Genome-wide Analysis papers

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Genome-wide AnalysisProteome-wide Analysis
Comparative genomic hybridizationLarge-scale protein detection
Computational analysisLarge-scale protein interaction
Genomic co-immunoprecipitation studyLarge-scale protein localization
Genomic expression studyLarge-scale protein modification
Large-scale genetic interactionOther large-scale proteomic analysis
Large-scale phenotype analysis 
Other genomic analysis 

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ReferenceLiterature TopicSpeciesGenes Addressed
Alqahtani FM, et al. (2021) Combining Genome-Wide Gene Expression Analysis (RNA-seq) and a Gene Editing Platform (CRISPR-Cas9) to Uncover the Selectively Pro-oxidant Activity of Aurone Compounds Against Candida albicans Front Microbiol 12:708267
CGD Papers Entry  Pubmed Entry  
Genomic expression studyC. albicans |TYE7
Beekman CN, et al. (2021) Comparative genomics of white and opaque cell states supports an epigenetic mechanism of phenotypic switching in Candida albicans G3 (Bethesda) 11:jkab001
CGD Papers Entry  Pubmed Entry  
Genomic expression study
Bliss JM, et al. (2021) Transcription Profiles Associated with Inducible Adhesion in Candida parapsilosis mSphere 6:e01071-20
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Genomic expression studyC. parapsilosis |CPAR2_200650 |CPAR2_400510 |CPAR2_701230 |PHR1
Chew SY, et al. (2021) Transcriptomic and proteomic profiling revealed reprogramming of carbon metabolism in acetate-grown human pathogen Candida glabrata J Biomed Sci 28:1
CGD Papers Entry  Pubmed Entry  
Genomic expression studyC. glabrata |AAT1 |ACO1 |ADH2 |CAGL0H05137g |CAGL0J00451g |CIT1 |CTA1 |ENO1 |FBP1 |GCV1 |GPM1 |HXK2 |ICL1 |IDP2 |MORE
Fourie R, et al. (2021) Transcriptional response of Candida albicans to Pseudomonas aeruginosa in a polymicrobial biofilm G3 (Bethesda)
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Genomic expression studyC. albicans |ADH2 |ADH3 |ADH5 |C2_04480W_A |CAT1 |CSA1 |CTA4 |ECE1 |FDH3 |GAL4 |HWP1 |HYR1 |RBT1 |RBT4 |MORE
Goncalves B, et al. (2021) Revealing Candida glabrata biofilm matrix proteome: global characterization and pH response Biochem J
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Large-scale protein localizationC. glabrata |ACT1 |AED1 |AHP1 |ALD4 |ARG1 |ARO8 |ASC1 |ATH1 |ATP1 |ATP2 |AWP12 |AWP3 |AWP6 |BMH1(B) |MORE
Guinea J, et al. (2021) Whole genome sequencing confirms Candida albicans and Candida parapsilosis microsatellite sporadic and persistent clones causing outbreaks of candidemia in neonates Med Mycol
CGD Papers Entry  Pubmed Entry  
Other genomic analysis
Hunsaker EW, et al. (2021) Copper Availability Influences the Transcriptomic Response of Candida albicans to Fluconazole Stress G3 (Bethesda)
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Genomic expression studyC. albicans |ATX1 |CCC2 |CRD2 |CRP1 |CTR1 |CUP1 |FET3 |MAC1 |SOD6
Jakab A, et al. (2021) Transcriptional Profiling of the Candida auris Response to Exogenous Farnesol Exposure mSphere
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Genomic expression studyC. auris |B9J08_000164 |B9J08_000468 |B9J08_000561 |B9J08_000592 |B9J08_000772 |B9J08_001409 |B9J08_001458 |B9J08_002529 |B9J08_002834 |B9J08_003985 |B9J08_004190 |B9J08_004946 |B9J08_005429
Jenull S, et al. (2021) Transcriptome Signatures Predict Phenotypic Variations of Candida auris Front Cell Infect Microbiol 11:662563
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Genomic expression studyC. auris |B9J08_000164 |B9J08_000270
Li P, et al. (2021) Proteomic Analysis of Caspofungin-Induced Responses in Planktonic Cells and Biofilms of Candida albicans Front Microbiol 12:639123
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Large-scale protein detectionC. albicans |LSP1 |PIL1
Liboro K, et al. (2021) Transcriptomic and Metabolomic Analysis Revealed Roles of Yck2 in Carbon Metabolism and Morphogenesis of Candida albicans Front Cell Infect Microbiol 11:636834
CGD Papers Entry  Pubmed Entry  
Genomic expression studyC. albicans |YCK2
Min K, et al. (2021) Integrative multi-omics profiling reveals cAMP-independent mechanisms regulating hyphal morphogenesis in Candida albicans PLoS Pathog 17:e1009861
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Other genomic analysis, Other large-scale proteomic analysis, Large-scale phenotype analysisC. albicans |BCY1 |CYR1
Mixao V, et al. (2021) Extreme diversification driven by parallel events of massive loss of heterozygosity in the hybrid lineage of Candida albicans Genetics 217:iyaa004
CGD Papers Entry  Pubmed Entry  
Other genomic analysis
Moreno-Martinez AE, et al. (2021) High Biofilm Formation of Non-Smooth Candida parapsilosis Correlates with Increased Incorporation of GPI-Modified Wall Adhesins Pathogens 10:493
CGD Papers Entry  Pubmed Entry  
Large-scale protein localizationC. parapsilosis |ALS11 |ALS6 |ALS7 |BGL2 |CHT2 |CHT21 |CHT22 |CPAR2_403880 |CPAR2_701390 |CPAR2_805040 |CRH11 |CSA1 |ECM33 |ECM331 |MORE
Mukherjee S, et al. (2021) Exploring the druggable proteome of Candida species through comprehensive computational analysis Genomics
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Computational analysisC. albicans |ALT1 |ARG3 |ARG8 |ERG4 |HIS5 |LYS9
Mundodi V, et al. (2021) Global translational landscape of the Candida albicans morphological transition G3 (Bethesda) 11:jkaa043
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Genomic expression studyC. albicans |ALG6 |BEM1 |C3_05990C_A |CEK1 |CHS7 |CTA2 |CWH8 |DDC1 |DDR48 |ECE1 |HMS1 |HWP1 |HXK1 |INO2 |MORE
Munoz JF, et al. (2021) Clade-specific chromosomal rearrangements and loss of subtelomeric adhesins in Candida auris Genetics
CGD Papers Entry  Pubmed Entry  
Other genomic analysisC. auris |B9J08_000020 |B9J08_001049 |B9J08_001512 |B9J08_001533 |B9J08_001960 |B9J08_002580 |B9J08_004095 |B9J08_004119 |B9J08_004456 |B9J08_004881 |B9J08_004907 |B9J08_005531
C. albicans |ERG11
O'Meara TR and O'Meara MJ (2021) DeORFanizing Candida albicans Genes using Coexpression mSphere 6:e01245-20
CGD Papers Entry  Pubmed Entry  
Computational analysisC. albicans |CCJ1
Pal SE, et al. (2021) A Candida parapsilosis Overexpression Collection Reveals Genes Required for Pathogenesis J Fungi (Basel) 7:97
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Large-scale phenotype analysisC. parapsilosis |CPAR2_100540 |CPAR2_104420 |CPAR2_105250 |CPAR2_107020 |CPAR2_107240 |CPAR2_108840 |CPAR2_109520 |CPAR2_200040 |CPAR2_200390 |CPAR2_201920 |CPAR2_205060 |CPAR2_209240 |CPAR2_209520 |CPAR2_300080 |MORE
Paudyal A and Vediyappan G (2021) Cell Surface Expression of Nrg1 Protein in Candida auris J Fungi (Basel) 7:262
CGD Papers Entry  Pubmed Entry  
Large-scale protein localizationC. auris |B9J08_005429
Santos FJPL, et al. (2021) Transcriptome analysis unveils Gln3 role in amino acids assimilation and fluconazole resistance in Candida glabrata J Microbiol Biotechnol
CGD Papers Entry  Pubmed Entry  
Genomic expression studyC. glabrata |ARO8 |CDR1 |GAT1 |GLN3 |PDH1 |PDR1
Singh-Babak SD, et al. (2021) Lineage-specific selection and the evolution of virulence in the Candida clade Proc Natl Acad Sci U S A 118:e2016818118
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Genomic expression studyC. albicans |CDC19 |ENO1 |FBA1 |GLK1 |GLK4 |GPM1 |HXK2 |PFK1 |PFK2 |PFK26 |PGI1 |PGK1 |TDH3 |TPI1
Sircaik S, et al. (2021) The protein kinase Ire1 impacts pathogenicity of Candida albicans by regulating homeostatic adaptation to endoplasmic reticulum stress Cell Microbiol
CGD Papers Entry  Pubmed Entry  
Genomic expression studyC. albicans |IRE1
Vaz C, et al. (2021) Mass Spectrometry-Based Proteomic and Immunoproteomic Analyses of the Candida albicans Hyphal Secretome Reveal Diagnostic Biomarker Candidates for Invasive Candidiasis J Fungi (Basel) 7:501
CGD Papers Entry  Pubmed Entry  
Large-scale protein detectionC. albicans |ADE8 |ALS1 |BGL2 |C1_03510C_A |C2_05550W_A |C2_09600C_A |C3_06920W_A |CHT1 |CHT3 |CIP1 |COI1 |CR_09240C_A |ECE1 |ECM33 |MORE
Vazquez-Fernandez P, et al. (2021) A comparative proteomic analysis of Candida species in response to the oxidizing agent cumene hydroperoxide Arch Microbiol
CGD Papers Entry  Pubmed Entry  
Large-scale protein localization
Vico SH, et al. (2021) The Glyoxylate Cycle Is Involved in White-Opaque Switching in Candida albicans J Fungi (Basel) 7:502
CGD Papers Entry  Pubmed Entry  
Large-scale protein detectionC. albicans |ICL1 |MTLA1 |WOR1
Vu BG, et al. (2021) The Candida glabrata Upc2A transcription factor is a global regulator of antifungal drug resistance pathways PLoS Genet 17:e1009582
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Genomic expression studyC. glabrata |CAGL0F08965g |CAGL0J03916g |CAGL0K03927g |CAGL0K04455g |CAGL0L03828g |ERG10 |ERG13 |ERG2 |ERG4 |ERG5 |ERG6 |UPC2A
Wang JM, et al. (2021) Intraspecies Transcriptional Profiling Reveals Key Regulators of Candida albicans Pathogenic Traits MBio 12:e00586-21
CGD Papers Entry  Pubmed Entry  
Genomic expression study
Xu Z, et al. (2021) De novo genome assembly of Candida glabrata reveals cell wall protein complement and structure of dispersed tandem repeat arrays Mol Microbiol 113:1209-1224
CGD Papers Entry  Pubmed Entry  Web Supplement  Data  
Other genomic analysisC. glabrata |AED1 |AWP12 |AWP13 |CAGL0C00253g |CAGL0C00968g |CAGL0C01133g |CAGL0E00231g |CAGL0E01661g |CAGL0G06842g |CAGL0I07293g |CAGL0J01727g |CAGL0J01774g |CAGL0J04114g |CAGL0J04246g |MORE
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