Pubmed Central ID Article number Allocated Journal Omics type Organism Gene set library GS version Statistical test used FDR Correction App used App Version Code availability Background gene set Assumptions violated Gene lists provided Separated up and down Parameters PMC6493771 691 - PLoS Comput Biol EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE - - PMC6442023 462 - Front Pharmacol RNA-seq Homo sapiens, Rattus norvegicus GEO No GSEA No GSEA Yes NA NA FDR No - rank=no, algo=no, weight=no PMC6384238 213 - Front Oncol Gene expression array, RNA-seq Homo sapiens GO, KEGG No Not stated Yes clusterProfiler No NA Not stated Background Yes - - PMC6594459 1172 - Ann Oncol Database Homo sapiens MSigDB No GSEA No GSEA Yes NA NA FDR No - rank=yes, algo=yes, weight=no PMC6649552 1407 - Cell Cycle RNA-seq Mus musculus GO, KEGG No Not stated No DAVID No NA Not stated Background, FDR No Combined - PMC6478283 637 - PLoS One Database Homo sapiens KEGG, Reactome, PID, DisGeNET, GO No Not stated No ToppGene No NA Not stated Background, FDR Yes - - PMC6413274 342 - Am J Transl Res RNA-seq Mus musculus Ingenuity Knowledge Base No Not stated No Ingenuity Pathway Analysis No NA Not stated Background, FDR No Combined - PMC6413274 342 - Am J Transl Res RNA-seq Mus musculus KEGG No Not stated Yes WebGestalt Yes NA Not stated Background No Separated - PMC6572139 1054 - Metabolites Metabolomics Homo sapiens Human Metabolome Database Yes Fisher Yes MetaboAnalyst No NA Not stated Background Yes - - PMC6626515 1328 - PeerJ RNA-seq, Proteomics Ananas comosus GO, KEGG No Hypergeometric No Not stated No NA Not stated Background, FDR No Combined - PMC6596368 1177 - Front Neurosci Gene expression array Rattus norvegicus KEGG No Hypergeometric No Not stated No NA Not stated Background, FDR No Combined - PMC6387694 223 - Dis Markers Gene expression array Rattus norvegicus GO, KEGG No Not stated No DAVID Yes NA Not stated Background, FDR Yes Combined - PMC6557607 982 - Epigenetics DNA methylation sequencing Homo sapiens GO, Reactome No Not stated No GOrilla No No Not stated Background, FDR No - - PMC6507312 729 - Oncol Lett Gene expression array Homo sapiens GO, KEGG No Fisher No DAVID No NA Not stated Background, FDR No Separated - PMC6372980 179 - ACS Comb Sci EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE - - PMC6584587 1113 - Sci Rep Gene expression array Homo sapiens MetaCore Yes Hypergeometric Yes MetaCore Yes NA Not stated Background Yes Combined - PMC6355180 88 - Oncotarget Gene expression array Homo sapiens Ingenuity Knowledge Base No Not stated No Ingenuity Pathway Analysis No NA No Background, FDR Yes Combined - PMC6356810 94 - Genes (Basel) Gene expression array Homo sapiens KEGG No Not stated No KOBAS Yes NA No Background, FDR No Separated - PMC6461035 557 - Peer J RNA-seq Rattus norvegicus KEGG, GO No Not stated Yes clusterProfiler No No Not stated Background Yes Combined - PMC6586291 1121 - PLoS One Metabolomics Homo sapiens KEGG No MSEA Yes MetaboAnalyst Yes NA NA No No - - PMC6504884 723 - Sci Rep Metabolomics Mus musculus Not stated No Not stated No MetaboAnalyst Yes NA Not stated Background, FDR No - - PMC6504884 723 - Sci Rep Metabolomics Mus musculus Ingenuity Knowledge Base No Not stated No Ingenuity Pathway Analysis No NA Not stated Background, FDR No - - PMC6567466 1034 - J Biomed Semantics EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE - - PMC6676190 1481 - Exp Ther Med Gene expression array Homo sapiens KEGG No Fisher Yes Not stated No No NA No No Combined - PMC6465396 572 - Sci Rep Metabolomics Acropora cervicornis Not stated No Fisher No Mummichog No NA No FDR No - - PMC6350566 73 - Int J Endocrinol Gene expression array Homo sapiens KEGG, GO No Not stated Yes clusterProfiler No No No Background No Combined - PMC6607232 1230 - Oncol Lett Proteomics Homo sapiens KEGG No Not stated No DAVID No NA Not stated Background, FDR No - - PMC6366968 148 - Aging (Albany NY) Gene expression array Homo sapiens KEGG, GO No GSEA Yes GSEA Yes No NA No No - rank=yes, algo=yes, weight=yes PMC6515108 761 - Biomed Res Int Gene expression array Homo sapiens GO, KEGG No Not stated No DAVID Yes NA Not stated Background, FDR No Combined - PMC6391848 246 - Front Genet RNA-seq Bos taurus KEGG, GO No Hypergeometric Yes ClueGO/Cytoscape No NA Not stated Background No - - PMC6391848 246 - Front Genet RNA-seq Bos taurus MSigDB No GSEA Yes GSEA Yes NA NA No No - rank=yes, algo=yes, weight=no PMC6530380 826 - Front Genet RNA-seq Homo sapiens GO No Not stated No GOrilla No NA Not stated Background, FDR No - - PMC6523927 797 - Genes (Basel) RNA-seq Vicia faba GO No Hypergeometric Yes GO: TermFinder No NA Stated, but incorrect Background Yes Combined - PMC6323741 7 - BMC Genomics Metabolomics Bos taurus KEGG No Fisher Yes Mummichog Yes No Yes No Yes - - PMC6549077 932 - Oncol Rep RNA-seq Homo sapiens GO No Not stated No DAVID Yes NA Not stated Background, FDR No - - PMC6549077 932 - Oncol Rep RNA-seq Homo sapiens Not stated No GSEA Yes GSEA No NA NA No No - rank=no, algo=no, weight=no PMC6471144 597 - Nutrients RNA-seq Homo sapiens GO No No test No test DAVID Yes NA Not stated Inference without test No Combined - PMC6387216 220 - Int J Mol Sci Database Mus musculus GO, KEGG No No test No test Cytoscape (No plugin stated) Yes NA Not stated No data shown No - - PMC6367803 156 - J Hematol Oncol Gene expression array, RNA-seq Homo sapiens GO, KEGG No Hypergeometric Yes R script No No Not stated Background, FDR Yes Separated - PMC6367803 156 - J Hematol Oncol Gene expression array, RNA-seq Homo sapiens Not stated No GSEA No GSEA Yes NA NA FDR No - rank=no, algo=no, weight=no PMC6614665 1276 - Oncol Lett DNA methylation array Homo sapiens GO, KEGG, Reactome No Not stated No Not stated No NA Not stated Background, FDR No - - PMC6405989 304 - Sci Rep Gene expression array Homo sapiens Reactome No GSEA Yes GSEA Yes NA NA No No - rank=yes, algo=yes, weight=no PMC6544406 902 - Oncotarget Protein array Homo sapiens Ingenuity Knowledge base No Fisher No Ingenuity Pathway Analysis No NA Yes FDR Yes - - PMC6544406 902 - Oncotarget Protein array Homo sapiens Pathway commons, KEGG, Reactome No Hypergeometric Yes WebGestalt No No Yes No Yes - - PMC6544406 902 - Oncotarget Protein array Homo sapiens MSigDB No GSEA Yes GSEA No NA NA No Yes - rank=no, algo=no, weight=no PMC6383095 207 - Cancer Control Gene expression array Homo sapiens GO, KEGG No Not stated Yes DAVID No NA No Background Yes Separated - PMC6626963 1331 - J Diabetes Investig Gene expression array, Database Homo sapiens GO, KEGG No Not stated No DAVID No NA Not stated Background, FDR No Combined - PMC6447814 499 - Exp Ther Med Gene expression array Mus musculus KEGG, GO No No test No test DAVID Yes NA Not stated Inference without test No Combined - PMC6541682 888 - J Assist Reprod Genet. RNA-seq Homo sapiens MSigDB No GSEA Yes GSEA No NA NA No Yes - rank=yes, algo=yes, weight=no PMC6352917 80 - Front Immunol Proteomics Mus musculus Reactome No Hypergeometric Yes ReactomePA No No Not stated Background Yes - - PMC6352917 80 - Front Immunol Proteomics Mus musculus KEGG No Hypergeometric Yes clusterProfiler No No Not stated Background Yes - - PMC6506780 725 - Front Immunol RNA-seq Homo sapiens GO, Reactome No Not stated Yes GOseq No No Not stated Background No Combined - PMC6620582 1304 - Am J Physiol Gastrointest Liver Physiol RNA-seq Homo sapiens GO, KEGG No Not stated Yes Limma No No Not stated Background No Combined - PMC6602521 1206 - Nucleic Acids Res EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE - - PMC6497041 697 - PeerJ RNA-seq Homo sapiens GO No Hypergeometric Yes GOseq No No Not stated Background Yes Combined - PMC6497041 697 - PeerJ RNA-seq Homo sapiens KEGG No Fisher Yes KOBAS Yes NA Not stated Background Yes Combined - PMC6620567 1303 - Front Oncol RNA-seq Homo sapiens GO, KEGG No Not stated Yes clusterProfiler No No Not stated Background No - - PMC6548796 928 - 3 Biotech RNA-seq Anas platyrhynchos GO, KEGG No Hypergeometric No DAVID Yes NA Not stated Background, FDR Yes Combined - PMC6342918 55 - Transl Psychiatry Gene expression array, DNA methylation array Homo sapiens MSigDB No Hypergeometric Yes GSEA Yes Yes NA No Yes - - PMC6463127 564 - J Clin Med RNA-seq Homo sapiens KEGG, GO No Fisher No DAVID No NA Not stated Background, FDR Yes Separated - PMC6400810 280 - J Cancer Gene expression array, DNA methylation array Homo sapiens KEGG, GO No Not stated No DAVID No NA Not stated Background, FDR No Separated - PMC6543588 897 - Clin Epigenetics. DNA methylation array Homo sapiens GO No Fisher Yes Ingenuity Pathway Analysis No NA Not stated Background Yes - - PMC6438477 449 - PLoS One Genome sequencing Coturnix japonica Ingenuity Knowledge Base No Not stated No Ingenuity Pathway Analysis No No Not stated Background, FDR No - - PMC6651993 1420 - J Immunother Cancer Genome sequencing Homo sapiens KEGG No Kruskal-Wallis No Not stated No No Not stated Background, FDR No - - PMC6529576 822 - Front Genet Genome sequencing Homo sapiens Jensen Diseases database No Fisher No Enrichr No NA Not stated Background, FDR Yes - - PMC6533725 839 - BMC Musculoskelet Disord Proteomics Homo sapiens GO No Not stated No PANTHER Yes NA Not stated Background, FDR No - - PMC6459497 552 - PLoS One Genome sequencing Bos taurus GO Yes Binomial Yes PANTHER No NA Not stated Background Yes - - PMC6459497 552 - PLoS One Genome sequencing Bos taurus KEGG No Not stated Yes DAVID No NA Not stated Background Yes - - PMC6525806 805 - Stem Cells Int Gene expression array Homo sapiens Ingenuity Knowledge Base No Not stated Yes Ingenuity Pathway Analysis No NA Not stated Background Yes Separated - PMC6432904 420 - PeerJ Gene expression array Homo sapiens KEGG, GO No Not stated Yes DAVID No NA Not stated Background Yes Separated - PMC6381748 203 - Cell Commun Signal Proteomics Rattus norvegicus GO No Hypergeometric Yes MetaCore No NA Not stated Background Yes - - PMC6381748 203 - Cell Commun Signal Proteomics Rattus norvegicus SIGNOR Yes Kolmogorov–Smirnov Yes KSEA No NA NA No Yes - - PMC6599637 1191 - Radiat Res Proteomics Mus musculus Ingenuity Knowledge Base No Not stated No Ingenuity Pathway Analysis No NA Not stated Background, FDR No - - PMC6387703 224 - Evid Based Complement Alternat Med EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE - - PMC6435965 436 - Front Genet RNA-seq Oreochromis niloticus KEGG No No test No test KAAS No No Not stated Inference without test No Combined - PMC6468359 580 - Metabolites Metabolomics Homo sapiens KEGG No Fisher, Hypergeometric No MSEA No NA NA FDR No - - PMC6349697 68 - Front Genet RNA-seq Homo sapiens KEGG, GO Yes Not stated Yes DAVID Yes NA Not stated Background Yes - - PMC6507459 735 - Oncol Lett Gene expression array Homo sapiens GO, KEGG No Not stated No DAVID No NA Not stated Background, FDR No Separated - PMC6446359 490 - Respir Res RNA-seq Homo sapiens KEGG, Reactome No Not stated Yes GAGE No NA NA No No - - PMC6377737 187 - BMC Genomics miRNA-seq Rattus norvegicus KEGG No Not stated Yes DAVID No NA Not stated Background Yes - - PMC6520261 779 - Int J Ophthalmol miRNA array Mus musculus GO, KEGG No Not stated No Not stated No NA Not stated Background, FDR No - - PMC6466271 573 - Animals (Basel Genome sequencing Canis lupus familiaris GO, KEGG No Not stated Yes g:GOSt No No Not stated Background No - - PMC6627192 1334 - Cancers (Basel) miRNA array Homo sapiens Ingenuity Knowledge Base No Not stated Yes Ingenuity Pathway Analysis No NA Not stated Background No - - PMC6363745 127 - Sci Rep RNA-seq Homo sapiens GO No No test No test DAVID Yes NA Not stated No data shown Yes Not stated - PMC6425643 394 - Chin Med Gene expression array Homo sapiens Ingenuity Knowledge Base No Not stated No Ingenuity Pathway Analysis No NA Not stated Background, FDR No Combined - PMC6595412 1175 - Mol Ther Nucleic Acids RNA-seq Rattus norvegicus GO, KEGG No Not stated Yes KOBAS No NA Not stated Background Yes Combined - PMC6518761 775 - BMC Bioinformatics. Gene expression array Homo sapiens, Mus musculus KEGG, Reactome, BioCarta No Hypergeometric No anamiR No Yes Not stated Background, FDR No Combined - PMC6549101 933 - Oncol Rep Gene expression array Homo sapiens GO, KEGG, Reactome, BioCarta No Not stated Yes DAVID Yes NA Not stated Background No - - PMC6549101 933 - Oncol Rep Gene expression array Homo sapiens MSigDB Yes GSEA Yes GSEA Yes NA NA No No - rank=no, algo=no, weight=no PMC6555064 968 - J Endocr Soc EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE - - PMC6480898 646 - BMC Cancer Protein array Homo sapiens Not stated No Hypergeometric, Fisher Yes PANTHER Yes NA Not stated Background No - - PMC6480898 646 - BMC Cancer Protein array Homo sapiens MSigDB No GSEA No GSEA No NA NA No data shown No - rank=no, algo=no, weight=no PMC6480898 646 - BMC Cancer Protein array Homo sapiens KEGG No Not stated No STRING Yes NA Not stated No data shown No - - PMC6598377 1184 - BMC Genomics RNA-seq Salvelinus alpinus GO No Fisher No topGO Yes No Not stated Background, FDR No Separated - PMC6647481 1405 - Mol Breed RNA-seq Brassica napus GO, InterPro No Not stated No Not stated No NA Not stated No data shown Yes Combined - PMC6347630 64 - Cell Death Dis RNA-seq Homo sapiens, Mus musculus GO No Not stated Yes DAVID No NA Not stated Background No Combined - PMC6328465 15 - Front Oncol Gene expression array Homo sapiens Ingenuity Knowledge Base No Not stated No Ingenuity Pathway Analysis No NA Not stated Background, FDR No Combined - PMC6450037 523 - Genome Biol Evol Genome sequencing Moschus berezovskii KEGG, GO No Not stated Yes KOBAS No NA Not stated Background No - - PMC6457337 547 - Front Physiol RNA-seq Bemisia tabaci GO No No test No test GOseq No No Not stated Inference without test, Background No Combined - PMC6457337 547 - Front Physiol RNA-seq Bemisia tabaci KEGG No No test No test KOBAS No NA Not stated Inference without test, Background No Combined - PMC6410691 329 - PeerJ RNA-seq Mauremys reevesii GO No Not stated No Blast2GO Yes No Not stated Background, FDR No Combined - PMC6410691 329 - PeerJ RNA-seq Mauremys reevesii KEGG No Not stated No KAAS No No Not stated Background, FDR No Combined - PMC6593161 1163 - Front Pharmacol Database Homo sapiens GO, KEGG No Not stated No Molecule Annotation System Yes NA Not stated Background, FDR No - - PMC6447890 500 - Exp Ther Med Gene expression array Homo sapiens KEGG, GO No Not stated No GENCLIP No NA Not stated Background, FDR No Combined - PMC6371578 175 - Clin Epigenetics Gene expression array, DNA methylation array Homo sapiens KEGG, GO No Not stated Yes clusterProfiler No No Not stated Background Yes Separated - PMC6455524 538 - EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE - - PMC6657577 1432 - Toxicol Sci NanoString gene expression Mus musculus Ingenuity Knowledge Base No Fisher Yes Ingenuity Pathway Analysis No NA Not stated Background Yes - - PMC6591379 1147 - Sci Rep Gene expression array Homo sapiens GO, KEGG No Fisher Yes Not stated No NA Not stated Background Yes Separated - PMC6580485 1090 - BMC Bioinformatics RNA-seq Homo sapiens GO No Not stated No PANTHER No No Not stated Background, FDR No - - PMC6599230 1187 - BMC Med Genet DNA methylation sequencing Homo sapiens Ingenuity Knowledge Base No Not stated No Ingenuity Pathway Analysis No NA Not stated Background, FDR No - - PMC6498668 702 - BMC Bioinformatics Database Homo sapiens MSigDB No Fisher Yes GSEA No NA NA No No - - PMC6526173 807 - Onco Targets Ther Gene expression array Homo sapiens GO, KEGG No Not stated No DAVID No NA Not stated Background, FDR No Combined - PMC6645034 1395 - PeerJ Gene expression array Homo sapiens GO, KEGG No Not stated No DAVID No NA Not stated Background, FDR No Separated - PMC6620395 1301 - J Bacteriol Metabolomics Mycobacterium smegmatis Not stated No Not stated Yes MetaboAnalyst Yes NA Not stated Background Yes - - PMC6588443 1128 - Neurobiol Dis RNA-seq Mus musculus GO No Not stated Yes DAVID No NA Not stated Background Yes - - PMC6601337 1198 - Diabetes Metab Syndr Obes Gene expression array Homo sapiens GO No GSEA Yes GSEA Yes NA NA No No - rank=no, algo=no, weight=no PMC6601337 1198 - Diabetes Metab Syndr Obes Gene expression array Homo sapiens KEGG No Hypergeometric Yes ClueGO/Cytoscape No No Not stated Background No - - PMC6636026 1366 - BMC Genet Genotyping array Bos taurus Ingenuity Knowledge Base No Not stated Not stated Ingenuity Pathway Analysis No NA Not stated Background, FDR No - - PMC6636026 1366 - BMC Genet Genotyping array Bos taurus GO Yes Hypergeometric Yes SNP2GO R package No No Not stated Background No - - PMC6657253 1429 - Arch Med Sci Gene expression array Homo sapiens GO, KEGG No GSEA Yes GSEA Yes NA NA No No - rank=no, algo=no, weight=no PMC6390070 240 - Mol Med Rep Gene expression array Homo sapiens GO, KEGG No Not stated No DAVID No NA Not stated Background, FDR No Combined - PMC6390070 240 - Mol Med Rep Gene expression array Homo sapiens GO, KEGG No GSEA No GSEA No NA NA FDR No - rank=no, algo=no, weight=no PMC6478396 638 - Metabolomics Metabolomics Mus musculus KEGG No Fisher Yes MetaboAnalyst No NA Yes No Yes - - PMC6403221 290 - Sci Rep RNA-seq Oryza sativa GO No Not stated Yes agriGO No NA Not stated Background Yes Combined - PMC6403221 290 - Sci Rep RNA-seq Oryza sativa KEGG No Not stated No Not stated No NA Not stated Background, FDR Yes Combined - PMC6518677 774 - BMC Genomics Genotyping array Bos grunniens GO, Reactome No Not stated Yes PANTHER No NA Not stated Background Yes - - PMC6383344 208 - J Res Med Sci Gene expression array Rattus norvegicus KEGG, GO, Reactome No Not stated Yes ClueGO/Cytoscape Yes NA Not stated Background No Combined - PMC6650071 1408 - PLoS One RNA-seq Suaeda salsa GO, KEGG No Not stated Yes Not stated No NA Not stated Background No Separated - PMC6572715 1058 - Metabolites RNA-seq Homo sapiens MSigDB Yes GSEA Yes GSEA Yes NA NA No No - rank=yes, algo=yes, weight=yes PMC6572715 1058 - Metabolites Metabolomics Homo sapiens ChemRICH Yes Kolmogorov–Smirnov Yes ChemRICH Yes NA NA No No - - PMC6377753 188 - BMC Genomics RNA-seq Oryctolagus cuniculus GO No Not stated Yes PANTHER No NA Not stated Background Yes Combined - PMC6522869 793 - Mol Med Rep Gene expression array Homo sapiens GO, KEGG No Not stated No DAVID Yes NA Not stated Background, FDR No Combined - PMC6370189 168 - PLoS One RNA-seq Mus musculus GO No Not stated Yes GOrilla No NA Stated, but incorrect Background Yes Separated - PMC6530124 825 - Cancer Cell Int Gene expression array Homo sapiens GO No Not stated No DAVID Yes NA Not stated Background, FDR Yes Separated - PMC6530124 825 - Cancer Cell Int Gene expression array Homo sapiens KEGG Yes Not stated No FunRich Yes NA Not stated Background, FDR Yes Separated - PMC6676399 1482 - Oncol Lett RNA-seq Homo sapiens MSigDB Yes GSEA NA GSEA Yes NA NA No No - rank=no, algo=no, weight=yes PMC6482192 652 - Sci Rep Genome sequencing Pagrus major GO, KEGG No Not stated No DAVID No NA Yes FDR Yes - - PMC6482192 652 - Sci Rep Genome sequencing Pagrus major GO No Not stated No PANTHER No NA Yes FDR Yes - - PMC6602513 1204 - Nucleic Acids Res NONE NONE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE - - PMC6509566 741 - Front Genet Gene expression array, RNA-seq Homo sapiens GO, KEGG No Not stated No DAVID No NA Not stated Background, FDR No Combined - PMC6568258 1040 - Metabolomics Metabolomics Homo sapiens MetaboAnalyst Yes Not stated No MetaboAnalyst Yes NA Not stated Background, FDR Yes - - PMC6580234 1089 - Heliyon Proteomics Candida albicans GO No Hypergeometric Yes ClueGO/Cytoscape No NA Not stated Background No - - PMC6626902 1330 - Cancer Manag Res Database Homo sapiens GO No Not stated Yes Not stated No NA Not stated Background No - - PMC6463024 562 - J Cardiovasc Dev Dis Gene expression array Rattus norvegicus Ingenuity Knowledge Base Yes Fisher No Ingenuity Pathway Analysis Yes NA Not stated Background, FDR Yes Combined - PMC6482152 651 - Sci Rep RNA-seq, ATAC-seq Homo sapiens EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE - - PMC6399257 269 - Commun Biol Genotyping array Homo sapiens Reactome, KEGG, BioCarta No modified Chi-squared No Pascal No NA Not stated Background, FDR Yes - - PMC6585899 1120 - PeerJ Gene expression array Homo sapiens GO, KEGG No Not stated No DAVID No NA Not stated Background, FDR Yes - - PMC6317205 1 - J Transl Med PCR Array Homo sapiens Not stated No No test No test DAVID No NA Not stated Inference without test, Background Yes - - PMC6405138 300 - PLoS One Gene expression array Homo sapiens Not stated No Fisher No DAVID No NA Stated, but incorrect Background, FDR Yes Combined - PMC6405138 300 - PLoS One Gene expression array Homo sapiens GO, KEGG, Reactome No Hypergeometric Yes ClueGO/Cytoscape Yes NA Stated, but incorrect No data shown, FDR Yes Combined - PMC6405138 300 - PLoS One Gene expression array Homo sapiens JASPAR, KEGG No Not stated Yes NetworkAnalyst No NA Not stated Background Yes Combined - PMC6405138 300 - PLoS One Gene expression array Homo sapiens TRANSFAC, JASPAR No Not stated Yes Enrichr No NA Not stated Background Yes Combined - PMC6489013 677 - Oncol Rep Database Homo sapiens GO, KEGG No Not stated No DAVID No NA Not stated Background, FDR, No data shown No - - PMC6528264 817 - Cancer Cell Int Gene expression array Homo sapiens KEGG No GSEA Yes GSEA No NA NA No No - rank=no, algo=no, weight=no PMC6607081 1226 - Oncol Lett Gene expression array Homo sapiens GO, KEGG No Not stated No clusterProfiler No No Not stated Background, FDR Yes Combined - PMC6341096 49 - Transl Psychiatry RNA-seq Homo sapiens GO No Not stated Yes clusterProfiler No Yes Not stated Background Yes Combined - PMC6468815 586 - Cells Proteomics Homo sapiens GO, KEGG No Not stated Yes DAVID No NA Not stated Background Yes - - PMC6364390 132 - Clin Proteomics Proteomics Homo sapiens KEGG No Not stated Yes Not stated No NA Not stated Background Yes - - PMC6571061 1048 - Clin Cancer Res Metabolomics Homo sapiens KEGG No Hypergeometric No Not stated No No Not stated Background, FDR Yes - - PMC6571061 1048 - Clin Cancer Res Gene expression array Homo sapiens MSigDB No GSEA Yes GSEA No No NA No No - rank=yes, algo=no, weight=no PMC6365689 138 - Oncol Rep Gene expression array Homo sapiens GO, KEGG No Not stated No DAVID No NA Not stated Background, FDR No Combined - PMC6445295 486 - Front Neurosci Proteomics, Gene expression array Homo sapiens Ingenuity Knowledge Base No Not stated Not stated Ingenuity Pathway Analysis No NA Not stated No data shown No - - PMC6460585 555 - Eur J Hum Genet Whole exome sequencing Homo sapiens EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE - - PMC6619257 1297 - Hepatology Metgenomics, Metabolomics Mus musculus Ingenuity Knowledge Base No Not stated No Ingenuity Pathway Analysis No NA Not stated Background, FDR No - - PMC6572621 1057 - J Clin Med Gene expression array, RNA-seq Homo sapiens GO No Not stated Yes DAVID No NA Not stated Background Yes Separated - PMC6463198 565 - J Clin Med Genotyping array Homo sapiens Ingenuity Knowledge Base No Fisher Not stated Ingenuity Pathway Analysis No NA Not stated Background, FDR Yes - - PMC6441198 456 - Clin Proteomics Proteomics Homo sapiens Ingenuity Knowledge Base No Not stated No Ingenuity Pathway Analysis No NA Not stated Background, FDR Yes - - PMC6489005 676 - Exp Ther Med RNA-seq Homo sapiens Not stated No Not stated No webMeV Yes NA Not stated Background, FDR No Combined - PMC6653643 1422 - Front Oncol Metabolomics Homo sapiens KEGG No Not stated No Mummichog Yes NA Not stated Background, FDR No - - PMC6480502 643 - Int J Mol Sci RNA-seq Oryza sativa GO, KEGG No Hypergeometric Yes Not stated No No Stated, but incorrect Background Yes Combined - PMC6574935 1071 - Curr Dev Nutr EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE - - PMC6585500 1119 - Appl Environ Microbiol RNA-seq Clostridium scindens COG No Fisher Yes EggNOG No NA Not stated Background Yes Separated - PMC6542760 893 - Biosci Rep Database Homo sapiens GO No Not stated No DAVID No No Not stated Background, FDR Yes - - PMC6459169 550 - Genomics Inform RNA-seq Pygoscelis antarcticus, Pygoscelis papua GO, KEGG No No test No test Blast2GO Yes NA Not stated Inference without test, Background No - - PMC6609559 1239 - FEBS Open Bio Gene expression array Homo sapiens Ingenuity Knowledge Base No Not stated No Ingenuity Pathway Analysis No NA Not stated Background, FDR No - - PMC6519025 777 - Int J Nanomedicine Gene expression array Homo sapiens GO, KEGG No Hypergeometric No Custom MATLAB script Yes No Not stated Background, FDR No Separated - PMC6549663 937 - Onco Targets Ther Gene expression array Homo sapiens GO, KEGG No Not stated No DAVID No NA Not stated Background, FDR Yes Combined - PMC6466436 574 - Viruses RNA-seq Sclerotinia sclerotiorum GO No Not stated No Blast2GO No NA Not stated Background, FDR No Combined - PMC6466436 574 - Viruses RNA-seq Sclerotinia sclerotiorum KEGG No Not stated Yes KOBAS Yes NA Not stated Background No Combined - PMC6546980 917 - Oncol Lett Gene expression array Homo sapiens CYTOBAND No Not stated No DAVID Yes NA Not stated Background, FDR No Combined - PMC6546980 917 - Oncol Lett Gene expression array Homo sapiens GO, KEGG No Not stated Yes clusterProfiler No NA Not stated Background No Combined - PMC6350986 76 - PLoS One Genome sequencing Aedes aegypti Vectorbase No Hypergeometric No Custom R script Yes No Yes FDR Yes Combined - PMC6366983 150 - Aging (Albany NY) Gene expression array, CNV array Homo sapiens GO, KEGG No Not stated Yes clusterProfiler No No Not stated Background No Combined - PMC6366983 150 - Aging (Albany NY) Gene expression array, CNV array Homo sapiens GO, KEGG No Not stated Yes WebGestalt No NA Not stated Background No Combined - PMC6366983 150 - Aging (Albany NY) Gene expression array, CNV array Homo sapiens MSigDB No GSEA Yes GSEA No NA NA No No - rank=yes, algo=no, weight=no PMC6483862 658 - Nature EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE - - PMC6524193 799 - Arch Med Sci Gene expression array Homo sapiens GO, KEGG No No test No test DAVID No NA Not stated Inference without test, Background No Combined - PMC6556043 973 - J Ovarian Res scRNA-seq Mus musculus GO, KEGG No No test No test Ingenuity Pathway Analysis No NA Not stated Inference without test, Background No - - PMC6591352 1146 - Rice (N Y) RNA-seq Oryza sativa GO No Not stated Yes agriGO No NA Not stated Background Yes Combined - PMC6591352 1146 - Rice (N Y) RNA-seq Oryza sativa KEGG No Not stated No Not stated No NA Not stated Background, FDR Yes Combined - PMC6504007 717 - Biol Open RNA-seq Sus scrofa GO No Not stated Yes GOseq Yes No Not stated Background Yes Not stated - PMC6504007 717 - Biol Open RNA-seq Sus scrofa KEGG No Not stated No KOBAS Yes NA Not stated Background, FDR Yes Not stated - PMC6504007 717 - Biol Open RNA-seq Sus scrofa Ingenuity Knowledge Base No Fisher Yes Ingenuity Pathway Analysis No NA Not stated Background Yes Separated - PMC6345189 59 - Onco Targets Ther Gene expression array Homo sapiens Metascape No Not stated No Metascape No NA Not stated Background, FDR Yes Combined - PMC6345189 59 - Onco Targets Ther Gene expression array Homo sapiens MSigDB Yes GSEA Yes GSEA Yes NA NA No No - rank=no, algo=no, weight=no PMC6676637 1487 - Mol Med Gene expression array Homo sapiens GO No Hypergeometric Yes BiNGO No NA Not stated Background Yes - - PMC6676637 1487 - Mol Med Gene expression array Homo sapiens KEGG, Reactome No Not stated Yes DAVID No NA Not stated Background Yes - - PMC6536036 855 - Med Sci Monit Gene expression array Homo sapiens GO, KEGG No GSEA Yes GSEA No NA NA No No - rank=no, algo=no, weight=no PMC6536036 855 - Med Sci Monit Gene expression array Homo sapiens GO, KEGG No GSVA Yes GSVA No No NA No No - - PMC6333785 34 - Sci Rep PPI Triticum aestivum GO, KEGG No Hypergeometric Yes Custom R script No No Not stated Background No - - PMC6433918 421 - Cell Death Dis Gene expression array Homo sapiens MSigDB No GSEA Yes GSEA No NA NA No No - rank=no, algo=no, weight=no PMC6454734 532 - Mol Autism Gene expression array Homo sapiens MSigDB No GSEA Yes GSEA No NA NA No Yes - rank=yes, algo=no, weight=no PMC6454734 532 - Mol Autism Gene expression array Homo sapiens MSigDB No GSEA Yes fgsea No No NA No Yes - - PMC6454734 532 - Mol Autism Gene expression array Homo sapiens MSigDB No Not stated No g:Profiler No NA Not stated Background, FDR Yes Separated - PMC6409312 320 - Front Pharmacol Database Homo sapiens GO No Not stated Yes DAVID Yes NA Not stated Background No - - PMC6409312 320 - Front Pharmacol Database Homo sapiens KEGG No Not stated Yes KOBAS Yes NA Not stated Background No - - PMC6597585 1180 - Nat Commun EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE - - PMC6389773 234 - Thyroid RNA-seq Homo sapiens GO, KEGG, Reactome No Not stated Yes DAVID No NA Not stated Background No Combined - PMC6580941 1094 - J Virol RNA-seq Homo sapiens GO No Not stated No DAVID No NA Not stated Background, FDR Yes Separated - PMC6579764 1076 - Cell Death Discov RNA-seq Sus scrofa GO No Not stated Yes PANTHER No NA Not stated Background Yes Combined - PMC6471048 596 - Int J Mol Sci Proteomics Homo sapiens GO No Not stated No g:Profiler No NA Not stated Background, FDR Yes - - PMC6481126 648 - Biomed Res Int Gene expression array Homo sapiens GO No Not stated Not stated STRING No NA Not stated Background, FDR Yes Combined - PMC6481126 648 - Biomed Res Int Gene expression array Homo sapiens KEGG No Not stated Not stated DAVID No NA Not stated Background, FDR Yes Combined - PMC6435236 435 - PLoS One Gene expression array Mus musculus MSigDB No GSEA Yes GSEA No NA NA No No - rank=no, algo=no, weight=no PMC6435236 435 - PLoS One Gene expression array Mus musculus GO No Hypergeometric Yes BiNGO Yes NA Not stated Background Yes Separated - PMC6492420 687 - BMC Infect Dis Database Homo sapiens KEGG No No test No test Enrichr No NA Not stated No data shown, Background No - - PMC6507394 734 - Oncol Lett RNA-seq Homo sapiens GO Yes Not stated Yes PANTHER Yes NA Stated, but incorrect Background No Combined - PMC6412147 336 - Oncol Rep Gene expression array Homo sapiens Ingenuity Knowledge Base No Not stated Not stated Ingenuity Pathway Analysis No NA Not stated No data shown, Background No Combined - PMC6637470 1376 - BMC Res Notes EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE EXCLUDE - - PMC6557548 979 - Epigenetics DNA methylation array Homo sapiens KEGG No Not stated No DAVID Yes NA Not stated Background, FDR Yes - - PMC6546408 913 - RNA Biol Gene expression array Homo sapiens GO No No test No test WebGestalt No NA Not stated Inference without test, Background No Combined - PMC6546408 913 - RNA Biol Gene expression array Homo sapiens Not stated No Not stated Not stated Enrichr No NA Not stated No data shown, Background No Not stated - PMC6546408 913 - RNA Biol Gene expression array Homo sapiens Not stated No Not stated Not stated PathVisio No NA Not stated No data shown, Background No - - PMC6546408 913 - RNA Biol Gene expression array Homo sapiens Not stated No Not stated Not stated DAVID Yes NA Not stated No data shown, Background No Not stated - PMC6614983 1283 - Biomed Res Int RNA-seq Sus scrofa GO, KEGG No Not stated Yes DAVID No NA Not stated Background, Misinterpreted FDR values Yes Combined - PMC6538180 866 - PLoS One Gene expression array Homo sapiens Ingenuity Knowledge Base No Not stated No Ingenuity Pathway Analysis No NA Not stated Background, FDR No Combined - PMC6582507 1102 - BMC Genomics RNA-seq Sus scrofa GO, KEGG No Hypergeometric, Fisher Yes Custom R script No No Not stated Background No Combined - PMC6318854 3 - BMC Med Genomics DNA methylation array Homo sapiens GO No No test No test PANTHER Yes NA Not stated Inference without test, Background No - - PMC6406182 307 - World J Gastrointest Oncol Gene expression array Homo sapiens KEGG, GO No Not stated No DAVID Yes NA Not stated Background, FDR No Combined - PMC6559227 996 - Cancer Manag Res Gene expression array Homo sapiens GO, KEGG No Not stated No DAVID No NA Not stated Background, FDR No Separated - PMC6559227 996 - Cancer Manag Res Gene expression array Homo sapiens Not stated No GSEA Yes GSEA No NA NA No No - rank=yes, algo=yes, weight=no PMC6535219 845 - PeerJ RNA-seq Homo sapiens GO No Not stated Yes DAVID No NA Not stated Background Yes Separated - PMC6535219 845 - PeerJ RNA-seq Homo sapiens MSigDB No GSEA Yes GSEA Yes NA NA No No - rank=yes, algo=yes, weight=yes PMC6460854 556 - BMC Genomics RNA-seq Mizuhopecten yessoensis GO No Not stated Yes Blast2GO No No Not stated Background No - - PMC6460854 556 - BMC Genomics RNA-seq Mizuhopecten yessoensis KEGG No Not stated Yes KAAS No NA Not stated Background No - - PMC6476004 620 - Dis Markers Metabolomics Homo sapiens MetaboAnalyst Yes Not stated No MetaboAnalyst Yes NA Not stated Background, FDR No - - PMC6383401 209 - Biomed Res Int Database Homo sapiens KEGG, GO No Not stated Yes DAVID No NA Not stated Background No - - PMC6591089 1141 - J Invest Dermatol RNA-seq Homo sapiens, Mus musculus Not stated No GSEA No GSEA Yes NA NA No No - rank=yes, algo=yes, weight=no PMC6472139 610 - Mol Med Rep Database Homo sapiens GO No Not stated Yes DAVID No NA Not stated Background No - - PMC6677090 1500 - Front Genet Database Sus scrofa KEGG, GO No Hypergeometric Yes GO::TermFinder No No Not stated Background No - - PMC6475113 617 - Endocrinology Gene expression array Mus musculus KEGG No Not stated Yes Enrichr No No Not stated Background No Combined - PMC6379932 194 - BMC Genomics Database Mus musculus Ingenuity Knowledge Base Yes Fisher Yes Ingenuity Pathway Analysis Yes NA Not stated Background No - - PMC6388971 230 - Cancer Manag Res Database Homo sapiens KEGG, GO No Not stated No DAVID No NA Yes FDR No - - PMC6369488 164 - Biomed Res Int Gene expression array Homo sapiens KEGG, GO No Not stated Yes GeneCodis No No Not stated Background No Combined - PMC6503205 713 - Cancer Manag Res Gene expression array Homo sapiens MSigDB, KEGG Yes GSEA Yes GSEA Yes NA NA No No - rank=no, algo=no, weight=no PMC6389004 231 - Onco Targets Ther Database Homo sapiens GO No Not stated Yes GOseq No No Not stated Background No - - PMC6389004 231 - Onco Targets Ther Database Homo sapiens KEGG No Not stated Yes KOBAS No NA Not stated Background No - - PMC6486412 668 - Virology Gene expression array Homo sapiens Ingenuity Knowledge Base No Not stated No Ingenuity Pathway Analysis No NA Not stated Background, FDR Yes Combined - PMC6370049 167 - Medicine (Baltimore) Gene expression array Homo sapiens GO, KEGG, OMIM No EASE Yes DAVID Yes NA Not stated Background, Misinterpreted FDR values No Separated -