This is a table of named entities, their types, and their frequencies from sentences in your study carrel. Use it to search & browse the list to learn more about your study carrel. Please keep in mind that named-entity extraction is not as accurate as more generic parts-of-speech extraction. Unusual results will appear here.
| entity | type | frequency |
|---|---|---|
| by-nc-nd | ORG | 201 |
| rna | ORG | 140 |
| pca | ORG | 131 |
| al. | GPE | 119 |
| j. | PERSON | 117 |
| c. | GPE | 107 |
| g. | PERSON | 104 |
| sparc | ORG | 100 |
| via | ORG | 99 |
| a. | GPE | 94 |
| s. | GPE | 87 |
| rowdiff | ORG | 87 |
| scpnmf | PERSON | 82 |
| h. | GPE | 82 |
| m. | PERSON | 78 |
| a us government | ORG | 74 |
| genbank | ORG | 71 |
| atorvastatin | ORG | 70 |
| l. | PERSON | 69 |
| hpv | ORG | 69 |
| k. | PERSON | 69 |
| snp | ORG | 66 |
| li | PERSON | 66 |
| fs | ORG | 66 |
| y. | GPE | 65 |
| tet | ORG | 64 |
| de | ORG | 63 |
| particlechromo3d | ORG | 63 |
| ace | ORG | 61 |
| t. | GPE | 60 |
| ribovore | PERSON | 58 |
| i. | ORG | 58 |
| p. | GPE | 56 |
| inter-n-of-1 | ORG | 54 |
| prr | ORG | 52 |
| pnmf | ORG | 51 |
| vaf | ORG | 50 |
| kraken2 | GPE | 49 |
| v. | GPE | 49 |
| ld | GPE | 49 |
| cnaqc | ORG | 48 |
| bfimpute | ORG | 48 |
| e. | ORG | 46 |
| harmony | PERSON | 45 |
| bioinformatics | ORG | 45 |
| scc | ORG | 42 |
| ncbi | ORG | 42 |
| x. | PERSON | 42 |
| tf | ORG | 41 |
| ild | ORG | 41 |
| gwh | ORG | 41 |
| cts | ORG | 41 |
| umap | ORG | 39 |
| cna | ORG | 38 |
| nbdriver | ORG | 38 |
| chen | PERSON | 37 |
| − | PERSON | 36 |
| wang | ORG | 36 |
| sds | ORG | 35 |
| its | ORG | 35 |
| gwas | ORG | 35 |
| svm | ORG | 34 |
| rna-seq | ORG | 34 |
| pharmacome | ORG | 33 |
| vcf | ORG | 31 |
| journal | ORG | 31 |
| bdca | GPE | 30 |
| z. | GPE | 30 |
| deseq2 | ORG | 29 |
| combat | ORG | 29 |
| bert | ORG | 29 |
| marv | ORG | 29 |
| salmon | PERSON | 29 |
| rnammer | ORG | 29 |
| vol | ORG | 28 |
| ncrnas | ORG | 28 |
| basset | GPE | 28 |
| b. | GPE | 28 |
| n. | GPE | 27 |
| bbknn | ORG | 27 |
| g. aurea | PERSON | 27 |
| protvec | ORG | 27 |
| python | ORG | 27 |
| w. | GPE | 27 |
| pcc | ORG | 26 |
| dcnn | ORG | 26 |
| pdb | ORG | 25 |
| egfr | ORG | 25 |
| atp | ORG | 24 |
| adr | ORG | 24 |
| househam et al | PERSON | 24 |
| remdesivir drc | PERSON | 24 |
| raloxifene | PERSON | 24 |
| rrid | ORG | 24 |
| liu | PERSON | 23 |
| js | GPE | 23 |
| jaccard | GPE | 23 |
| gmmmd | ORG | 23 |
| pearson | PERSON | 23 |
| ravlt | PERSON | 23 |
| scaespy | ORG | 23 |
| uk | GPE | 22 |
| sda | ORG | 22 |
| neuronmotif | ORG | 22 |
| fdr | PERSON | 22 |
| eq | PERSON | 22 |
| vals | GPE | 22 |
| cdr | ORG | 21 |
| cnv | ORG | 21 |
| ember | ORG | 21 |
| by-nc 4.0 international | ORG | 21 |
| dfgin | ORG | 21 |
| poisson | PERSON | 21 |
| hg | ORG | 21 |
| nih | ORG | 21 |
| biorxiv | ORG | 21 |
| kia | ORG | 21 |
| nmi | ORG | 20 |
| ngs | ORG | 20 |
| f. | GPE | 20 |
| china | GPE | 20 |
| bmc | ORG | 20 |
| auroc | ORG | 20 |
| mmdae | ORG | 19 |
| braak | GPE | 19 |
| lsu | ORG | 19 |
| utr | ORG | 19 |
| pfi | ORG | 19 |
| zhang | PERSON | 19 |
| hmm | ORG | 18 |
| adni | ORG | 18 |
| car | ORG | 18 |
| cca | ORG | 18 |
| cutevariant | ORG | 18 |
| dfgout | ORG | 18 |
| genome biol | PERSON | 18 |
| ligand | GPE | 18 |
| mci | ORG | 18 |
| mmdvae | ORG | 18 |
| marquand | GPE | 18 |
| nb | GPE | 18 |
| ppm | ORG | 18 |
| q. | PERSON | 18 |
| yang | PERSON | 18 |
| johnson | PERSON | 17 |
| ding | PERSON | 17 |
| alevin-fry | PERSON | 17 |
| Λg | GPE | 17 |
| lncrna | ORG | 17 |
| the national academy of sciences | ORG | 16 |
| scimpute | PERSON | 16 |
| ilp | ORG | 16 |
| cufflinks | ORG | 16 |
| blackfynn | ORG | 16 |
| bmc bioinformatics | ORG | 16 |
| (m) % | ORG | 16 |
| ii | ORG | 15 |
| madhitter | PERSON | 15 |
| ahr | ORG | 15 |
| auc | ORG | 15 |
| germany | GPE | 15 |
| mm | PERSON | 15 |
| nat methods | PERSON | 15 |
| rmse | ORG | 15 |
| science | ORG | 15 |
| semrep | ORG | 15 |
| uhs | ORG | 15 |
| usa | GPE | 15 |
| roc | GPE | 14 |
| kim | PERSON | 14 |
| k | ORG | 14 |
| greenacre | GPE | 14 |
| ebseq | ORG | 14 |
| cambridge | GPE | 14 |
| esca | ORG | 13 |
| fgn | ORG | 13 |
| go | ORG | 13 |
| ccf | ORG | 13 |
| anisomycin | GPE | 13 |
| genome biology | PERSON | 13 |
| genetics | ORG | 13 |
| nmf | ORG | 13 |
| lee | PERSON | 13 |
| sun | ORG | 13 |
| tpm | PERSON | 13 |
| umi | ORG | 13 |
| ge | ORG | 13 |
| lncrnas | ORG | 13 |
| |logfc| | ORG | 13 |
| quinn | GPE | 12 |
| ad | ORG | 12 |
| biapss | ORG | 12 |
| lin | GPE | 12 |
| linux | PERSON | 12 |
| lu | PERSON | 12 |
| nat biotechnol | PERSON | 12 |
| new york | GPE | 12 |
| qc | ORG | 12 |
| ref | ORG | 12 |
| salts | ORG | 12 |
| stad | ORG | 12 |
| silvaref | ORG | 12 |
| vae | ORG | 12 |
| wgs | GPE | 12 |
| yarza | GPE | 12 |
| zhang et al | PERSON | 12 |
| zheng | PERSON | 12 |
| et al. | PERSON | 12 |
| github | ORG | 11 |
| mst | ORG | 11 |
| msll | ORG | 11 |
| leiden | PERSON | 11 |
| kb | PERSON | 11 |
| j. m. | PERSON | 11 |
| nucleic acids research | ORG | 11 |
| gardeux | PERSON | 11 |
| drimpute | PERSON | 11 |
| ctcf | ORG | 11 |
| cdk | ORG | 11 |
| auprc | ORG | 11 |
| niagads | ORG | 11 |
| mereu | PERSON | 11 |
| springer | PERSON | 11 |
| nrp | ORG | 11 |
| struo | PERSON | 11 |
| pso | ORG | 11 |
| preprint https://doi.org/10.1101/2021.02.12.430739 | PERSON | 11 |
| wu | PERSON | 11 |
| williams | PERSON | 11 |
| zhou | GPE | 11 |
| storey | PERSON | 11 |
| preprint https://doi.org/10.1101/2021.02.12.431018 http://creativecommons.org/licenses/by-nc/4.0/ | PERSON | 11 |
| sra | ORG | 11 |
| rsem | ORG | 11 |
| pachter | GPE | 11 |
| mca | ORG | 10 |
| algorithm 1 | ORG | 10 |
| booeshaghi and pachter | ORG | 10 |
| cm | ORG | 10 |
| egozcue | GPE | 10 |
| genomicsdb | ORG | 10 |
| illumina | GPE | 10 |
| j. r. | PERSON | 10 |
| jaspar | PERSON | 10 |
| a. et al | PERSON | 10 |
| msbb | ORG | 10 |
| ny | GPE | 10 |
| pawlowsky-glahn | PERSON | 10 |
| string | ORG | 10 |
| sec | ORG | 10 |
| seurat | GPE | 10 |
| viper | PERSON | 10 |
| zhao | GPE | 10 |
| n | ORG | 10 |
| faced | ORG | 9 |
| j. d. | PERSON | 9 |
| huang | PERSON | 9 |
| househam | PERSON | 9 |
| a. l. | PERSON | 9 |
| dfgmotif | ORG | 9 |
| dfg-phe | ORG | 9 |
| booeshaghi | PERSON | 9 |
| j. l. | PERSON | 9 |
| j. t. | PERSON | 9 |
| knn | ORG | 9 |
| silvaparc | ORG | 9 |
| mcc | ORG | 9 |
| stan | GPE | 9 |
| slingshot | GPE | 9 |
| vk | GPE | 9 |
| psi | ORG | 9 |
| pdx-294r | ORG | 9 |
| musitedeep | ORG | 9 |
| mle | ORG | 9 |
| france | GPE | 8 |
| kingsford | GPE | 8 |
| kincore | PERSON | 8 |
| jack | PERSON | 8 |
| j.m. | GPE | 8 |
| j. p. | PERSON | 8 |
| italy | GPE | 8 |
| geo | ORG | 8 |
| gc | ORG | 8 |
| m. c. | PERSON | 8 |
| fortin | ORG | 8 |
| ensembl | PERSON | 8 |
| ehrlich | ORG | 8 |
| d. j. | PERSON | 8 |
| bethesda | GPE | 8 |
| amii | ORG | 8 |
| a.m. | GPE | 8 |
| a. m. | PERSON | 8 |
| lr | ORG | 8 |
| xcell | ORG | 8 |
| mis | ORG | 8 |
| skcm | ORG | 8 |
| microsporidia | ORG | 8 |
| max | PERSON | 8 |
| diffutr | ORG | 8 |
| zhu | PERSON | 8 |
| zaim | GPE | 8 |
| xgboost | ORG | 8 |
| stan development team | ORG | 8 |
| silva | GPE | 8 |
| de.prob | ORG | 8 |
| saucie | ORG | 8 |
| rand | ORG | 8 |
| rfc | ORG | 8 |
| r. a. | PERSON | 8 |
| quinn et al. | GPE | 8 |
| pubchem | ORG | 8 |
| multi | GPE | 8 |
| rfam | ORG | 8 |
| j. k. | PERSON | 7 |
| genome res | PERSON | 7 |
| hoffman | PERSON | 7 |
| hu | GPE | 7 |
| insdc | ORG | 7 |
| investigator | ORG | 7 |
| liver | LOC | 7 |
| j.a. | GPE | 7 |
| k. l. | PERSON | 7 |
| klein | GPE | 7 |
| lorenzi | PERSON | 7 |
| louvain | GPE | 7 |
| faq | ORG | 7 |
| fortin et al. | PERSON | 7 |
| arabidopsis | GPE | 7 |
| eddy sr | PERSON | 7 |
| deu | ORG | 7 |
| d. m. | PERSON | 7 |
| chang | PERSON | 7 |
| cancer res | PERSON | 7 |
| cnn | ORG | 7 |
| benjamini | PERSON | 7 |
| b. j. | PERSON | 7 |
| australia | GPE | 7 |
| m.d. | GPE | 7 |
| ann arbor | GPE | 7 |
| alipanahi | ORG | 7 |
| app | ORG | 7 |
| ahi | ORG | 7 |
| m. j. | PERSON | 7 |
| finland | GPE | 7 |
| maccs | ORG | 7 |
| rainbow-mst | PERSON | 7 |
| mcmc | ORG | 7 |
| zheng8 | GPE | 7 |
| zheng et al. | PERSON | 7 |
| wa | ORG | 7 |
| vql | ORG | 7 |
| set6 | PERSON | 7 |
| seattle | GPE | 7 |
| schissler | ORG | 7 |
| scanpy | GPE | 7 |
| sql | ORG | 7 |
| s10 | ORG | 7 |
| robinson | PERSON | 7 |
| rob patro | PERSON | 7 |
| remdesivir | PERSON | 7 |
| tp63 | ORG | 7 |
| rahul satija | PERSON | 7 |
| noise | GPE | 7 |
| martelotto et al | PERSON | 7 |
| morris | GPE | 7 |
| müller | ORG | 7 |
| neuroimage | ORG | 7 |
| nijmegen | ORG | 7 |
| np | ORG | 7 |
| o. | GPE | 7 |
| r. j. | PERSON | 7 |
| pubmed | ORG | 7 |
| qtl | ORG | 7 |
| r. c. | PERSON | 7 |
| proc natl | PERSON | 7 |
| gloor | GPE | 6 |
| hippocampus | PERSON | 6 |
| hcc | ORG | 6 |
| gurobi | PERSON | 6 |
| gbm | GPE | 6 |
| gene | PERSON | 6 |
| gmmmdvae | ORG | 6 |
| frankfurt | GPE | 6 |
| j. d. buenrostro | PERSON | 6 |
| fp | ORG | 6 |
| j. c. | PERSON | 6 |
| lasso | PERSON | 6 |
| j. e. | PERSON | 6 |
| j. j. | PERSON | 6 |
| kb | PERSON | 6 |
| kirchoff | ORG | 6 |
| l1 | GPE | 6 |
| lowcoverage | ORG | 6 |
| li et al. | GPE | 6 |
| ligand | GPE | 6 |
| los angeles | GPE | 6 |
| ev | ORG | 6 |
| fathmm | ORG | 6 |
| blaminus | ORG | 6 |
| ecm | ORG | 6 |
| beckmann | ORG | 6 |
| m.j. | GPE | 6 |
| 7(1 | GPE | 6 |
| a. regev | GPE | 6 |
| ai | GPE | 6 |
| apalyzer | ORG | 6 |
| aisen | GPE | 6 |
| aitchison | PERSON | 6 |
| atorvastatin | PERSON | 6 |
| avi srivastava | PERSON | 6 |
| bd-5 | GPE | 6 |
| cid | ORG | 6 |
| dapars | ORG | 6 |
| chen y | PERSON | 6 |
| cohen | PERSON | 6 |
| condel | ORG | 6 |
| coronaviridae | ORG | 6 |
| cpg | ORG | 6 |
| d. c. | PERSON | 6 |
| d. n. louis | GPE | 6 |
| dec | ORG | 6 |
| doi | ORG | 6 |
| ds | ORG | 6 |
| m. l. suvà | PERSON | 6 |
| mri | ORG | 6 |
| mda | ORG | 6 |
| sci rep | PERSON | 6 |
| simpson | ORG | 6 |
| sleuth | ORG | 6 |
| snpsift | ORG | 6 |
| t.k. | GPE | 6 |
| twosides | ORG | 6 |
| u. | GPE | 6 |
| uniprot | ORG | 6 |
| w | ORG | 6 |
| weiner | GPE | 6 |
| wi | PERSON | 6 |
| wilson | ORG | 6 |
| wolf | PERSON | 6 |
| yb | ORG | 6 |
| mirnas | ORG | 6 |
| preprint https://doi.org/10.1101/2021.02.10.430606 fig | PERSON | 6 |
| sec | ORG | 6 |
| yi | PERSON | 6 |
| ρ̂ | ORG | 6 |
| σ−k | PERSON | 6 |
| ∆̂ | ORG | 6 |
| mnist | GPE | 6 |
| silhouette | ORG | 6 |
| preprint https://doi.org/10.1101/2021.02.10.430623 | PERSON | 6 |
| s11 | ORG | 6 |
| oxtoby | GPE | 6 |
| melbourne | GPE | 6 |
| s.a. | GPE | 6 |
| monte carlo | PERSON | 6 |
| nfic | ORG | 6 |
| nat commun | PERSON | 6 |
| nat rev genet | PERSON | 6 |
| nawrocki ep | PERSON | 6 |
| omim | ORG | 6 |
| ovc | ORG | 6 |
| oxford | GPE | 6 |
| nr1i3 | PERSON | 6 |
| pcr | ORG | 6 |
| r. t. | PERSON | 6 |
| pedersen | GPE | 6 |
| rasmussen | PERSON | 6 |
| rm | ORG | 6 |
| rme | ORG | 6 |
| quinn & erb | ORG | 6 |
| qapa | ORG | 6 |
| phe | ORG | 6 |
| rahman | PERSON | 6 |
| hts | ORG | 5 |
| hansen | GPE | 5 |
| gerard | ORG | 5 |
| hblm | PERSON | 5 |
| hba | ORG | 5 |
| guo | PERSON | 5 |
| gibco | ORG | 5 |
| gibbs | ORG | 5 |
| gui | PERSON | 5 |
| genomics | ORG | 5 |
| garrison | ORG | 5 |
| gse84465 | PERSON | 5 |
| gmvae | ORG | 5 |
| fox | ORG | 5 |
| fyn | ORG | 5 |
| helsinki | GPE | 5 |
| fastq | ORG | 5 |
| healy | GPE | 5 |
| kingma | GPE | 5 |
| hochberg | GPE | 5 |
| hong kong | GPE | 5 |
| f1000research | ORG | 5 |
| lowscore | ORG | 5 |
| liao | GPE | 5 |
| lahens nf | PERSON | 5 |
| lusc | GPE | 5 |
| ll | ORG | 5 |
| l. t. | PERSON | 5 |
| l. m. | PERSON | 5 |
| kennedy | PERSON | 5 |
| kegg | PERSON | 5 |
| justin sybrandt | PERSON | 5 |
| jordan | GPE | 5 |
| j.c. | GPE | 5 |
| j. mol | PERSON | 5 |
| j. d., | PERSON | 5 |
| fair | ORG | 5 |
| bacteria | GPE | 5 |
| f.j. | GPE | 5 |
| adhikari | ORG | 5 |
| beijing | GPE | 5 |
| bateman | PERSON | 5 |
| bmc genomics | ORG | 5 |
| blbtrans | ORG | 5 |
| blbplus | ORG | 5 |
| avgo2 | ORG | 5 |
| akt | PERSON | 5 |
| ajp | ORG | 5 |
| escherichia | PERSON | 5 |
| ad/adrd | ORG | 5 |
| acm | ORG | 5 |
| abc | ORG | 5 |
| a. thaliana | PERSON | 5 |
| a. p. patel | PERSON | 5 |
| a. k. | PERSON | 5 |
| m. f., | PERSON | 5 |
| berlin | GPE | 5 |
| bork | PERSON | 5 |
| boston | GPE | 5 |
| broad institute | ORG | 5 |
| edgar | GPE | 5 |
| ding et al | PERSON | 5 |
| delta | LOC | 5 |
| david | PERSON | 5 |
| dfginter | ORG | 5 |
| dfg-asp | ORG | 5 |
| d.a. | GPE | 5 |
| d. r. | PERSON | 5 |
| d. p. cahill | PERSON | 5 |
| copy-scat | LOC | 5 |
| cheng | PERSON | 5 |
| canada | GPE | 5 |
| calle | GPE | 5 |
| cnvs | ORG | 5 |
| burrows-wheeler | PERSON | 5 |
| luo | PERSON | 5 |
| i. tirosh | PERSON | 5 |
| m. p. | PERSON | 5 |
| tm-score | ORG | 5 |
| united states | GPE | 5 |
| uniprot | ORG | 5 |
| ucsc | ORG | 5 |
| thomas | GPE | 5 |
| theis | GPE | 5 |
| teichmann | GPE | 5 |
| tme | ORG | 5 |
| switzerland | GPE | 5 |
| w. t. curry | PERSON | 5 |
| spain | GPE | 5 |
| smart-seq2 | ORG | 5 |
| shi | PERSON | 5 |
| satija | PERSON | 5 |
| srmse | ORG | 5 |
| snp/indel | ORG | 5 |
| shap | ORG | 5 |
| university of california | ORG | 5 |
| ws | PERSON | 5 |
| s. m. | PERSON | 5 |
| dsyn | ORG | 5 |
| m. stephens | GPE | 5 |
| the sparc curation team | ORG | 5 |
| strand | GPE | 5 |
| ribodbmaker | ORG | 5 |
| polya | PERSON | 5 |
| nbumi | GPE | 5 |
| gngm | PERSON | 5 |
| bin | PERSON | 5 |
| wt | ORG | 5 |
| zheng4 | GPE | 5 |
| zhang z | PERSON | 5 |
| xu | PERSON | 5 |
| xi | PERSON | 5 |
| wolfers | PERSON | 5 |
| wilcoxon | ORG | 5 |
| wan | PERSON | 5 |
| scmarker | ORG | 5 |
| doi:10.1093/bioinformatics/ | ORG | 5 |
| results | ORG | 5 |
| martens-uzunova | PERSON | 5 |
| y | GPE | 5 |
| na | ORG | 5 |
| n. c. | PERSON | 5 |
| m̄1m̄3 | ORG | 5 |
| mukherjee | GPE | 5 |
| milan | GPE | 5 |
| melsted et al | PERSON | 5 |
| markov | ORG | 5 |
| nfix | ORG | 5 |
| mantis | PERSON | 5 |
| myc | ORG | 5 |
| mlp | ORG | 5 |
| mds | ORG | 5 |
| md | ORG | 5 |
| r. l. | PERSON | 5 |
| mapk | PERSON | 5 |
| ncbi sra | ORG | 5 |
| mmse | ORG | 5 |
| natl | ORG | 5 |
| paad | ORG | 5 |
| nature communications | ORG | 5 |
| ptm | ORG | 5 |
| pka | ORG | 5 |
| plasma | GPE | 5 |
| pe | ORG | 5 |
| pam | ORG | 5 |
| pten | ORG | 5 |
| pagerank | ORG | 5 |
| neal | ORG | 5 |
| oi-s | ORG | 5 |
| nielsen | GPE | 5 |
| nguyen | GPE | 5 |
| neuron | ORG | 5 |
| neural information processing systems | ORG | 5 |
| orenstein | PERSON | 5 |
| glay | ORG | 4 |
| goea | ORG | 4 |
| grs | ORG | 4 |
| gelman | PERSON | 4 |
| h. wakimoto | PERSON | 4 |
| hirak sarkar | PERSON | 4 |
| hdac2 | GPE | 4 |
| hmmer | PERSON | 4 |
| hpc | ORG | 4 |
| harris | PERSON | 4 |
| hierarchical | ORG | 4 |
| glm | ORG | 4 |
| hts data | ORG | 4 |
| fli | ORG | 4 |
| g. b. | PERSON | 4 |
| g. a. | PERSON | 4 |
| freggold | ORG | 4 |
| franke | PERSON | 4 |
| flaimapper | ORG | 4 |
| fischl | GPE | 4 |
| fda | ORG | 4 |
| extratrees | ORG | 4 |
| erkki oja | PERSON | 4 |
| electron | ORG | 4 |
| epn | ORG | 4 |
| drug metab dispos | PERSON | 4 |
| ieee | ORG | 4 |
| drosophila | GPE | 4 |
| hungary | GPE | 4 |
| kallisto | ORG | 4 |
| iit madras | ORG | 4 |
| kw | PERSON | 4 |
| dickerson | GPE | 4 |
| m. g. filbin | PERSON | 4 |
| m. d. | GPE | 4 |
| m. a. | PERSON | 4 |
| m m d a e -h | PERSON | 4 |
| lipinski | GPE | 4 |
| linear model | PERSON | 4 |
| li m | GPE | 4 |
| li c | PERSON | 4 |
| lajoie br | PERSON | 4 |
| kunkle bw | PERSON | 4 |
| kumar | GPE | 4 |
| kullback | PERSON | 4 |
| klifs | ORG | 4 |
| ilya safro | ORG | 4 |
| k. et al | PERSON | 4 |
| joshua d welch | PERSON | 4 |
| jingyi jessica li | PERSON | 4 |
| jenster | GPE | 4 |
| javascript | ORG | 4 |
| j.t. | GPE | 4 |
| j.c. brenner | PERSON | 4 |
| j. et al | PERSON | 4 |
| j. h. | PERSON | 4 |
| j. comput | PERSON | 4 |
| irizarry | ORG | 4 |
| iowa state university | ORG | 4 |
| india | GPE | 4 |
| donostia-san sebastian | GPE | 4 |
| brown | GPE | 4 |
| desikan | PERSON | 4 |
| arrayexpress | ORG | 4 |
| c.a. | GPE | 4 |
| c. r. | PERSON | 4 |
| buitelaar | GPE | 4 |
| budapest | GPE | 4 |
| m. et al | PERSON | 4 |
| bonferroni | PERSON | 4 |
| bartlett | PERSON | 4 |
| ba | GPE | 4 |
| bwa-mem | ORG | 4 |
| blbminus | ORG | 4 |
| bau | ORG | 4 |
| b. t. | PERSON | 4 |
| b. m. | PERSON | 4 |
| andersson | PERSON | 4 |
| dekker j | PERSON | 4 |
| alzgene | ORG | 4 |
| alberta | GPE | 4 |
| adam | PERSON | 4 |
| atac | ORG | 4 |
| apoe | ORG | 4 |
| akt | ORG | 4 |
| ac | ORG | 4 |
| abaminus | ORG | 4 |
| a.a | ORG | 4 |
| a., | ORG | 4 |
| a. j. | GPE | 4 |
| % | ORG | 4 |
| # | GPE | 4 |
| c.m. | GPE | 4 |
| ca | GPE | 4 |
| clu | ORG | 4 |
| cosmic | ORG | 4 |
| deepsea | PERSON | 4 |
| davis | GPE | 4 |
| database | PERSON | 4 |
| data curation | ORG | 4 |
| dale | PERSON | 4 |
| drc | ORG | 4 |
| dec ec | ORG | 4 |
| d. et al | PERSON | 4 |
| countvectorizer | ORG | 4 |
| cook | PERSON | 4 |
| computer science, | ORG | 4 |
| computational biology | ORG | 4 |
| coda | ORG | 4 |
| coda | ORG | 4 |
| christoph hafemeister | PERSON | 4 |
| chinese academy of sciences | ORG | 4 |
| cheng j. | PERSON | 4 |
| charlotte soneson | PERSON | 4 |
| chapel hill | ORG | 4 |
| chan | GPE | 4 |
| carpenter | PERSON | 4 |
| caravagna | ORG | 4 |
| cancer cell | PERSON | 4 |
| campbell | ORG | 4 |
| cai | GPE | 4 |
| cv | ORG | 4 |
| crispr | ORG | 4 |
| m. l. | PERSON | 4 |
| crw | ORG | 4 |
| m., | ORG | 4 |
| university of washington | ORG | 4 |
| xie | GPE | 4 |
| xia | PERSON | 4 |
| wood | GPE | 4 |
| wong | PERSON | 4 |
| williams mj | PERSON | 4 |
| wessels | GPE | 4 |
| wang q | PERSON | 4 |
| wang m | PERSON | 4 |
| wtw | ORG | 4 |
| vialonenano | ORG | 4 |
| vellas | ORG | 4 |
| vecscreen | ORG | 4 |
| vcf-miner | ORG | 4 |
| us | GPE | 4 |
| spearman | PERSON | 4 |
| uhses | ORG | 4 |
| uberon | ORG | 4 |
| turner | GPE | 4 |
| transl | GPE | 4 |
| tomtom | ORG | 4 |
| tang | GPE | 4 |
| table 3 | GPE | 4 |
| tm | ORG | 4 |
| tb | GPE | 4 |
| symsim | ORG | 4 |
| sunagawa | GPE | 4 |
| subhalfmin | ORG | 4 |
| statistics | ORG | 4 |
| ye | GPE | 4 |
| yilmaz p | ORG | 4 |
| yu | GPE | 4 |
| yuen et al. | PERSON | 4 |
| m.r. | GPE | 4 |
| √ | ORG | 4 |
| c | PERSON | 4 |
| zi | PERSON | 4 |
| vxa | PERSON | 4 |
| the sparc data structure | ORG | 4 |
| the national institutes of health | ORG | 4 |
| subjects.xlsx | ORG | 4 |
| scvi | ORG | 4 |
| ri | GPE | 4 |
| qÿ ⁄=0 | PERSON | 4 |
| parc s80i | ORG | 4 |
| p(θ|x | GPE | 4 |
| li ps | PERSON | 4 |
| kb | GPE | 4 |
| journal | ORG | 4 |
| https://github.com/shobistassen/via | ORG | 4 |
| https://doi.org/10.1101/2021.02.13.429885 http://creativecommons.org/licenses/by-nc-nd/4.0/ | PERSON | 4 |
| fed | ORG | 4 |
| dev.ortho | ORG | 4 |
| deepmod | PERSON | 4 |
| aars | ORG | 4 |
| zurich | GPE | 4 |
| zhirong yang | PERSON | 4 |
| zhang y | PERSON | 4 |
| zhang j | PERSON | 4 |
| zip | ORG | 4 |
| src | ORG | 4 |
| yang f | PERSON | 4 |
| smyth | GPE | 4 |
| marc h wadsworth | PERSON | 4 |
| n. y: | PERSON | 4 |
| n. p. | PERSON | 4 |
| n. j. | PERSON | 4 |
| m̄1(k −m̄3 | GPE | 4 |
| morton | PERSON | 4 |
| mohsen zakeri | PERSON | 4 |
| mixenrich | ORG | 4 |
| mino2 | ORG | 4 |
| miller | ORG | 4 |
| metagraph | ORG | 4 |
| mereu et al | PERSON | 4 |
| matthews | GPE | 4 |
| marçais | GPE | 4 |
| marburg virus | PERSON | 4 |
| nar genomics | ORG | 4 |
| magne | GPE | 4 |
| macau | GPE | 4 |
| mackay | ORG | 4 |
| mmd | ORG | 4 |
| mja | ORG | 4 |
| mit | ORG | 4 |
| mii | ORG | 4 |
| mgp | ORG | 4 |
| mep | ORG | 4 |
| medline | ORG | 4 |
| magic | ORG | 4 |
| ma | GPE | 4 |
| smoothgrad | ORG | 4 |
| n.j. | GPE | 4 |
| mccarthy | PERSON | 4 |
| nbdriverʼs | ORG | 4 |
| pic | ORG | 4 |
| silverman | PERSON | 4 |
| sift | ORG | 4 |
| seqsim | ORG | 4 |
| sdb | ORG | 4 |
| s.r. | GPE | 4 |
| reviews genetics | PERSON | 4 |
| rmsd | ORG | 4 |
| rf | ORG | 4 |
| results | ORG | 4 |
| r.l. | GPE | 4 |
| r. m. | PERSON | 4 |
| pfizer | ORG | 4 |
| park | GPE | 4 |
| scomb | PERSON | 4 |
| pdgfra | ORG | 4 |
| new england journal of medicine | ORG | 4 |
| parc | ORG | 4 |
| nlm | ORG | 4 |
| nat genet | PERSON | 4 |
| national cancer institute | ORG | 4 |
| national center for biotechnology information | ORG | 4 |
| nelfinavir | PERSON | 4 |
| nucleic acids res | PERSON | 4 |
| o. rozenblatt-rosen | ORG | 4 |
| omeprazole | ORG | 4 |
| p. j. | PERSON | 4 |
| p. m. | PERSON | 4 |
| h. chen | PERSON | 3 |
| health research institute | ORG | 3 |
| htseq | ORG | 3 |
| hkh | ORG | 3 |
| heidelberg | GPE | 3 |
| h. et al | PERSON | 3 |
| grant gr | PERSON | 3 |
| guestrin | GPE | 3 |
| guan y | PERSON | 3 |
| gu | GPE | 3 |
| grün | GPE | 3 |
| hicks | GPE | 3 |
| gordon | PERSON | 3 |
| hickey | GPE | 3 |
| hwang | ORG | 3 |
| hinxton | GPE | 3 |
| honig et al. | GPE | 3 |
| howard y chang | PERSON | 3 |
| huri | GPE | 3 |
| hughes | ORG | 3 |
| huidong chen | PERSON | 3 |
| insr | ORG | 3 |
| isan | ORG | 3 |
| imakaev m | ORG | 3 |
| ingrid | GPE | 3 |
| insel | GPE | 3 |
| intel | ORG | 3 |
| international conference on research | ORG | 3 |
| gloor et al. | GPE | 3 |
| gonzalez | GPE | 3 |
| entrez | ORG | 3 |
| gloor & reid | ORG | 3 |
| glioblastoma | ORG | 3 |
| j+ | ORG | 3 |
| england | GPE | 3 |
| environ microbiol | PERSON | 3 |
| eukarya | GPE | 3 |
| f. m. | PERSON | 3 |
| fc | ORG | 3 |
| febs lett | ORG | 3 |
| fiji | ORG | 3 |
| fang | GPE | 3 |
| features | ORG | 3 |
| fig | GPE | 3 |
| freesurfer | ORG | 3 |
| fripp | GPE | 3 |
| frisoni | PERSON | 3 |
| g | ORG | 3 |
| g. getz | PERSON | 3 |
| g.p. | GPE | 3 |
| g.s. | GPE | 3 |
| gapdh | ORG | 3 |
| gce | ORG | 3 |
| gg | PERSON | 3 |
| go-bp | ORG | 3 |
| gonet | ORG | 3 |
| genome res. | PERSON | 3 |
| genome research | ORG | 3 |
| gerard et al. | PERSON | 3 |
| gi | PERSON | 3 |
| gillespie | GPE | 3 |
| giulio | PERSON | 3 |
| islam | ORG | 3 |
| m. w. | PERSON | 3 |
| j. m., & alexander | ORG | 3 |
| l. p. | PERSON | 3 |
| lambert j-c | PERSON | 3 |
| laraib malik | PERSON | 3 |
| le | GPE | 3 |
| learning | GPE | 3 |
| leek | GPE | 3 |
| leung | GPE | 3 |
| levenshtein | GPE | 3 |
| li h | PERSON | 3 |
| li y | PERSON | 3 |
| liang | GPE | 3 |
| linderman | PERSON | 3 |
| lior pachter | GPE | 3 |
| liu j | PERSON | 3 |
| loaiza-ganem | PERSON | 3 |
| lopez | PERSON | 3 |
| ludwig w | PERSON | 3 |
| luecken | GPE | 3 |
| m. h. | PERSON | 3 |
| m. i. | PERSON | 3 |
| m. l. shaw | PERSON | 3 |
| m. m. | PERSON | 3 |
| m. monje | GPE | 3 |
| m. p. frosch | PERSON | 3 |
| m. r. | PERSON | 3 |
| m. r. stratton | PERSON | 3 |
| m. s. | PERSON | 3 |
| eizenga | GPE | 3 |
| m. w., | PERSON | 3 |
| m.f. | GPE | 3 |
| lca | ORG | 3 |
| l. j. | PERSON | 3 |
| j. med | PERSON | 3 |
| l. a. | PERSON | 3 |
| j. q. | PERSON | 3 |
| j., liu | PERSON | 3 |
| j.-b. | GPE | 3 |
| j.g. | GPE | 3 |
| j.k. | GPE | 3 |
| jz | ORG | 3 |
| jack et al. | PERSON | 3 |
| jagust | GPE | 3 |
| jang | GPE | 3 |
| japan | GPE | 3 |
| jensen | GPE | 3 |
| jia | GPE | 3 |
| jia et al | PERSON | 3 |
| jian x | PERSON | 3 |
| jiang | GPE | 3 |
| john c marioni | PERSON | 3 |
| johnson et al. | PERSON | 3 |
| jones | GPE | 3 |
| journal of computational biology | ORG | 3 |
| k. m. | PERSON | 3 |
| k.s. | GPE | 3 |
| karnataka | GPE | 3 |
| karsch-mizrachi | PERSON | 3 |
| kauffmann | ORG | 3 |
| kaufman | GPE | 3 |
| kelley et al. | PERSON | 3 |
| kelly | GPE | 3 |
| kessler et al. | GPE | 3 |
| kong | GPE | 3 |
| PERSON | 3 | |
| bracken | PERSON | 3 |
| egozcue & pawlowsky-glahn | ORG | 3 |
| bis jc | GPE | 3 |
| ames ia | ORG | 3 |
| amodio et al. | PERSON | 3 |
| andrew butler | PERSON | 3 |
| angerer | GPE | 3 |
| anthony a hyman | PERSON | 3 |
| ao li | PERSON | 3 |
| appendix | GPE | 3 |
| artificial intelligence and lecture notes | ORG | 3 |
| austria | GPE | 3 |
| b. e. bernstein | PERSON | 3 |
| b. t., | PERSON | 3 |
| b. v. nahed | PERSON | 3 |
| b. wu | PERSON | 3 |
| b., | ORG | 3 |
| bbaminus | ORG | 3 |
| bibm | ORG | 3 |
| blast | ORG | 3 |
| bmc syst | ORG | 3 |
| bangalore | GPE | 3 |
| bayes | GPE | 3 |
| belgrader | GPE | 3 |
| benjamini-hochberg | PERSON | 3 |
| bent | PERSON | 3 |
| berger | GPE | 3 |
| berlin institute of health | ORG | 3 |
| bethlehem | ORG | 3 |
| biochim | ORG | 3 |
| biomedicine | PERSON | 3 |
| biophys | ORG | 3 |
| algorithm 2 | ORG | 3 |
| albert | PERSON | 3 |
| agartz | GPE | 3 |
| a.p. | GPE | 3 |
| mag | ORG | 3 |
| -10 | ORG | 3 |
| 1/u(c | ORG | 3 |
| 3d | ORG | 3 |
| a. c. | PERSON | 3 |
| a. d., | PERSON | 3 |
| a. f. ( | PERSON | 3 |
| a. j. iafrate | PERSON | 3 |
| a. j., | PERSON | 3 |
| a. p. | PERSON | 3 |
| a.a. | GPE | 3 |
| a.c. | GPE | 3 |
| a.g. | GPE | 3 |
| a.r. | GPE | 3 |
| adams | PERSON | 3 |
| aac | ORG | 3 |
| aas | ORG | 3 |
| ab | ORG | 3 |
| abcb11 | GPE | 3 |
| abi | ORG | 3 |
| adsp | ORG | 3 |
| agatha-c | ORG | 3 |
| al | GPE | 3 |
| ann | ORG | 3 |
| ap | ORG | 3 |
| aaron tl lun | PERSON | 3 |
| accuracy | ORG | 3 |
| acov | PERSON | 3 |
| birol | PERSON | 3 |
| bloom | GPE | 3 |
| efthymia papalexi | PERSON | 3 |
| bocchini ca | GPE | 3 |
| d.g. | GPE | 3 |
| d.j. | GPE | 3 |
| d.l. | GPE | 3 |
| dnase | ORG | 3 |
| drp | ORG | 3 |
| david c. wedge | PERSON | 3 |
| davis ca | GPE | 3 |
| deepphos | ORG | 3 |
| deepsea4 | ORG | 3 |
| dictyostelium | GPE | 3 |
| disease map | PERSON | 3 |
| dongyuan song | PERSON | 3 |
| dr. begiristain | PERSON | 3 |
| drugbank | ORG | 3 |
| du | ORG | 3 |
| durbin | GPE | 3 |
| e. a. | PERSON | 3 |
| e. j. | PERSON | 3 |
| e. t. | PERSON | 3 |
| e.j. | GPE | 3 |
| e.s. | GPE | 3 |
| e9.5-e10.5 | GPE | 3 |
| elynx | ORG | 3 |
| ena | ORG | 3 |
| encode | ORG | 3 |
| eth zurich | PERSON | 3 |
| etv1 | ORG | 3 |
| eddy | PERSON | 3 |
| eds | ORG | 3 |
| d. p. | PERSON | 3 |
| d. l. | PERSON | 3 |
| d. gerard | PERSON | 3 |
| cxadr | ORG | 3 |
| bosutinib | GPE | 3 |
| bowtie 2 | ORG | 3 |
| brassicaceae | PERSON | 3 |
| bray nl | ORG | 3 |
| brunk bp | PERSON | 3 |
| c. l. | PERSON | 3 |
| c. neftel | PERSON | 3 |
| c.c. | GPE | 3 |
| c.h. | GPE | 3 |
| c.k. | GPE | 3 |
| cfp | ORG | 3 |
| crt | ORG | 3 |
| cs | GPE | 3 |
| candra+ | ORG | 3 |
| cytoscape | GPE | 3 |
| cancer classification and biomarker identification | ORG | 3 |
| cancer data science laboratory | ORG | 3 |
| cancer genome atlas | PERSON | 3 |
| carl kingsford | PERSON | 3 |
| cham | GPE | 3 |
| ci | PERSON | 3 |
| clin pharmacol ther | PERSON | 3 |
| college park | LOC | 3 |
| comm | ORG | 3 |
| crovesy et al. | PERSON | 3 |
| crowley | ORG | 3 |
| cunningham | ORG | 3 |
| curr drug metab | ORG | 3 |
| maf | ORG | 3 |
| nfi | ORG | 3 |
| mda-mb231 | ORG | 3 |
| tarazona | GPE | 3 |
| terry | GPE | 3 |
| thompson | ORG | 3 |
| thomson | GPE | 3 |
| tim stuart | PERSON | 3 |
| tran | ORG | 3 |
| transcript | ORG | 3 |
| trapnell c | ORG | 3 |
| troyanskaya og | ORG | 3 |
| u | GPE | 3 |
| uhrr | ORG | 3 |
| united states of america | GPE | 3 |
| university of maryland | ORG | 3 |
| v. l. | PERSON | 3 |
| v.a. | GPE | 3 |
| v.m. | GPE | 3 |
| vep | ORG | 3 |
| van loo | PERSON | 3 |
| van der waals | PERSON | 3 |
| vanderbilt university | ORG | 3 |
| varscan 2 | ORG | 3 |
| varoquaux n | ORG | 3 |
| vert jp | ORG | 3 |
| vienna | GPE | 3 |
| virusseq | ORG | 3 |
| w. j. | PERSON | 3 |
| w. j. greenleaf | PERSON | 3 |
| w.w. | GPE | 3 |
| wgbs | PERSON | 3 |
| walline hm | ORG | 3 |
| tenaillon | GPE | 3 |
| tao | GPE | 3 |
| salvado | ORG | 3 |
| tangherloni et al | PERSON | 3 |
| sarkar et al | PERSON | 3 |
| schmidt | PERSON | 3 |
| schwarz | GPE | 3 |
| sci transl med | PERSON | 3 |
| scott af | PERSON | 3 |
| sequenza | ORG | 3 |
| set7 | PERSON | 3 |
| sharma | GPE | 3 |
| shaw | PERSON | 3 |
| signac | GPE | 3 |
| silvamicrosporidia | ORG | 3 |
| single cell portal | ORG | 3 |
| smibert | PERSON | 3 |
| smith | PERSON | 3 |
| song | PERSON | 3 |
| sperling | GPE | 3 |
| stewart | PERSON | 3 |
| struo2 | PERSON | 3 |
| stuart | ORG | 3 |
| supplementary fig | PERSON | 3 |
| supplementary materials | ORG | 3 |
| svensson | PERSON | 3 |
| szklarczyk | GPE | 3 |
| t.m. | GPE | 3 |
| trn | ORG | 3 |
| trrust | ORG | 3 |
| tyr | ORG | 3 |
| table 1 | GPE | 3 |
| table 2 | GPE | 3 |
| wang j | PERSON | 3 |
| wang et al | PERSON | 3 |
| warren | PERSON | 3 |
| washburne | GPE | 3 |
| et al | PERSON | 3 |
| glioma | GPE | 3 |
| hg38 | GPE | 3 |
| keras | GPE | 3 |
| kinase | PERSON | 3 |
| min | PERSON | 3 |
| neuron | ORG | 3 |
| nmi | ORG | 3 |
| optima | PERSON | 3 |
| pos | ORG | 3 |
| preprint https://doi.org/10.1101/2021.02.01.429246 http://creativecommons.org/licenses/by/4.0/ | PERSON | 3 |
| preprint https://doi.org/10.1101/2021.02.09.430460 | PERSON | 3 |
| resp | ORG | 3 |
| ssnp/totalsnp | ORG | 3 |
| sdrnas | GPE | 3 |
| short communications | ORG | 3 |
| the american statistical association | ORG | 3 |
| the brain imaging data structure | ORG | 3 |
| the netherlands radboud university medical centre | ORG | 3 |
| the us national institutes of health | ORG | 3 |
| the united states | GPE | 3 |
| t̂ | ORG | 3 |
| van rooij et al | PERSON | 3 |
| β | PERSON | 3 |
| θ0 | GPE | 3 |
| (b | ORG | 3 |
| − � | PERSON | 3 |
| � | GPE | 3 |
| modeller | ORG | 3 |
| dysplasia | GPE | 3 |
| d0549e0351c4875428b153c7804f21eed7fa82eb | LOC | 3 |
| chromatin | PERSON | 3 |
| yij | PERSON | 3 |
| wei | PERSON | 3 |
| wei vivian li | PERSON | 3 |
| wellcome trust genome campus | ORG | 3 |
| wheeler | GPE | 3 |
| williams ba | PERSON | 3 |
| woese cr | ORG | 3 |
| writing - review & editing | ORG | 3 |
| wuhan | GPE | 3 |
| x. zhu | PERSON | 3 |
| xue | GPE | 3 |
| y | GPE | 3 |
| y. et al | PERSON | 3 |
| yaoqi zhou | PERSON | 3 |
| yosef | GPE | 3 |
| bl % | ORG | 3 |
| young | GPE | 3 |
| youth mental health | ORG | 3 |
| yuhan hao | PERSON | 3 |
| z. et al | PERSON | 3 |
| z.w. | GPE | 3 |
| zinb | ORG | 3 |
| zakeri et al | PERSON | 3 |
| zhang et al. | PERSON | 3 |
| zi | PERSON | 3 |
| zib | ORG | 3 |
| ziraldo | GPE | 3 |
| zou d | PERSON | 3 |
| app | ORG | 3 |
| santai | ORG | 3 |
| doi:10.1093/bioinformatics | ORG | 3 |
| saliency map | PERSON | 3 |
| perelman school of medicine, university of pennsylvania, philadelphia | ORG | 3 |
| nat comm | PERSON | 3 |
| nat protoc | PERSON | 3 |
| national institutes of health | ORG | 3 |
| netherlands | GPE | 3 |
| ng | ORG | 3 |
| nicholas mcgranahan | PERSON | 3 |
| noble ws | PERSON | 3 |
| noguchi | GPE | 3 |
| novak | ORG | 3 |
| o. et al | PERSON | 3 |
| ohe | ORG | 3 |
| olvedy | GPE | 3 |
| organize data automatically | ORG | 3 |
| oshlack | GPE | 3 |
| ourselin | ORG | 3 |
| p. a., | PERSON | 3 |
| p. et al | PERSON | 3 |
| p.1 | ORG | 3 |
| pd | ORG | 3 |
| phate | ORG | 3 |
| piler-cr | PERSON | 3 |
| plg | ORG | 3 |
| ptprj | ORG | 3 |
| pac symp | PERSON | 3 |
| papalexi | GPE | 3 |
| patel | GPE | 3 |
| pathol | PERSON | 3 |
| paul hoffman | PERSON | 3 |
| pellow | PERSON | 3 |
| npj | ORG | 3 |
| nm | ORG | 3 |
| ncbi genbank | ORG | 3 |
| max | PERSON | 3 |
| ms | ORG | 3 |
| suvr | ORG | 3 |
| msa | ORG | 3 |
| ma | GPE | 3 |
| macklaim | GPE | 3 |
| madden tl | PERSON | 3 |
| manhattan | GPE | 3 |
| mann | PERSON | 3 |
| manuel holtgrewe | PERSON | 3 |
| mao et al | PERSON | 3 |
| marioni | GPE | 3 |
| marlon stoeckius | PERSON | 3 |
| mathew | ORG | 3 |
| mcgranahan | ORG | 3 |
| nc 27599 | GPE | 3 |
| mcinnes | ORG | 3 |
| mende | GPE | 3 |
| millard | GPE | 3 |
| mobile | GPE | 3 |
| monocle3 | GPE | 3 |
| montavon | GPE | 3 |
| mortazavi et al | PERSON | 3 |
| morton et al. | GPE | 3 |
| mouse | ORG | 3 |
| multi-brwt | PERSON | 3 |
| mutationtaster | ORG | 3 |
| n. engl | PERSON | 3 |
| n.s. | GPE | 3 |
| pennec | ORG | 3 |
| michael i love | PERSON | 3 |
| perl | ORG | 3 |
| random forests | ORG | 3 |
| rattus | ORG | 3 |
| refseq (fungi | ORG | 3 |
| regier | ORG | 3 |
| rheinbay et al | PERSON | 3 |
| richardson | PERSON | 3 |
| robertson | PERSON | 3 |
| rohit v pappu | PERSON | 3 |
| roseburia | GPE | 3 |
| roskoski | PERSON | 3 |
| ryvkin | PERSON | 3 |
| s. c. | GPE | 3 |
| s. d., | PERSON | 3 |
| s. g. | PERSON | 3 |
| s. henikoff | PERSON | 3 |
| s. i. | PERSON | 3 |
| s. j. | PERSON | 3 |
| s. l. | PERSON | 3 |
| s. m. gillespie | PERSON | 3 |
| s.b. | GPE | 3 |
| s.c. | GPE | 3 |
| s.m. | GPE | 3 |
| select chr | PERSON | 3 |
| selex | ORG | 3 |
| sg | GPE | 3 |
| sn | ORG | 3 |
| sparc data structure | ORG | 3 |
| peter smibert | PERSON | 3 |
| star | ORG | 3 |
| src | ORG | 3 |
| random minimizers | ORG | 3 |
| s. zhou | PERSON | 3 |
| porto | PERSON | 3 |
| r. b. | PERSON | 3 |
| phillippy | GPE | 3 |
| peter van loo | PERSON | 3 |
| phillips | ORG | 3 |
| picard | GPE | 3 |
| pimentel h | ORG | 3 |
| plumb et al. | PERSON | 3 |
| pytorch | ORG | 3 |
| python3 | GPE | 3 |
| qin | PERSON | 3 |
| qiu | PERSON | 3 |
| quade | PERSON | 3 |
| quast c | GPE | 3 |
| quazi | ORG | 3 |
| r. a., | PERSON | 3 |
| philadelphia | GPE | 3 |
| radboud university | ORG | 3 |
| read | ORG | 3 |
| random forest | ORG | 3 |
| ramachandran | PERSON | 3 |
| rosmap | ORG | 3 |
| rfsp | ORG | 3 |
| ref/alt | ORG | 3 |
| ram | ORG | 3 |
| raman | PERSON | 3 |
| r.j. | GPE | 3 |
| r. satija | PERSON | 3 |
| r. p., | PERSON | 3 |
| r. l. martuza | PERSON | 3 |
| hartemink | ORG | 2 |
| hashimshony | GPE | 2 |
| harvard | ORG | 2 |
| harun mustafa | PERSON | 2 |
| hirota | ORG | 2 |
| harold d | PERSON | 2 |
| hardy-weinberg | ORG | 2 |
| head neck | PERSON | 2 |
| haraszti, public health image library | ORG | 2 |
| har- mony | ORG | 2 |
| hazen p babcock | PERSON | 2 |
| heo | PERSON | 2 |
| heard e | PERSON | 2 |
| heldin | PERSON | 2 |
| heng li | PERSON | 2 |
| henley | GPE | 2 |
| herlyn | GPE | 2 |
| hermjakob | ORG | 2 |
| highsmith m | ORG | 2 |
| hilbert spaces | ORG | 2 |
| hao, y. | GPE | 2 |
| hinton | GPE | 2 |
| h. a., | PERSON | 2 |
| hbrr | ORG | 2 |
| hanna | GPE | 2 |
| hanlee p ji | ORG | 2 |
| h. j. | PERSON | 2 |
| hogenesch jb | PERSON | 2 |
| h. k. | PERSON | 2 |
| h. li | PERSON | 2 |
| h. y. chang | PERSON | 2 |
| h.m. | GPE | 2 |
| h.t.n. | GPE | 2 |
| h1 | PERSON | 2 |
| h1 es | ORG | 2 |
| hbd =3 | ORG | 2 |
| h. c. | PERSON | 2 |
| hmmphc | ORG | 2 |
| hpv+ | GPE | 2 |
| hsa | ORG | 2 |
| hafemeister | GPE | 2 |
| haider | PERSON | 2 |
| haider et al | PERSON | 2 |
| halil kilicoglu | PERSON | 2 |
| hamburg | GPE | 2 |
| hamilton-nelson kl | PERSON | 2 |
| hamosh a. omim.org: | PERSON | 2 |
| hofmann | ORG | 2 |
| ibarra-laclette | ORG | 2 |
| holms family-wise error rate | PERSON | 2 |
| insel et al. | PERSON | 2 |
| incf | ORG | 2 |
| ios press | ORG | 2 |
| ilie | GPE | 2 |
| illinois | GPE | 2 |
| ilya korsunsky | PERSON | 2 |
| immunoscore | PERSON | 2 |
| inaccuracy | ORG | 2 |
| infernal | ORG | 2 |
| inner mongolia | ORG | 2 |
| ins1 | ORG | 2 |
| introduction cancer | ORG | 2 |
| hong kong science park | GPE | 2 |
| invitrogen | ORG | 2 |
| irizarry ra | PERSON | 2 |
| isabelle m guyon | PERSON | 2 |
| itay tirosh | PERSON | 2 |
| ithaca | GPE | 2 |
| itkin | ORG | 2 |
| iz beltagy | PERSON | 2 |
| gupta | GPE | 2 |
| j theor biol | PERSON | 2 |
| j. alzheimers dis. | PERSON | 2 |
| il-6 | ORG | 2 |
| il | GPE | 2 |
| igf1r | GPE | 2 |
| idh | ORG | 2 |
| hoogstrate | PERSON | 2 |
| hoque | GPE | 2 |
| houston | GPE | 2 |
| hron | PERSON | 2 |
| hu z | PERSON | 2 |
| huang x | PERSON | 2 |
| huanqing feng | PERSON | 2 |
| huber w | ORG | 2 |
| huerta-cepas | ORG | 2 |
| human genetics | ORG | 2 |
| hunter | GPE | 2 |
| huntley mh | PERSON | 2 |
| hydin | PERSON | 2 |
| hydrogen | ORG | 2 |
| hyman | PERSON | 2 |
| hyun min kang | PERSON | 2 |
| i. j. | PERSON | 2 |
| i. r. | PERSON | 2 |
| i. t. | PERSON | 2 |
| i.s | GPE | 2 |
| icgc | ORG | 2 |
| h sebastian seung | PERSON | 2 |
| g. p., | PERSON | 2 |
| guo-cheng yuan | PERSON | 2 |
| g. l. | PERSON | 2 |
| franzosa | GPE | 2 |
| friedländer | GPE | 2 |
| friedman | ORG | 2 |
| frith et al. | PERSON | 2 |
| fu | GPE | 2 |
| fudenberg g | PERSON | 2 |
| fujita | PERSON | 2 |
| g m m m d -h | ORG | 2 |
| g. b., | PERSON | 2 |
| g. c. yuan | PERSON | 2 |
| g. lo bosco | PERSON | 2 |
| gq | ORG | 2 |
| g. et al | PERSON | 2 |
| g.a. | GPE | 2 |
| g.k. | GPE | 2 |
| g.l. | GPE | 2 |
| gatk | ORG | 2 |
| genie | ORG | 2 |
| ghz | ORG | 2 |
| gi2 | ORG | 2 |
| giant | ORG | 2 |
| gmp | ORG | 2 |
| franck picard | PERSON | 2 |
| francesco pepe | GPE | 2 |
| fox ge | ORG | 2 |
| fowlkes mallows | PERSON | 2 |
| fastq | LOC | 2 |
| j. clin | PERSON | 2 |
| fatemeh almodaresi | PERSON | 2 |
| fatima | PERSON | 2 |
| favero | GPE | 2 |
| felix boschann | PERSON | 2 |
| feng | PERSON | 2 |
| fennell t | PERSON | 2 |
| ferguson | GPE | 2 |
| ferguson et al. | PERSON | 2 |
| fernandes | ORG | 2 |
| figs | ORG | 2 |
| figures s16-s18 | PERSON | 2 |
| filzmoser | ORG | 2 |
| findable | PERSON | 2 |
| fiona cunningham | ORG | 2 |
| fischer-zirnsak | PERSON | 2 |
| fong | PERSON | 2 |
| fonteijn | ORG | 2 |
| forslund | GPE | 2 |
| fortunato ciardiello | GPE | 2 |
| gpl-3 | PERSON | 2 |
| gsdb | ORG | 2 |
| guiping wang | PERSON | 2 |
| gong | GPE | 2 |
| gertheiss | ORG | 2 |
| ghislain durif | PERSON | 2 |
| giancarlo troncone | PERSON | 2 |
| ginhoux | GPE | 2 |
| goate | PERSON | 2 |
| godzik | GPE | 2 |
| goff | GPE | 2 |
| goh, m. | ORG | 2 |
| goloborodko a | PERSON | 2 |
| gonçalo r. abecasis | PERSON | 2 |
| goodfellow | ORG | 2 |
| gtc | ORG | 2 |
| goodwin | PERSON | 2 |
| graph | GPE | 2 |
| greengenes | ORG | 2 |
| grenoble alpes | PERSON | 2 |
| griggs | PERSON | 2 |
| gronenschild | PERSON | 2 |
| grossman | PERSON | 2 |
| group5 | PERSON | 2 |
| grønbech | ORG | 2 |
| guillem | GPE | 2 |
| gerken j | PERSON | 2 |
| georges hennen | PERSON | 2 |
| george murphy | PERSON | 2 |
| george michailidis | PERSON | 2 |
| gzmk | ORG | 2 |
| gabdank | ORG | 2 |
| gad getz | PERSON | 2 |
| gao | PERSON | 2 |
| gareth a wilson | PERSON | 2 |
| gareth a. wilson | PERSON | 2 |
| garg | ORG | 2 |
| gelman, a. | ORG | 2 |
| genouest | ORG | 2 |
| gene ontology | PERSON | 2 |
| gene ontology biological processes | ORG | 2 |
| gene ontology enrichment analysis | ORG | 2 |
| gene set | PERSON | 2 |
| genet. | PERSON | 2 |
| genetics 52 | PERSON | 2 |
| gennert | GPE | 2 |
| genome med | PERSON | 2 |
| genome sciences | ORG | 2 |
| genome-wide association study (gwas | ORG | 2 |
| genomes | PERSON | 2 |
| genomics proteomics bioinformatics | ORG | 2 |
| j. biomed | PERSON | 2 |
| l. d., | PERSON | 2 |
| j. g. | PERSON | 2 |
| lan jiang | PERSON | 2 |
| l. f. v. ferrão | PERSON | 2 |
| l. mayr | PERSON | 2 |
| l. pinello | PERSON | 2 |
| l.l. | GPE | 2 |
| l.m. | GPE | 2 |
| l3 | GPE | 2 |
| lhh | ORG | 2 |
| llc | ORG | 2 |
| loh | ORG | 2 |
| lai | PERSON | 2 |
| lan t nguyen | PERSON | 2 |
| layernorm | ORG | 2 |
| lana garmire | PERSON | 2 |
| lancet neurol | ORG | 2 |
| lander es | ORG | 2 |
| lang | GPE | 2 |
| lara segebrecht | PERSON | 2 |
| larsen n | PERSON | 2 |
| laskowski | GPE | 2 |
| laurent modolo | GPE | 2 |
| law | PERSON | 2 |
| law cw | PERSON | 2 |
| fang wang | PERSON | 2 |
| l. albergante | PERSON | 2 |
| l. a., | PERSON | 2 |
| l(d|µ,t | PERSON | 2 |
| kevin wei | PERSON | 2 |
| khiste | PERSON | 2 |
| kim et al. | PERSON | 2 |
| kinametrix | ORG | 2 |
| king | GPE | 2 |
| kirubakaran | GPE | 2 |
| knight | ORG | 2 |
| ko | GPE | 2 |
| kociumaka | PERSON | 2 |
| kojima | PERSON | 2 |
| kok hao chen | PERSON | 2 |
| koren | GPE | 2 |
| kowarik | GPE | 2 |
| kraken 2 | ORG | 2 |
| kruskal | GPE | 2 |
| kuldip paliwal | PERSON | 2 |
| kultima | GPE | 2 |
| kurakin | ORG | 2 |
| kwok | GPE | 2 |
| kyle lo | PERSON | 2 |
| köster | GPE | 2 |
| lawrence m shuer | PERSON | 2 |
| lecun | GPE | 2 |
| kenneth d birnbaum | PERSON | 2 |
| luyi tian | ORG | 2 |
| lo | PERSON | 2 |
| log | PERSON | 2 |
| logp | GPE | 2 |
| logistic regression | ORG | 2 |
| loman | ORG | 2 |
| london | GPE | 2 |
| love | GPE | 2 |
| luca pinello | PERSON | 2 |
| lun | GPE | 2 |
| lundberg & lee | ORG | 2 |
| lv | GPE | 2 |
| lee jh | PERSON | 2 |
| lv et al. | GPE | 2 |
| lyu | GPE | 2 |
| m m d -b | PERSON | 2 |
| m m d -h | PERSON | 2 |
| m wang | PERSON | 2 |
| m. b. | PERSON | 2 |
| m. d. et al | PERSON | 2 |
| m. d., | PERSON | 2 |
| m. e. | PERSON | 2 |
| m. e. shore | PERSON | 2 |
| lj | PERSON | 2 |
| liò | PERSON | 2 |
| liu-seifert | PERSON | 2 |
| liu et al. | PERSON | 2 |
| lees, j.a. | ORG | 2 |
| lehmann | GPE | 2 |
| leo breiman | PERSON | 2 |
| leon | PERSON | 2 |
| lerer | GPE | 2 |
| lett | PERSON | 2 |
| letunic | GPE | 2 |
| lev(ka | GPE | 2 |
| levenez | GPE | 2 |
| levine | PERSON | 2 |
| levothyroxine | PERSON | 2 |
| li g | PERSON | 2 |
| li h-d | PERSON | 2 |
| li s | GPE | 2 |
| li z | PERSON | 2 |
| linear | ORG | 2 |
| linlin m chen | PERSON | 2 |
| lippitz | PERSON | 2 |
| liu s | PERSON | 2 |
| liu yang | PERSON | 2 |
| liu et al | PERSON | 2 |
| kent | GPE | 2 |
| ken chen | PERSON | 2 |
| j. gojo | PERSON | 2 |
| jeffrey r moffitt | PERSON | 2 |
| jamie l marshall | PERSON | 2 |
| jamnik | GPE | 2 |
| jansen | PERSON | 2 |
| jason d lieb | PERSON | 2 |
| java | ORG | 2 |
| jayathilaka n | PERSON | 2 |
| jean fan | PERSON | 2 |
| jean-philippe brunet | PERSON | 2 |
| jedynak | ORG | 2 |
| jeff e mold | PERSON | 2 |
| jennifer hyoje ryu | PERSON | 2 |
| john wiley & sons | ORG | 2 |
| jeong-mo choi | PERSON | 2 |
| jericho | GPE | 2 |
| ji | GPE | 2 |
| jia p | PERSON | 2 |
| jiarui ding | PERSON | 2 |
| jie jiang | PERSON | 2 |
| jill p mesirov | PERSON | 2 |
| jin | ORG | 2 |
| jinwen yang | PERSON | 2 |
| john f davis | PERSON | 2 |
| james nemesh | PERSON | 2 |
| jamal-hanjani | PERSON | 2 |
| jalview | ORG | 2 |
| jaffe | GPE | 2 |
| j. guan | PERSON | 2 |
| j. j. trombetta | PERSON | 2 |
| j. n. | PERSON | 2 |
| j. o. | PERSON | 2 |
| j. p., | PERSON | 2 |
| j. stat. | PERSON | 2 |
| j. x. | PERSON | 2 |
| j. y. hsu | PERSON | 2 |
| j. y., khondaker | PERSON | 2 |
| j., zhang | PERSON | 2 |
| j.-c. | GPE | 2 |
| j.l.l | GPE | 2 |
| j.n. | GPE | 2 |
| j.y. | GPE | 2 |
| jak | ORG | 2 |
| jama | ORG | 2 |
| jun | ORG | 2 |
| jack & holtzman | ORG | 2 |
| jack hanson | PERSON | 2 |
| jacob j chabon | PERSON | 2 |
| jacob k asiedu | PERSON | 2 |
| john j trombetta | PERSON | 2 |
| jolma | PERSON | 2 |
| kempa | PERSON | 2 |
| kamil slowikowski | PERSON | 2 |
| k12 | PERSON | 2 |
| kcm lee | PERSON | 2 |
| kdd | ORG | 2 |
| kdr | ORG | 2 |
| keywords | PERSON | 2 |
| kl | GPE | 2 |
| kras | ORG | 2 |
| kaite zhang | PERSON | 2 |
| kalhor r | PERSON | 2 |
| kalvari | PERSON | 2 |
| kang | GPE | 2 |
| jonassen | PERSON | 2 |
| karaayvaz | ORG | 2 |
| karasikov | PERSON | 2 |
| karczewski kj | PERSON | 2 |
| karp | PERSON | 2 |
| karsten bach | PERSON | 2 |
| karthik shekhar | PERSON | 2 |
| katz | GPE | 2 |
| kaufmann | GPE | 2 |
| kelley | PERSON | 2 |
| kelvin | PERSON | 2 |
| k.t. | GPE | 2 |
| k.r. | GPE | 2 |
| k.j. | GPE | 2 |
| k. yizhak | PERSON | 2 |
| jose alquicira-hernandez | PERSON | 2 |
| jose ameijeiras-alonso | PERSON | 2 |
| joseph e powell | PERSON | 2 |
| joseph nasser | PERSON | 2 |
| joshua gould | PERSON | 2 |
| journal of antimicrobial | ORG | 2 |
| journal of combinatorial theory | ORG | 2 |
| journal of machine learning research | ORG | 2 |
| journal of neuroscience | ORG | 2 |
| journal of the royal statistical society | ORG | 2 |
| julie d forman-kay | PERSON | 2 |
| jun | PERSON | 2 |
| jun et al | PERSON | 2 |
| junjie hao | PERSON | 2 |
| jupyter notebooks | ORG | 2 |
| j− | ORG | 2 |
| k. a. | PERSON | 2 |
| k. b. | PERSON | 2 |
| k. l. ligon | PERSON | 2 |
| k. pelton | PERSON | 2 |
| k. r. | PERSON | 2 |
| faridani | GPE | 2 |
| commun | ORG | 2 |
| fan zhang | PERSON | 2 |
| bausch | PERSON | 2 |
| baggerly | GPE | 2 |
| baihui | ORG | 2 |
| baird | ORG | 2 |
| baker | PERSON | 2 |
| ballouz | PERSON | 2 |
| ban | PERSON | 2 |
| baran | GPE | 2 |
| barplots of silhouette | ORG | 2 |
| basel | ORG | 2 |
| bauer | GPE | 2 |
| beatrice gini | PERSON | 2 |
| berg s | PERSON | 2 |
| becht | GPE | 2 |
| beckett | PERSON | 2 |
| belda | GPE | 2 |
| ben | PERSON | 2 |
| ben a barres | PERSON | 2 |
| benes | GPE | 2 |
| bengio | ORG | 2 |
| benjamin izar | PERSON | 2 |
| benjamin r doughty | PERSON | 2 |
| benzinger | GPE | 2 |
| bacteria and archaea | ORG | 2 |
| bwa | ORG | 2 |
| bsep/abcb11 | ORG | 2 |
| br | GPE | 2 |
| aubrey l faust | PERSON | 2 |
| austin | GPE | 2 |
| australia the university of melbourne | ORG | 2 |
| authors | ORG | 2 |
| autoimpute | ORG | 2 |
| ayache | ORG | 2 |
| b de borman | PERSON | 2 |
| b. c., | PERSON | 2 |
| b. j. raphael | PERSON | 2 |
| b. p. | PERSON | 2 |
| b. r. | PERSON | 2 |
| babtrans | ORG | 2 |
| bce | ORG | 2 |
| bedtools | ORG | 2 |
| beers | ORG | 2 |
| ber | ORG | 2 |
| bids | ORG | 2 |
| bio | ORG | 2 |
| blastn | ORG | 2 |
| blaplus | ORG | 2 |
| bmc bioinform | ORG | 2 |
| berendonk | ORG | 2 |
| bergamo | GPE | 2 |
| c. c. | PERSON | 2 |
| brister jr | PERSON | 2 |
| br j pharmacol | PERSON | 2 |
| bradley | ORG | 2 |
| brain communications | ORG | 2 |
| bravo | GPE | 2 |
| brazil | GPE | 2 |
| brazma a | PERSON | 2 |
| brest | GPE | 2 |
| brian j clark | PERSON | 2 |
| bridget k wagner | PERSON | 2 |
| brigham | GPE | 2 |
| brookes | PERSON | 2 |
| berghout | GPE | 2 |
| bryson | GPE | 2 |
| buckner | ORG | 2 |
| buenrostro | PERSON | 2 |
| bult cj | PERSON | 2 |
| burmeister m | ORG | 2 |
| burnham | ORG | 2 |
| busa | PERSON | 2 |
| bush ws | PERSON | 2 |
| butler | GPE | 2 |
| c(avg | GPE | 2 |
| bothstrands | ORG | 2 |
| boser | GPE | 2 |
| bootstrap | ORG | 2 |
| bojkova | ORG | 2 |
| bernard coumans | PERSON | 2 |
| bernard lakaye | PERSON | 2 |
| bernhard | PERSON | 2 |
| bilgel | GPE | 2 |
| bing ren | PERSON | 2 |
| biogrid | ORG | 2 |
| biorxiv | ORG | 2 |
| biosample | ORG | 2 |
| biochimica | GPE | 2 |
| biogen | ORG | 2 |
| biophysica acta | PERSON | 2 |
| biopython | PERSON | 2 |
| biostatistics and bioimaging centre | ORG | 2 |
| biotech | ORG | 2 |
| biowulf | LOC | 2 |
| blackburn | ORG | 2 |
| blacker | PERSON | 2 |
| blake | GPE | 2 |
| blennow | GPE | 2 |
| boada | GPE | 2 |
| bobrowski | PERSON | 2 |
| association for computational linguistics | ORG | 2 |
| asif hossain | PERSON | 2 |
| ashley ferreira | PERSON | 2 |
| a.s. | GPE | 2 |
| a. n. schep | PERSON | 2 |
| a. r. | PERSON | 2 |
| a. r., | PERSON | 2 |
| a. s. venteicher | PERSON | 2 |
| a. schlessinger | PERSON | 2 |
| a. sina booeshaghi | ORG | 2 |
| a. zinovyev | PERSON | 2 |
| a., hall, m., | ORG | 2 |
| a.e.b-d. | GPE | 2 |
| a.j. | GPE | 2 |
| a.v. | GPE | 2 |
| asaf rotem | PERSON | 2 |
| aaa | ORG | 2 |
| aab | ORG | 2 |
| aabb | ORG | 2 |
| aacr | ORG | 2 |
| abide | ORG | 2 |
| adgc | ORG | 2 |
| ag | ORG | 2 |
| agatha | ORG | 2 |
| agatha-gp | ORG | 2 |
| agatha-o | ORG | 2 |
| a. n. gorban | PERSON | 2 |
| a. m., maguire | PERSON | 2 |
| a. m. ( | PERSON | 2 |
| a. k. shalek | PERSON | 2 |
| m. g. | PERSON | 2 |
| & aisen | ORG | 2 |
| & greenleaf | ORG | 2 |
| & gustafsson | ORG | 2 |
| & li | PERSON | 2 |
| & liu | PERSON | 2 |
| 0.0001 | GPE | 2 |
| 0.7 | GPE | 2 |
| 10117 berlin | GPE | 2 |
| 104 | ORG | 2 |
| 1–17 | PERSON | 2 |
| 2(1 | PERSON | 2 |
| 2(1 − | PERSON | 2 |
| 32(1):1–8, | GPE | 2 |
| 3dmax | ORG | 2 |
| 7(1):33 | PERSON | 2 |
| 9(9 | GPE | 2 |
| a particle swarm optimization algorithm for chromosome and genome 3d | ORG | 2 |
| a. d. | PERSON | 2 |
| a. d. n. | PERSON | 2 |
| a. eckley | PERSON | 2 |
| amalgam | PERSON | 2 |
| arb | ORG | 2 |
| av | GPE | 2 |
| amazon | ORG | 2 |
| amino acids | ORG | 2 |
| amlie-wolf | PERSON | 2 |
| anders | GPE | 2 |
| andersen | GPE | 2 |
| anderson | PERSON | 2 |
| andre | PERSON | 2 |
| andreas müller | PERSON | 2 |
| andreassen | GPE | 2 |
| andrew a tubelli | PERSON | 2 |
| ang | GPE | 2 |
| angelini et al | PERSON | 2 |
| angelo | PERSON | 2 |
| anindita basu | ORG | 2 |
| antiga | GPE | 2 |
| anuja sathe | PERSON | 2 |
| aravind subramanian | PERSON | 2 |
| archaea | PERSON | 2 |
| arizona | GPE | 2 |
| array express | ORG | 2 |
| articles screened | PERSON | 2 |
| aryee | GPE | 2 |
| amedeo vetere | PERSON | 2 |
| amar ghodasara | PERSON | 2 |
| abecasis gr | PERSON | 2 |
| alzheimer’s & dementia | ORG | 2 |
| acad sci usa | PERSON | 2 |
| adrian tan | PERSON | 2 |
| aele | PERSON | 2 |
| ahmed igout | PERSON | 2 |
| ai | PERSON | 2 |
| akaike | ORG | 2 |
| akanni | ORG | 2 |
| al-absi | PERSON | 2 |
| alber f | PERSON | 2 |
| alberto rodrı́guez-casal | PERSON | 2 |
| alex s holehouse | PERSON | 2 |
| alexander van oudenaarden | PERSON | 2 |
| alexej knaus | PERSON | 2 |
| algorithm s3 | ORG | 2 |
| algorithms | PERSON | 2 |
| allison r bialas | ORG | 2 |
| allon m klein | PERSON | 2 |
| alnæs | GPE | 2 |
| alpha | ORG | 2 |
| altschul | GPE | 2 |
| alzbase | ORG | 2 |
| c. a. lareau | PERSON | 2 |
| c. c. luo | PERSON | 2 |
| fan | PERSON | 2 |
| dewey cn | PERSON | 2 |
| delacourte | GPE | 2 |
| demšar | PERSON | 2 |
| denamur | PERSON | 2 |
| dentro | PERSON | 2 |
| department of computer science | ORG | 2 |
| department of genetics | ORG | 2 |
| department of human and social sciences | ORG | 2 |
| department of pediatrics | ORG | 2 |
| department of virology | ORG | 2 |
| desmaison | GPE | 2 |
| dhavala ss | ORG | 2 |
| dutertre | ORG | 2 |
| diagnosis | PERSON | 2 |
| dieter beule | PERSON | 2 |
| differential utr | ORG | 2 |
| distild | ORG | 2 |
| docm | PERSON | 2 |
| dominik seelow | PERSON | 2 |
| donati | GPE | 2 |
| dong l | PERSON | 2 |
| donohue | PERSON | 2 |
| dresden | GPE | 2 |
| deitlein et al | PERSON | 2 |
| deep learning | ORG | 2 |
| devito | GPE | 2 |
| deblasio | ORG | 2 |
| deseq | ORG | 2 |
| dfgin-blaminus | ORG | 2 |
| dicom | ORG | 2 |
| dnn | ORG | 2 |
| dope | ORG | 2 |
| dwe | ORG | 2 |
| da silva | PERSON | 2 |
| dai | PERSON | 2 |
| daly | GPE | 2 |
| dan w harmer | PERSON | 2 |
| danecek | GPE | 2 |
| daniel d lee | PERSON | 2 |
| daniel j. | PERSON | 2 |
| daniel s. weld | PERSON | 2 |
| daniel treacy | PERSON | 2 |
| daniele ramazzotti | PERSON | 2 |
| danio | GPE | 2 |
| dannenfelser et al | PERSON | 2 |
| david d peck | PERSON | 2 |
| david t jones | PERSON | 2 |
| davies | GPE | 2 |
| dumas | PERSON | 2 |
| e. g. | PERSON | 2 |
| c. e. | PERSON | 2 |
| experimental | ORG | 2 |
| erez y levanon | PERSON | 2 |
| erika martinelli | PERSON | 2 |
| ernst heinen | PERSON | 2 |
| eswar | PERSON | 2 |
| evan z macosko | PERSON | 2 |
| evans | PERSON | 2 |
| evanston il | PERSON | 2 |
| exon count | PERSON | 2 |
| exon sequence | PERSON | 2 |
| exp | ORG | 2 |
| external | ORG | 2 |
| e. p., | PERSON | 2 |
| extra trees | PERSON | 2 |
| f. vandin | PERSON | 2 |
| f.a. | GPE | 2 |
| fdg | ORG | 2 |
| fdg-pet | ORG | 2 |
| fe | ORG | 2 |
| fms | GPE | 2 |
| fn | ORG | 2 |
| fabian j theis | PERSON | 2 |
| fabre | ORG | 2 |
| enzyme | GPE | 2 |
| ensembl assembly(20 | PERSON | 2 |
| ensembl transcript | PERSON | 2 |
| ensembl gene id | PERSON | 2 |
| e. r. | PERSON | 2 |
| e., | ORG | 2 |
| e., mcinnes | ORG | 2 |
| e.a. | GPE | 2 |
| ebseq-v1.30.0 | ORG | 2 |
| ec | ORG | 2 |
| ecs | ORG | 2 |
| efs | GPE | 2 |
| ensembl | ORG | 2 |
| eth | ORG | 2 |
| eu | ORG | 2 |
| efremova | PERSON | 2 |
| egan et al. | PERSON | 2 |
| eij | PERSON | 2 |
| elena vigliar | GPE | 2 |
| eli eisenberg | PERSON | 2 |
| elliott | PERSON | 2 |
| ellis | GPE | 2 |
| emacro | ORG | 2 |
| emicro | ORG | 2 |
| emily m martersteck | PERSON | 2 |
| ddbn | ORG | 2 |
| db | ORG | 2 |
| d.p. | GPE | 2 |
| carrillo | ORG | 2 |
| caco2 | ORG | 2 |
| cambridge university press | ORG | 2 |
| camden | GPE | 2 |
| cameron | PERSON | 2 |
| cancer lett | PERSON | 2 |
| cancer mutation census | ORG | 2 |
| carey | PERSON | 2 |
| carly martin | PERSON | 2 |
| carminia maria della corte | PERSON | 2 |
| caroline e mccoach | PERSON | 2 |
| carroll | ORG | 2 |
| d.l.g., b.a. | ORG | 2 |
| cash | PERSON | 2 |
| cell biol | PERSON | 2 |
| cell dev | PERSON | 2 |
| cellrank | ORG | 2 |
| cells | ORG | 2 |
| centers for disease control and prevention | ORG | 2 |
| cerebral cortex | ORG | 2 |
| chembl | ORG | 2 |
| chia-pet | ORG | 2 |
| champaign | GPE | 2 |
| cui | ORG | 2 |
| css | ORG | 2 |
| csf | ORG | 2 |
| csc | ORG | 2 |
| c. f. ( | PERSON | 2 |
| c. f., hoogman | PERSON | 2 |
| c. hebert | PERSON | 2 |
| c. mount | PERSON | 2 |
| c. rodman | PERSON | 2 |
| c. sander | PERSON | 2 |
| c. t. | PERSON | 2 |
| c. w., | PERSON | 2 |
| c. et al | PERSON | 2 |
| cdc | ORG | 2 |
| cel-seq2 | ORG | 2 |
| cftr | PERSON | 2 |
| cgy4275 | ORG | 2 |
| cgy4349 | PERSON | 2 |
| chasm | ORG | 2 |
| cihr | ORG | 2 |
| cmc | LOC | 2 |
| cncb-ngdc | ORG | 2 |
| cnv+ | ORG | 2 |
| codacore | ORG | 2 |
| condel | ORG | 2 |
| chanan | GPE | 2 |
| chao gao | PERSON | 2 |
| charles p fulco | PERSON | 2 |
| compositional data | ORG | 2 |
| computer science | ORG | 2 |
| computer science, northwestern university | ORG | 2 |
| conesa a | PERSON | 2 |
| conrad | PERSON | 2 |
| consortium | GPE | 2 |
| cooper | GPE | 2 |
| cornell university | ORG | 2 |
| crohn | PERSON | 2 |
| crumplin | GPE | 2 |
| cummings | ORG | 2 |
| cynthia c hession | ORG | 2 |
| cytoskeleton | GPE | 2 |
| d-hest institute for neurosciences | ORG | 2 |
| d. a. | GPE | 2 |
| d. b. | PERSON | 2 |
| d. dionne | PERSON | 2 |
| d. h. | PERSON | 2 |
| d. m. langenau | PERSON | 2 |
| d. n. cooper | PERSON | 2 |
| d. s. | PERSON | 2 |
| d.c. | GPE | 2 |
| computational biology and systems biomedicine group | ORG | 2 |
| composite score | PERSON | 2 |
| charles vanderburg | PERSON | 2 |
| combat combat | ORG | 2 |
| chaudhuri | GPE | 2 |
| chen m | PERSON | 2 |
| chen s | PERSON | 2 |
| chen et al | PERSON | 2 |
| chenxu zhu | PERSON | 2 |
| chevrier | GPE | 2 |
| chintala | GPE | 2 |
| chkhaidze k | PERSON | 2 |
| choi | PERSON | 2 |
| chopra | PERSON | 2 |
| christian krendl | PERSON | 2 |
| christine caneda | ORG | 2 |
| christine lian | PERSON | 2 |
| christopher rodman | PERSON | 2 |
| chu | GPE | 2 |
| cinatl | PERSON | 2 |
| clifford p brangwynne | PERSON | 2 |
| coelho | ORG | 2 |
| cold spring harb | PERSON | 2 |
| color oracle | PERSON | 2 |
| columbia university | ORG | 2 |
| m. e., kuperstein | PERSON | 2 |
| biomedical informatics | ORG | 2 |
| m. j. aryee | PERSON | 2 |
| turner d | PERSON | 2 |
| transcriptional | PERSON | 2 |
| trapnell | GPE | 2 |
| travers ching | PERSON | 2 |
| travis k hughes | PERSON | 2 |
| trojanowski | GPE | 2 |
| trosko | PERSON | 2 |
| trust-medical research council | ORG | 2 |
| tryptophan | ORG | 2 |
| tsinghua university | ORG | 2 |
| turnbull | ORG | 2 |
| tyler burks | ORG | 2 |
| umberto malapelle | PERSON | 2 |
| type ii | PERSON | 2 |
| type iii | PERSON | 2 |
| u m a | ORG | 2 |
| uclust | ORG | 2 |
| ucsd | ORG | 2 |
| uk department of haematology, university of cambridge cb2 | ORG | 2 |
| uchida | GPE | 2 |
| ueland | GPE | 2 |
| uitdewilligen et al | ORG | 2 |
| ulbricht | GPE | 2 |
| transcript length | ORG | 2 |
| tools | GPE | 2 |
| tomancak p | ORG | 2 |
| tolosana-delgado | ORG | 2 |
| terminal | ORG | 2 |
| text | LOC | 2 |
| the annals of statistics | ORG | 2 |
| the qt company | ORG | 2 |
| the university of hong kong | ORG | 2 |
| the university of north carolina | ORG | 2 |
| thierry grisar | PERSON | 2 |
| thomas bk watkins | ORG | 2 |
| thomas litfin | PERSON | 2 |
| thomas pd | PERSON | 2 |
| thompson et al. | ORG | 2 |
| thomsen | GPE | 2 |
| thomson ja | ORG | 2 |
| tian | PERSON | 2 |
| tian d | PERSON | 2 |
| tianyi sun | PERSON | 2 |
| timshel | GPE | 2 |
| tirosh | ORG | 2 |
| tjong h | PERSON | 2 |
| todd r golub | PERSON | 2 |
| tokyo | GPE | 2 |
| ulitsky | ORG | 2 |
| unacceptablemodel | ORG | 2 |
| technische universität dresden | ORG | 2 |
| vol | PERSON | 2 |
| vert | ORG | 2 |
| victor r olivas | PERSON | 2 |
| vidya subramanian | PERSON | 2 |
| vieira-silva | PERSON | 2 |
| ville mustonen | PERSON | 2 |
| villemagne | PERSON | 2 |
| vincenza ciaramella | PERSON | 2 |
| vitro | PERSON | 2 |
| vladimir n uversky | PERSON | 2 |
| vogel | PERSON | 2 |
| vording | GPE | 2 |
| ung | ORG | 2 |
| w. a. fuller | PERSON | 2 |
| w. k., | PERSON | 2 |
| w.e. | PERSON | 2 |
| w.m. | GPE | 2 |
| wes | ORG | 2 |
| wi | ORG | 2 |
| wpca | ORG | 2 |
| ws,(m | GPE | 2 |
| wz | ORG | 2 |
| wafergen | ORG | 2 |
| vento-tormo | ORG | 2 |
| velina kozareva | PERSON | 2 |
| vaswani | ORG | 2 |
| varscan | ORG | 2 |
| university of calgary | ORG | 2 |
| university of helsinki | ORG | 2 |
| university of michigan | ORG | 2 |
| university of minnesota | ORG | 2 |
| university of pennsylvania | ORG | 2 |
| university of south alabama | ORG | 2 |
| ute scholl | PERSON | 2 |
| uwe kornak | PERSON | 2 |
| v. b. | GPE | 2 |
| v. d. | PERSON | 2 |
| v. hovestadt | PERSON | 2 |
| v.t | GPE | 2 |
| vasc | PERSON | 2 |
| vi | GPE | 2 |
| vm | ORG | 2 |
| vp35 marv | ORG | 2 |
| valentina belli | ORG | 2 |
| van keymeulen | PERSON | 2 |
| van den berge | PERSON | 2 |
| van den boogaart | PERSON | 2 |
| vanderbilt place | PERSON | 2 |
| ted e natoli | PERSON | 2 |
| technische universität dresden | PERSON | 2 |
| shams | ORG | 2 |
| stacked de-noising | PERSON | 2 |
| soneson and delorenzi | GPE | 2 |
| sophie lambert-lacroix | ORG | 2 |
| soumya raychaudhuri | PERSON | 2 |
| south africa | GPE | 2 |
| sprague-dawley rrid | ORG | 2 |
| spring harbor perspectives | ORG | 2 |
| springer international publishing | ORG | 2 |
| spyros darmanis | PERSON | 2 |
| srinivasan | PERSON | 2 |
| sssi | ORG | 2 |
| stefan mundlos | PERSON | 2 |
| stoeckius | GPE | 2 |
| steffen sass | PERSON | 2 |
| stein | GPE | 2 |
| stem cell institute | ORG | 2 |
| stephen r quake | ORG | 2 |
| stern | ORG | 2 |
| steve best | PERSON | 2 |
| steven a sloan | PERSON | 2 |
| steven m corsello | PERSON | 2 |
| steven n. hart | PERSON | 2 |
| steven potter | PERSON | 2 |
| soneson | ORG | 2 |
| softw | ORG | 2 |
| snps | PERSON | 2 |
| snpeff | ORG | 2 |
| shaposhnikov | PERSON | 2 |
| shatin | PERSON | 2 |
| shekhar | ORG | 2 |
| sherman m weissman | PERSON | 2 |
| shinn | GPE | 2 |
| shinohara | ORG | 2 |
| shrikumar | GPE | 2 |
| shuqin zhang | PERSON | 2 |
| signal | ORG | 2 |
| signif | ORG | 2 |
| simcha | GPE | 2 |
| simeonov | ORG | 2 |
| simidjievski | ORG | 2 |
| simon alberti | PERSON | 2 |
| simon anders | PERSON | 2 |
| simonyan | ORG | 2 |
| sivera | PERSON | 2 |
| sloan ca | GPE | 2 |
| smilkov | PERSON | 2 |
| smyth gk | PERSON | 2 |
| snoek | GPE | 2 |
| stevens | PERSON | 2 |
| stoiber | PERSON | 2 |
| teboul | GPE | 2 |
| tn | ORG | 2 |
| t., melle | ORG | 2 |
| t.d. | GPE | 2 |
| t.h. | GPE | 2 |
| t.u. | GPE | 2 |
| tf-idf vectorizer | ORG | 2 |
| tgfbr1 | GPE | 2 |
| thrb | ORG | 2 |
| ti | GPE | 2 |
| tla | ORG | 2 |
| tmm | ORG | 2 |
| table 10 | GPE | 2 |
| stormo | ORG | 2 |
| table s5 | GPE | 2 |
| tachi | GPE | 2 |
| tallulah s andrews | PERSON | 2 |
| tanja mittag | PERSON | 2 |
| tapsi kumar | PERSON | 2 |
| target | GPE | 2 |
| tariot | ORG | 2 |
| tatzberg | PERSON | 2 |
| tau-pet | LOC | 2 |
| taxonomy | ORG | 2 |
| t., butler, a. | ORG | 2 |
| t. pratense and | ORG | 2 |
| t. et al | PERSON | 2 |
| t. r. golub | PERSON | 2 |
| su s | GPE | 2 |
| sudeep banjade | ORG | 2 |
| sundell | ORG | 2 |
| sunitinib | PERSON | 2 |
| supplemental information file 3 | ORG | 2 |
| supplementary table s4 | PERSON | 2 |
| support vector machine | ORG | 2 |
| susin et al | PERSON | 2 |
| swanson et al | PERSON | 2 |
| swarm | ORG | 2 |
| swee lay thein | PERSON | 2 |
| szegedy | PERSON | 2 |
| sønderby | GPE | 2 |
| t satpathy | PERSON | 2 |
| t. & teramachi | ORG | 2 |
| t. d., | ORG | 2 |
| t. l. | PERSON | 2 |
| t. l. s., fagan | PERSON | 2 |
| t. p. and erb | ORG | 2 |
| t. p., erb | ORG | 2 |
| t. r. | PERSON | 2 |
| wagner | GPE | 2 |
| wang s | PERSON | 2 |
| wanwen zeng | PERSON | 2 |
| the conference on advances | ORG | 2 |
| preprint https://doi.org/10.1101/2021.02.12.430923 http://creativecommons.org/licenses/by/4.0/ • | PERSON | 2 |
| probability pmut(µ,l | ORG | 2 |
| p− | LOC | 2 |
| rna | ORG | 2 |
| ssnp/totalsnp ratio | ORG | 2 |
| scrnas | GPE | 2 |
| science | ORG | 2 |
| silico | GPE | 2 |
| the broad institute | ORG | 2 |
| the cancer gene census | ORG | 2 |
| the data curation team | ORG | 2 |
| the supplementary information | GPE | 2 |
| the hugo gene nomenclature committee | ORG | 2 |
| the isb-cgc | ORG | 2 |
| the main text | LOC | 2 |
| the mouse genome project | ORG | 2 |
| the national center for biotechnology information | ORG | 2 |
| the national institute on aging | ORG | 2 |
| the national key r&d program of china | ORG | 2 |
| the national natural science foundation of china | ORG | 2 |
| the protein data bank | ORG | 2 |
| the sparc data repository | ORG | 2 |
| preprint https://doi.org/10.1101/2021.02.12.430923 http://creativecommons.org/licenses/by/4.0/ | PERSON | 2 |
| preprint https://doi.org/10.1101/2021.02.09.430550 http://creativecommons.org/licenses/by-nc-nd/4.0/ | PERSON | 2 |
| preprint https://doi.org/10.1101/2020.09.23.308239 http://creativecommons.org/licenses/by-nc-nd/4.0/ | PERSON | 2 |
| pangolin | GPE | 2 |
| https://doi.org/10.1186/s13059-019-1854-5 | ORG | 2 |
| https://osf.io/b5296/ | ORG | 2 |
| https://paperpile.com/c/kjin71/tscr0 | ORG | 2 |
| identifier | ORG | 2 |
| k(x | GPE | 2 |
| k)−minimizer | PERSON | 2 |
| linear | ORG | 2 |
| lo f m ed ic | PERSON | 2 |
| lptf q197 | PERSON | 2 |
| m(x | GPE | 2 |
| mbio | ORG | 2 |
| metadata | GPE | 2 |
| metaplasia | GPE | 2 |
| microprotein transcripts | PERSON | 2 |
| min w∈rp×k≥0 | PERSON | 2 |
| min δ ‖δ‖1 | PERSON | 2 |
| mkdata.py | ORG | 2 |
| ml | PERSON | 2 |
| molecules | ORG | 2 |
| mrna molecules | PERSON | 2 |
| n (% | ORG | 2 |
| the sparc portal | ORG | 2 |
| the supplementary material | ORG | 2 |
| wasserstein | PERSON | 2 |
| | ORG | 2 |
| (a | ORG | 2 |
| (c | ORG | 2 |
| [38] | ORG | 2 |
| − 1 | PERSON | 2 |
| − s)w | PERSON | 2 |
| −1 σ11 s11 | PERSON | 2 |
| −m̄23 | PERSON | 2 |
| √ −m̄23 | ORG | 2 |
| ≥ 𝑤 | PERSON | 2 |
| ◊ | PERSON | 2 |
| | ORG | 2 |
| the trans-omics | ORG | 2 |
| 𝐿𝐵 | ORG | 2 |
| 𝑃(𝐶𝑙 | ORG | 2 |
| 𝑆2 | GPE | 2 |
| 𝑆3 | GPE | 2 |
| 𝑈𝐵 | ORG | 2 |
| 𝑚𝑎𝑥 𝑔∈𝐶 𝑥(𝑔 | PERSON | 2 |
| 𝑢𝑏 | PERSON | 2 |
| 𝒌[𝒙(6 | GPE | 2 |
| 𝒙 | ORG | 2 |
| m. j., | GPE | 2 |
| β ∼n(0 | PERSON | 2 |
| β min | PERSON | 2 |
| Λβg | ORG | 2 |
| Λg−1 | PERSON | 2 |
| the united states of america | GPE | 2 |
| the university of michigan advanced genomics core | ORG | 2 |
| the university of southern california | ORG | 2 |
| the kingdom of fungi | GPE | 2 |
| the national academy of sciences | ORG | 2 |
| tim | PERSON | 2 |
| toolbox(35 | PERSON | 2 |
| ty f | PERSON | 2 |
| u(c | ORG | 2 |
| un | ORG | 2 |