M., Arentz, G., Everest-Dass, A. V., Kaur, G., Oehler, M. K., Packer, N. H. & Hoffmann, P., May 2019, In : Proteomics - Clinical Applications. 13, 3, 15 p., 1800099.

Research output: Contribution to journalArticle

3 Citations (Scopus)

Understanding cellular glycan surfaces in the central nervous system

Iqbal, S., Ghanimi Fard, M., Everest-Dass, A., Packer, N. H. & Parker, L. M., 28 Feb 2019, In : Biochemical Society Transactions. 47, 1, p. 89-100 12 p.

Research output: Contribution to journalReview article

3 Citations (Scopus)

Updates to the symbol nomenclature for glycans guidelines

SNFG Discussion Group , Sep 2019, In : Glycobiology. 29, 9, p. 620-624 5 p.

Research output: Contribution to journalArticle

6 Citations (Scopus)

Utilising glycobiology for fluorescent nanodiamond uptake and imaging in the central nervous system

Parker, L. M., Reineck, P., Ghanimi-Fard, M., Wilson, E. R., Iqbal, S., Baratta, M., Cordina, N. M., Guller, A., Nadort, A., Gibson, B. & Packer, N. H., 2019, Proceedings - 2019 PhotonIcs and Electromagnetics Research Symposium: PIERS 2019 Rome. Piscataway, NJ: Institute of Electrical and Electronics Engineers (IEEE), p. 647-653 7 p. (Progress in Electromagnetics Research Symposium; vol. 2019-June).

Research output: Chapter in Book/Report/Conference proceedingConference proceeding contribution

Visualizing neuroinflammation with fluorescence and luminescent lanthanide-based in situ hybridization

Parker, L. M., Sayyadi, N., Staikopoulos, V., Shrestha, A., Hutchinson, M. R. & Packer, N. H., 21 Mar 2019, In : Journal of Neuroinflammation. 16, p. 1-13 13 p., 65.

Research output: Contribution to journalArticle

Open Access
File
1 Citation (Scopus)
3 Downloads (Pure)
2018

Biosimilarity and interchangeability: principles and evidence: a systematic review

McKinnon, R. A., Cook, M., Liauw, W., Marabani, M., Marschner, I. C., Packer, N. H. & Prins, J. B., Feb 2018, In : BioDrugs. 32, 1, p. 27-52 26 p.

Research output: Contribution to journalReview article

Open Access
File
23 Citations (Scopus)
140 Downloads (Pure)

Building a PGC-LC-MS N-glycan retention library and elution mapping resource

Abrahams, J. L., Campbell, M. P. & Packer, N. H., Feb 2018, In : Glycoconjugate Journal. 35, 1, p. 15-29 15 p.

Research output: Contribution to journalArticle

22 Citations (Scopus)
12 Citations (Scopus)
14 Citations (Scopus)

Fiber supplements derived from sugarcane stem, wheat dextrin and psyllium husk have different in vitro effects on the human gut microbiota

Gamage, H. K. A. H., Tetu, S. G., Chong, R. W. W., Bucio-Noble, D., Rosewarne, C. P., Kautto, L., Ball, M. S., Molloy, M. P., Packer, N. H. & Paulsen, I. T., 20 Jul 2018, In : Frontiers in Microbiology. 9, p. 1-16 16 p., 1618.

Research output: Contribution to journalArticle

Open Access
File
2 Citations (Scopus)
17 Downloads (Pure)

Glycomics@ExPASy: bridging the gap

Mariethoz, J., Alocci, D., Gastaldello, A., Horlacher, O., Gasteiger, E., Rojas-Macias, M., Karlsson, N. G., Packer, N. H. & Lisacek, F., 1 Nov 2018, In : Molecular and Cellular Proteomics. 17, 11, p. 2164-2176 13 p.

Research output: Contribution to journalArticle

Open Access
File
8 Citations (Scopus)
14 Downloads (Pure)

GlycoStore: a database of retention properties for glycan analysis

Zhao, S., Walsh, I., Abrahams, J. L., Royle, L., Nguyen-Khuong, T., Spencer, D., Fernandes, D. L., Packer, N. H., Rudd, P. M. & Campbell, M. P., 15 Sep 2018, In : Bioinformatics. 34, 18, p. 3231-3232 2 p.

Research output: Contribution to journalArticle

11 Citations (Scopus)

Human disease glycomics: technology advances enabling protein glycosylation analysis – part 2

Everest-Dass, A. V., Moh, E. S. X., Ashwood, C., Shathili, A. M. M. & Packer, N. H., 2018, In : Expert Review of Proteomics. 15, 4, p. 341-352 12 p.

Research output: Contribution to journalReview article

10 Citations (Scopus)

Human disease glycomics: technology advances enabling protein glycosylation analysis – part 1

Everest-Dass, A. V., Moh, E. S. X., Ashwood, C., Shathili, A. M. M. & Packer, N. H., 1 Feb 2018, In : Expert Review of Proteomics. 15, 2, p. 165-182 18 p.

Research output: Contribution to journalReview article

7 Citations (Scopus)

Periconception onset diabetes is associated with embryopathy and fetal growth retardation, reproductive tract hyperglycosylation and impaired immune adaptation to pregnancy

Brown, H. M., Green, E. S., Tan, T. C. Y., Gonzalez, M. B., Rumbold, A. R., Hull, M. L., Norman, R. J., Packer, N. H., Robertson, S. A. & Thompson, J. G., 1 Feb 2018, In : Scientific Reports. 8, 1, p. 1-13 13 p., 2114.

Research output: Contribution to journalArticle

Open Access
File
6 Citations (Scopus)
17 Downloads (Pure)

Raw N-glycan mass spectrometry imaging data on formalin-fixed mouse kidney

Gustafsson, O. J. R., Briggs, M. T., Condina, M. R., Winderbaum, L. J., Pelzing, M., McColl, S. R., Everest-Dass, A. V., Packer, N. H. & Hoffmann, P., 1 Dec 2018, In : Data in Brief. 21, p. 185-188 4 p.

Research output: Contribution to journalArticle

Open Access
File
1 Citation (Scopus)
9 Downloads (Pure)

Reduced background autofluorescence for cell imaging using nanodiamonds and lanthanide chelates

Cordina, N. M., Sayyadi, N., Parker, L. M., Everest-Dass, A., Brown, L. J. & Packer, N. H., 14 Mar 2018, In : Scientific Reports. 8, 1, p. 1-14 14 p., 4521.

Research output: Contribution to journalArticle

Open Access
File
12 Citations (Scopus)
10 Downloads (Pure)

The effect of streptozotocin-induced hyperglycemia on N-and O-linked protein glycosylation in mouse ovary

Shathili, A. M., Brown, H. M., Everest-Dass, A. V., Tan, T. C. Y., Parker, L., Thompson, J. G. & Packer, N. H., Nov 2018, In : Glycobiology. 28, 11, p. 832-840 9 p.

Research output: Contribution to journalArticle

2 Citations (Scopus)

Transition of mesenchymal and epithelial cancer cells depends on α1-4 galactosyltransferase-mediated glycosphingolipids

Jacob, F., Alam, S., Konantz, M., Liang, C. Y., Kohler, R. S., Everest-Dass, A. V., Huang, Y-L., Rimmer, N., Fedier, A., Schötzau, A., Lopez, M. N., Packer, N. H., Lengerke, C. & Heinzelmann-Schwarz, V., 1 Jun 2018, In : Cancer Research. 78, 11, p. 2952-2965 14 p.

Research output: Contribution to journalArticle

5 Citations (Scopus)
2017

Blood group antigen expression is involved in C. albicans interaction with buccal epithelial cells

Everest-Dass, A. V., Kolarich, D., Pascovici, D. & Packer, N. H., Feb 2017, In : Glycoconjugate Journal. 34, 1, p. 31-50 20 p.

Research output: Contribution to journalArticle

5 Citations (Scopus)

Blood group antigen recognition via the group a streptococcal m protein mediates host colonization

De Oliveira, D. M. P., Hartley-Tassell, L., Everest-Dass, A., Jennings, M. P., Sanderson-Smith, M. L., Day, C. J., Dabbs, R. A., Ve, T., Kobe, B., Nizet, V., Packer, N. H., Walker, M. J., Jennings, M. P. & Sanderson-Smith, M. L., 24 Jan 2017, In : mBio. 8, 1, p. 1-12 12 p., e02237-16.

Research output: Contribution to journalArticle

Open Access
File
7 Citations (Scopus)
6 Downloads (Pure)

Cereal products derived from wheat, sorghum, rice and oats alter the infant gut microbiota in vitro

Gamage, H. K. A. H., Tetu, S. G., Chong, R. W. W., Ashton, J., Packer, N. H. & Paulsen, I. T., 30 Oct 2017, In : Scientific Reports. 7, 1, p. 1-12 12 p., 14312.

Research output: Contribution to journalArticle

Open Access
File
9 Citations (Scopus)
1 Downloads (Pure)

Databases and associated tools for glycomics and glycoproteomics

Lisacek, F., Mariethoz, J., Alocci, D., Rudd, P. M., Abrahams, J. L., Campbell, M. P., Packer, N. H., Ståhle, J., Widmalm, G., Mullen, E., Adamczyk, B., Rojas-Macias, M. A., Jin, C. & Karlsson, N. G., 2017, High-throughput glycomics and glycoproteomics: Methods and protocols. Lauc, G. & Wuhrer, M. (eds.). New York: Humana Press Inc., p. 235-264 30 p. (Methods in Molecular Biology; vol. 1503).

Research output: Chapter in Book/Report/Conference proceedingChapter

23 Citations (Scopus)
5 Citations (Scopus)

Glycoinformatics

Campbell, M. P., Aoki-Kinoshita, K. F., Lisacek, F., York, W. S. & Packer, N. H., 2017, Essentials of glycobiology. Varki, A., Cummings, R. D., Esko, J. D., Stanley, P., Hart, G. W., Aebi, M., Darvill, A. G., Kinoshita, T., Packer, N. H., Prestegard, J. H., Schnaar, R. L. & Seeberger, P. H. (eds.). 3rd ed. Cold Spring Harbor, New York: Cold Spring Harbor Laboratory Press, p. 667-679 13 p.

Research output: Chapter in Book/Report/Conference proceedingTextbook contribution

Open Access

GlyTouCan: an accessible glycan structure repository

Tiemeyer, M., Aoki, K., Paulson, J., Cummings, R. D., York, W. S., Karlsson, N. G., Lisacek, F., Packer, N. H., Campbell, M. P., Aoki, N. P., Fujita, A., Matsubara, M., Shinmachi, D., Tsuchiya, S., Yamada, I., Pierce, M., Ranzinger, R., Narimatsu, H. & Aoki-Kinoshita, K. F., Oct 2017, In : Glycobiology. 27, 10, p. 915-919 5 p.

Research output: Contribution to journalArticle

31 Citations (Scopus)

Navigating the glycome space and connecting the glycoproteome

Campbell, M. P., Peterson, R. A., Gasteiger, E., Mariethoz, J., Lisacek, F. & Packer, N. H., 2017, Protein bioinformatics: from protein modifications and networks to proteomics. Wu, C. H., Arighi, C. N. & Ross, K. E. (eds.). New York: Humana Press, p. 139-158 20 p. (Methods in molecular biology; vol. 1558).

Research output: Chapter in Book/Report/Conference proceedingChapter

3 Citations (Scopus)

N-Glycan matrix-assisted laser desorption/ionization mass spectrometry imaging protocol for formalin-fixed paraffin-embedded tissues

Briggs, M. T., Ho, Y. Y., Kaur, G., Oehler, M. K., Everest-Dass, A. V., Packer, N. H. & Hoffmann, P., 2017, In : Rapid Communications in Mass Spectrometry. 31, 10, p. 825-841 17 p.

Research output: Contribution to journalArticle

8 Citations (Scopus)

Paucimannose-rich N-glycosylation of spatiotemporally regulated Human neutrophil elastase modulates its immune functions

Loke, I., Østergaard, O., Heegaard, N. H. H., Packer, N. H. & Thaysen-Andersen, M., 1 Aug 2017, In : Molecular and Cellular Proteomics. 16, 8, p. 1507-1527 21 p.

Research output: Contribution to journalArticle

11 Citations (Scopus)