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| Open AccessNetwork analysis of the proteome and peptidome sheds light on human milk as a biological system
- Pieter M. Dekker
- , Sjef Boeren
- & Kasper A. Hettinga
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| Open AccessEnhancing coevolutionary signals in protein–protein interaction prediction through clade-wise alignment integration
- Tao Fang
- , Damian Szklarczyk
- & Christian von Mering
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| Open AccessIdentification and prioritisation of potential vaccine candidates using subtractive proteomics and designing of a multi-epitope vaccine against Wuchereria bancrofti
- Murali Aarthy
- , G. Navaneetha Pandiyan
- & Bhavna Gupta
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| Open AccessImmunoinformatics-guided approach for designing a pan-proteome multi-epitope subunit vaccine against African swine fever virus
- Alea Maurice Simbulan
- , Edward C. Banico
- & Fredmoore L. Orosco
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| Open AccessPlasma proteome profiling reveals the therapeutic effects of the PPAR pan-agonist chiglitazar on insulin sensitivity, lipid metabolism, and inflammation in type 2 diabetes
- Xingyue Wang
- , You Wang
- & Tao Xu
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| Open AccessProtein–protein interaction network module changes associated with the vertebrate fin-to-limb transition
- Pasan C. Fernando
- , Paula M. Mabee
- & Erliang Zeng
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| Open AccessPACT - Prediction of amyloid cross-interaction by threading
- Jakub W. Wojciechowski
- , Witold Szczurek
- & Malgorzata Kotulska
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| Open AccessDNA hypomethylation characterizes genes encoding tissue-dominant functional proteins in liver and skeletal muscle
- Hideki Maehara
- , Toshiya Kokaji
- & Shinya Kuroda
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| Open AccessComparative proteomic analysis of edible bird’s nest from different origins
- Xianyang Wang
- , Dingwen Hu
- & Geng Li
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| Open AccessProteomic and phosphoproteomic analyses of myectomy tissue reveals difference between sarcomeric and genotype-negative hypertrophic cardiomyopathy
- Ramin Garmany
- , J. Martijn Bos
- & Michael J. Ackerman
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| Open AccessImproving quantitation accuracy in isobaric-labeling mass spectrometry experiments with spectral library searching and feature-based peptide-spectrum match filter
- Tzu-Yun Kuo
- , Jen-Hung Wang
- & Ching-Tai Chen
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| Open AccessCharacterizing the circadian connectome of Ocimum tenuiflorum using an integrated network theoretic framework
- Vikram Singh
- & Vikram Singh
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| Open AccessPlasma proteome of growing tumors
- Shashi Gupta
- , Matthew J. Westacott
- & Nebojsa Janjic
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| Open AccessProteomic analysis of the effect of hemin in breast cancer
- G. P. Coló
- , K. Schweitzer
- & M. M. Facchinetti
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| Open AccessLarge scale proteomic studies create novel privacy considerations
- Andrew C. Hill
- , Claire Guo
- & Russell P. Bowler
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| Open AccessA blood and bronchoalveolar lavage protein signature of rapid FEV1 decline in smoking-associated COPD
- Katarina M. DiLillo
- , Katy C. Norman
- & Kelly B. Arnold
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| Open AccessIntegrative Mendelian randomization reveals the soluble receptor for advanced glycation end products as protective in relation to rheumatoid arthritis
- Gha Young Lee
- , Chen Yao
- & Daniel Levy
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| Open AccessMzion enables deep and precise identification of peptides in data-dependent acquisition proteomics
- Qiang Zhang
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| Open AccessThe amniotic fluid proteome changes with term labor and informs biomarker discovery in maternal plasma
- Gaurav Bhatti
- , Roberto Romero
- & Adi L. Tarca
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| Open AccessProteomics reveals unique identities of human TGF-β-induced and thymus-derived CD4+ regulatory T cells
- Mark Mensink
- , Ellen Schrama
- & Jannie Borst
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| Open AccessAssessment of variability in the plasma 7k SomaScan proteomics assay
- Julián Candia
- , Gulzar N. Daya
- & Keenan A. Walker
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| Open AccessIdentification of key candidate genes for IgA nephropathy using machine learning and statistics based bioinformatics models
- Md. Al Mehedi Hasan
- , Md. Maniruzzaman
- & Jungpil Shin
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| Open AccessExploring the medicinally important secondary metabolites landscape through the lens of transcriptome data in fenugreek (Trigonella foenum graecum L.)
- Mahantesha B. N. Naika
- , Nitish Sathyanarayanan
- & Ramanathan Sowdhamini
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| Open AccessResolving missing protein problems using functional class scoring
- Bertrand Jern Han Wong
- , Weijia Kong
- & Wilson Wen Bin Goh
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| Open AccessiTRAQ-based quantitative proteomic analysis provides insight into the drought-stress response in maize seedlings
- Wen Ren
- , Zi Shi
- & Jiuran Zhao
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| Open AccessDynamic insights into the effects of nonsynonymous polymorphisms (nsSNPs) on loss of TREM2 function
- Raju Dash
- , Yeasmin Akter Munni
- & Il Soo Moon
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| Open AccessProteomic profiling of concurrently isolated primary microvascular endothelial cells, pericytes, and vascular smooth muscle cells from adult mouse heart
- Zhiping Cao
- , Jessica Minnier
- & Catherine M. Davis
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| Open AccessCalibr improves spectral library search for spectrum-centric analysis of data independent acquisition proteomics
- Jen-Hung Wang
- , Wai-Kok Choong
- & Ting-Yi Sung
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| Open AccessComparative assessment and novel strategy on methods for imputing proteomics data
- Minjie Shen
- , Yi-Tan Chang
- & Yue Wang
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| Open AccessThe amniotic fluid proteome changes with gestational age in normal pregnancy: a cross-sectional study
- Gaurav Bhatti
- , Roberto Romero
- & Adi L. Tarca
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| Open AccessRobust unsupervised deconvolution of linear motifs characterizes 68 protein modifications at proteome scale
- Theodore G. Smith
- , Anuli C. Uzozie
- & Philipp F. Lange
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| Open AccessComputational identification of multiple lysine PTM sites by analyzing the instance hardness and feature importance
- Sabit Ahmed
- , Afrida Rahman
- & S. M. Shovan
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| Open AccessGeneralized and social anxiety disorder interactomes show distinctive overlaps with striosome and matrix interactomes
- Kalyani B. Karunakaran
- , Satoko Amemori
- & Ken-ichi Amemori
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| Open AccessGenome-wide identification and analysis of the heat shock transcription factor family in moso bamboo (Phyllostachys edulis)
- Bin Huang
- , Zhinuo Huang
- & Kim Yrjälä
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| Open AccessExoproteomic analysis of two MLST clade 2 strains of Clostridioides difficile from Latin America reveal close similarities
- Dvison de Melo Pacífico
- , Cecília Leite Costa
- & Gerly Anne de Castro Brito
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| Open AccessVenom duct origins of prey capture and defensive conotoxins in piscivorous Conus striatus
- S. W. A. Himaya
- , Ai-Hua Jin
- & Richard J. Lewis
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| Open AccessA predictive model for vertebrate bone identification from collagen using proteomic mass spectrometry
- Heyi Yang
- , Erin R. Butler
- & Donald Siegel
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| Open AccessContinual proteomic divergence of HepG2 cells as a consequence of long-term spheroid culture
- Andrea Antonio Ellero
- , Iman van den Bout
- & Tracey Hurrell
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| Open AccessImproved methods for RNAseq-based alternative splicing analysis
- Rebecca F. Halperin
- , Apurva Hegde
- & Nicholas J. Schork
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| Open AccessApplication of multiple omics and network projection analyses to drug repositioning for pathogenic mosquito-borne viruses
- Takayuki Amemiya
- , Katsuhisa Horimoto
- & Kazuhiko Fukui
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| Open AccessPhosIDP: a web tool to visualize the location of phosphorylation sites in disordered regions
- Sonia T. Nicolaou
- , Max Hebditch
- & Jim Warwicker
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| Open AccessHomopeptide and homocodon levels across fungi are coupled to GC/AT-bias and intrinsic disorder, with unique behaviours for some amino acids
- Yue Wang
- & Paul M. Harrison
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| Open AccessAssessing the degradation of ancient milk proteins through site-specific deamidation patterns
- Abigail Ramsøe
- , Mia Crispin
- & Camilla Speller
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| Open AccessComparison of plasma and cerebrospinal fluid proteomes identifies gene products guiding adult neurogenesis and neural differentiation in birds
- Eleni Voukali
- , Nithya Kuttiyarthu Veetil
- & Michal Vinkler
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| Open AccessProteome-wide profiling and mapping of post translational modifications in human hearts
- Navratan Bagwan
- , Henrik H. El Ali
- & Alicia Lundby
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| Open AccessMulti-Q 2 software facilitates isobaric labeling quantitation analysis with improved accuracy and coverage
- Ching-Tai Chen
- , Jen-Hung Wang
- & Ting-Yi Sung
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| Open AccessA comparative study of evaluating missing value imputation methods in label-free proteomics
- Liang Jin
- , Yingtao Bi
- & Yu Tian
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| Open AccessRegulators of TNFα mediated insulin resistance elucidated by quantitative proteomics
- Rodrigo Mohallem
- & Uma K. Aryal
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| Open AccessIdentification and validation of 174 COVID-19 vaccine candidate epitopes reveals low performance of common epitope prediction tools
- Marek Prachar
- , Sune Justesen
- & Frederik Otzen Bagger