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Alexey Melnik
Alexey Melnik
Verified email at ucsd.edu
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Year
Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2
E Bolyen, JR Rideout, MR Dillon, NA Bokulich, CC Abnet, GA Al-Ghalith, ...
Nature biotechnology 37 (8), 852-857, 2019
132072019
Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking
M Wang, JJ Carver, VV Phelan, LM Sanchez, N Garg, Y Peng, ...
Nature biotechnology 34 (8), 828-837, 2016
32172016
Best practices for analysing microbiomes
R Knight, A Vrbanac, BC Taylor, A Aksenov, C Callewaert, J Debelius, ...
Nature Reviews Microbiology 16 (7), 410-422, 2018
14542018
Antimicrobials from human skin commensal bacteria protect against Staphylococcus aureus and are deficient in atopic dermatitis
T Nakatsuji, TH Chen, S Narala, KA Chun, AM Two, T Yun, F Shafiq, ...
Science translational medicine 9 (378), eaah4680, 2017
9722017
SIRIUS 4: a rapid tool for turning tandem mass spectra into metabolite structure information
K Dührkop, M Fleischauer, M Ludwig, AA Aksenov, AV Melnik, M Meusel, ...
Nature methods 16 (4), 299-302, 2019
9682019
QIIME 2: Reproducible, interactive, scalable, and extensible microbiome data science
E Bolyen, JR Rideout, MR Dillon, NA Bokulich, C Abnet, GA Al-Ghalith, ...
PeerJ Preprints, 2018
9222018
Minimum information about a biosynthetic gene cluster
MH Medema, R Kottmann, P Yilmaz, M Cummings, JB Biggins, K Blin, ...
Nature chemical biology 11 (9), 625-631, 2015
8392015
American gut: an open platform for citizen science microbiome research
D McDonald, E Hyde, JW Debelius, JT Morton, A Gonzalez, G Ackermann, ...
Msystems 3 (3), 10.1128/msystems. 00031-18, 2018
6492018
Global chemical effects of the microbiome include new bile-acid conjugations
RA Quinn, AV Melnik, A Vrbanac, T Fu, KA Patras, MP Christy, Z Bodai, ...
Nature 579 (7797), 123-129, 2020
3612020
Mass spectrometry searches using MASST
M Wang, AK Jarmusch, F Vargas, AA Aksenov, JM Gauglitz, K Weldon, ...
Nature biotechnology 38 (1), 23-26, 2020
1812020
The impact of skin care products on skin chemistry and microbiome dynamics
A Bouslimani, R da Silva, T Kosciolek, S Janssen, C Callewaert, A Amir, ...
BMC biology 17, 1-20, 2019
1552019
Indexing the Pseudomonas specialized metabolome enabled the discovery of poaeamide B and the bananamides
DD Nguyen, AV Melnik, N Koyama, X Lu, M Schorn, J Fang, K Aguinaldo, ...
Nature microbiology 2 (1), 1-10, 2016
1422016
Prioritizing Natural Product Diversity in a Collection of 146 Bacterial Strains Based on Growth and Extraction Protocols
PCDBSM Max Crüsemann, Ellis C. O’Neill, Charles B. Larson, Alexey V. Melnik ...
Journal of Natural Product, 1021, 2016
127*2016
Three-dimensional microbiome and metabolome cartography of a diseased human lung
N Garg, M Wang, E Hyde, RR da Silva, AV Melnik, I Protsyuk, ...
Cell host & microbe 22 (5), 705-716. e4, 2017
1092017
Pep2Path: automated mass spectrometry-guided genome mining of peptidic natural products
MH Medema, Y Paalvast, DD Nguyen, A Melnik, PC Dorrestein, E Takano, ...
PLoS computational biology 10 (9), e1003822, 2014
1082014
Intermittent hypoxia and hypercapnia, a hallmark of obstructive sleep apnea, alters the gut microbiome and metabolome
A Tripathi, AV Melnik, J Xue, O Poulsen, MJ Meehan, G Humphrey, ...
Msystems 3 (3), 10.1128/msystems. 00020-18, 2018
1032018
3D molecular cartography using LC–MS facilitated by Optimus and'ili software
I Protsyuk, AV Melnik, LF Nothias, L Rappez, P Phapale, AA Aksenov, ...
Nature protocols 13 (1), 134-154, 2018
982018
Auto-deconvolution and molecular networking of gas chromatography–mass spectrometry data
AA Aksenov, I Laponogov, Z Zhang, SLF Doran, I Belluomo, D Veselkov, ...
Nature biotechnology 39 (2), 169-173, 2021
942021
CA; Torres-Mendoza, D
M Wang, JJ Carver, VV Phelan, LM Sanchez, N Garg, Y Peng, ...
Gonzalez, DJ, 828-837, 0
93
A Cutibacterium acnes antibiotic modulates human skin microbiota composition in hair follicles
J Claesen, JB Spagnolo, SF Ramos, KL Kurita, AL Byrd, AA Aksenov, ...
Science translational medicine 12 (570), eaay5445, 2020
922020
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