Eindopdracht DAUR2
04/05/2021
1 Vraag 1: Finding Nemo
1.1 A3: Filters
Voor de biomart functie getBM heb je attributes en filters nodig die associëren met een bepaalde ensembl dataset. Voor de dataset “hsapiens_gene_ensembl” zijn er in totaal 448 filters. Schrijf een functie om een filter van dataset hsapiens_gene_ensembl te zoeken met een regex zoekterm. Bijvoorbeeld je wilt de dataset filteren voor bepaalde gen varianten en wilt opzoeken welke filters daarvoor aanwezig zijn je_functie(“variant”) geeft dan als output de geassocieerde filters:
- germ_line_variation_sou… limit to genes with germline variant data s…
- somatic_variation_source limit to genes with somatic variant sources
- with_validated_snp Variant supporting evidence
Test je functie met de zoekterm “nemo”. Welke filters zijn aanwezig?
h_sapiens <- useMart(biomart = "ensembl", dataset="hsapiens_gene_ensembl")
findFilter <- function(pattern){
searchFilters(h_sapiens, pattern)
}
findFilter("nemo")## name description
## 253 with_aocellaris_homolog Orthologous Clown anemonefish Genesfilters <- listFilters(h_sapiens)
filters## name
## 1 chromosome_name
## 2 start
## 3 end
## 4 band_start
## 5 band_end
## 6 marker_start
## 7 marker_end
## 8 encode_region
## 9 strand
## 10 chromosomal_region
## 11 with_biogrid
## 12 with_ccds
## 13 with_chembl
## 14 with_dbass3
## 15 with_dbass5
## 16 with_ens_hs_transcript
## 17 with_ens_hs_translation
## 18 with_entrezgene_trans_name
## 19 with_embl
## 20 with_arrayexpress
## 21 with_genedb
## 22 with_go
## 23 with_goslim_goa
## 24 with_hgnc
## 25 with_hpa
## 26 with_protein_id
## 27 with_kegg_enzyme
## 28 with_ens_lrg_gene
## 29 with_ens_lrg_transcript
## 30 with_merops
## 31 with_mim_gene
## 32 with_mim_morbid
## 33 with_mirbase
## 34 with_mirbase_trans_name
## 35 with_entrezgene
## 36 with_pdb
## 37 with_reactome
## 38 with_reactome_gene
## 39 with_reactome_transcript
## 40 with_refseq_mrna
## 41 with_refseq_mrna_predicted
## 42 with_refseq_ncrna
## 43 with_refseq_ncrna_predicted
## 44 with_refseq_peptide
## 45 with_refseq_peptide_predicted
## 46 with_rfam
## 47 with_rfam_trans_name
## 48 with_rnacentral
## 49 with_hgnc_trans_name
## 50 with_ucsc
## 51 with_uniparc
## 52 with_uniprot_gn
## 53 with_uniprot_isoform
## 54 with_uniprotswissprot
## 55 with_uniprotsptrembl
## 56 with_wikigene
## 57 ensembl_gene_id
## 58 ensembl_gene_id_version
## 59 ensembl_transcript_id
## 60 ensembl_transcript_id_version
## 61 ensembl_peptide_id
## 62 ensembl_peptide_id_version
## 63 ensembl_exon_id
## 64 external_gene_name
## 65 external_transcript_name
## 66 external_synonym
## 67 biogrid
## 68 ccds
## 69 chembl
## 70 dbass3_name
## 71 dbass3_id
## 72 dbass5_name
## 73 dbass5_id
## 74 ens_hs_transcript
## 75 ens_hs_translation
## 76 entrezgene_trans_name
## 77 embl
## 78 arrayexpress
## 79 genedb
## 80 go
## 81 goslim_goa
## 82 hgnc_id
## 83 hgnc_symbol
## 84 hpa_accession
## 85 hpa_id
## 86 protein_id
## 87 kegg_enzyme
## 88 ens_lrg_gene
## 89 ens_lrg_transcript
## 90 merops
## 91 mim_gene_accession
## 92 mim_morbid_accession
## 93 mirbase_accession
## 94 mirbase_id
## 95 mirbase_trans_name
## 96 entrezgene_accession
## 97 entrezgene_id
## 98 pdb
## 99 reactome
## 100 reactome_gene
## 101 reactome_transcript
## 102 refseq_mrna
## 103 refseq_mrna_predicted
## 104 refseq_ncrna
## 105 refseq_ncrna_predicted
## 106 refseq_peptide
## 107 refseq_peptide_predicted
## 108 rfam
## 109 rfam_trans_name
## 110 rnacentral
## 111 hgnc_trans_name
## 112 ucsc
## 113 uniparc
## 114 uniprot_gn_symbol
## 115 uniprot_gn_id
## 116 uniprot_isoform
## 117 uniprotswissprot
## 118 uniprotsptrembl
## 119 wikigene_name
## 120 wikigene_id
## 121 with_affy_hc_g110
## 122 with_affy_hg_focus
## 123 with_affy_hg_u133a
## 124 with_affy_hg_u133a_2
## 125 with_affy_hg_u133b
## 126 with_affy_hg_u133_plus_2
## 127 with_affy_hg_u95a
## 128 with_affy_hg_u95av2
## 129 with_affy_hg_u95b
## 130 with_affy_hg_u95c
## 131 with_affy_hg_u95d
## 132 with_affy_hg_u95e
## 133 with_affy_hta_2_0
## 134 with_affy_huex_1_0_st_v2
## 135 with_affy_hugenefl
## 136 with_affy_hugene_1_0_st_v1
## 137 with_affy_hugene_2_0_st_v1
## 138 with_affy_primeview
## 139 with_affy_u133_x3p
## 140 with_agilent_cgh_44b
## 141 with_agilent_gpl26966
## 142 with_agilent_gpl6848
## 143 with_agilent_sureprint_g3_ge_8x60k
## 144 with_agilent_sureprint_g3_ge_8x60k_v2
## 145 with_agilent_wholegenome
## 146 with_agilent_wholegenome_4x44k_v1
## 147 with_agilent_wholegenome_4x44k_v2
## 148 with_codelink_codelink
## 149 with_illumina_humanht_12_v3
## 150 with_illumina_humanht_12_v4
## 151 with_illumina_humanref_8_v3
## 152 with_illumina_humanwg_6_v1
## 153 with_illumina_humanwg_6_v2
## 154 with_illumina_humanwg_6_v3
## 155 with_phalanx_onearray
## 156 affy_hc_g110
## 157 affy_hg_focus
## 158 affy_hg_u133a
## 159 affy_hg_u133a_2
## 160 affy_hg_u133b
## 161 affy_hg_u133_plus_2
## 162 affy_hg_u95a
## 163 affy_hg_u95av2
## 164 affy_hg_u95b
## 165 affy_hg_u95c
## 166 affy_hg_u95d
## 167 affy_hg_u95e
## 168 affy_hta_2_0
## 169 affy_huex_1_0_st_v2
## 170 affy_hugenefl
## 171 affy_hugene_1_0_st_v1
## 172 affy_hugene_2_0_st_v1
## 173 affy_primeview
## 174 affy_u133_x3p
## 175 agilent_cgh_44b
## 176 agilent_gpl26966
## 177 agilent_gpl6848
## 178 agilent_sureprint_g3_ge_8x60k
## 179 agilent_sureprint_g3_ge_8x60k_v2
## 180 agilent_wholegenome
## 181 agilent_wholegenome_4x44k_v1
## 182 agilent_wholegenome_4x44k_v2
## 183 codelink_codelink
## 184 illumina_humanht_12_v3
## 185 illumina_humanht_12_v4
## 186 illumina_humanref_8_v3
## 187 illumina_humanwg_6_v1
## 188 illumina_humanwg_6_v2
## 189 illumina_humanwg_6_v3
## 190 phalanx_onearray
## 191 transcript_count_greater_than
## 192 transcript_count_less_than
## 193 biotype
## 194 transcript_biotype
## 195 source
## 196 transcript_source
## 197 transcript_tsl
## 198 transcript_gencode_basic
## 199 transcript_appris
## 200 transcript_is_canonical
## 201 mane_select
## 202 mane_plus_clinical
## 203 phenotype_description
## 204 phenotype_source
## 205 go_parent_term
## 206 go_parent_name
## 207 go_evidence_code
## 208 with_hsapiens_paralog
## 209 with_cabingdonii_homolog
## 210 with_scaustralis_homolog
## 211 with_mspretus_homolog
## 212 with_vpacos_homolog
## 213 with_mmmarmota_homolog
## 214 with_pformosa_homolog
## 215 with_bbbison_homolog
## 216 with_uamericanus_homolog
## 217 with_nvison_homolog
## 218 with_cdromedarius_homolog
## 219 with_uparryii_homolog
## 220 with_smerianae_homolog
## 221 with_dnovemcinctus_homolog
## 222 with_sformosus_homolog
## 223 with_gmorhua_homolog
## 224 with_charengus_homolog
## 225 with_ssalar_homolog
## 226 with_cporosus_homolog
## 227 with_lbergylta_homolog
## 228 with_lcalcarifer_homolog
## 229 with_dleucas_homolog
## 230 with_spartitus_homolog
## 231 with_rbieti_homolog
## 232 with_bmusculus_homolog
## 233 with_llaticaudata_homolog
## 234 with_sbboliviensis_homolog
## 235 with_ppaniscus_homolog
## 236 with_strutta_homolog
## 237 with_hburtoni_homolog
## 238 with_ogarnettii_homolog
## 239 with_cintestinalis_homolog
## 240 with_csavignyi_homolog
## 241 with_celegans_homolog
## 242 with_fcatus_homolog
## 243 with_cwagneri_homolog
## 244 with_cgobio_homolog
## 245 with_ipunctatus_homolog
## 246 with_ggallus_homolog
## 247 with_ptroglodytes_homolog
## 248 with_cgchok1gshd_homolog
## 249 with_osinensis_homolog
## 250 with_psinensis_homolog
## 251 with_otshawytscha_homolog
## 252 with_atestudineus_homolog
## 253 with_aocellaris_homolog
## 254 with_lchalumnae_homolog
## 255 with_okisutch_homolog
## 256 with_falbicollis_homolog
## 257 with_scanaria_homolog
## 258 with_ccarpio_homolog
## 259 with_pmuralis_homolog
## 260 with_vursinus_homolog
## 261 with_pcoquereli_homolog
## 262 with_btaurus_homolog
## 263 with_mfascicularis_homolog
## 264 with_odegus_homolog
## 265 with_dclupeoides_homolog
## 266 with_cldingo_homolog
## 267 with_clfamiliaris_homolog
## 268 with_ttruncatus_homolog
## 269 with_bgrunniens_homolog
## 270 with_eaasinus_homolog
## 271 with_mleucophaeus_homolog
## 272 with_dmelanogaster_homolog
## 273 with_applatyrhynchos_homolog
## 274 with_ptextilis_homolog
## 275 with_acalliptera_homolog
## 276 with_eelectricus_homolog
## 277 with_lafricana_homolog
## 278 with_cmilii_homolog
## 279 with_svulgaris_homolog
## 280 with_dlabrax_homolog
## 281 with_mpfuro_homolog
## 282 with_trubripes_homolog
## 283 with_amelanoleuca_homolog
## 284 with_nleucogenys_homolog
## 285 with_saurata_homolog
## 286 with_chircus_homolog
## 287 with_mauratus_homolog
## 288 with_acchrysaetos_homolog
## 289 with_rroxellana_homolog
## 290 with_sgrahami_homolog
## 291 with_cauratus_homolog
## 292 with_gevgoodei_homolog
## 293 with_ggorilla_homolog
## 294 with_pmajor_homolog
## 295 with_sdumerili_homolog
## 296 with_psimus_homolog
## 297 with_rferrumequinum_homolog
## 298 with_acarolinensis_homolog
## 299 with_cporcellus_homolog
## 300 with_preticulata_homolog
## 301 with_eburgeri_homolog
## 302 with_eeuropaeus_homolog
## 303 with_ecaballus_homolog
## 304 with_hhucho_homolog
## 305 with_bihybrid_homolog
## 306 with_pcapensis_homolog
## 307 with_nnaja_homolog
## 308 with_omelastigma_homolog
## 309 with_olatipes_homolog
## 310 with_cjaponica_homolog
## 311 with_ojavanicus_homolog
## 312 with_shabroptila_homolog
## 313 with_dordii_homolog
## 314 with_pcinereus_homolog
## 315 with_pmarinus_homolog
## 316 with_lcrocea_homolog
## 317 with_lleishanense_homolog
## 318 with_ppardus_homolog
## 319 with_jjaculus_homolog
## 320 with_etelfairi_homolog
## 321 with_pleo_homolog
## 322 with_clanigera_homolog
## 323 with_clumpus_homolog
## 324 with_nbrichardi_homolog
## 325 with_anancymaae_homolog
## 326 with_mmulatta_homolog
## 327 with_nscutatus_homolog
## 328 with_pnyererei_homolog
## 329 with_kmarmoratus_homolog
## 330 with_cjacchus_homolog
## 331 with_gfortis_homolog
## 332 with_pvampyrus_homolog
## 333 with_amexicanus_homolog
## 334 with_mlucifugus_homolog
## 335 with_acitrinellus_homolog
## 336 with_mmusculus_homolog
## 337 with_mmurinus_homolog
## 338 with_fheteroclitus_homolog
## 339 with_hgfemale_homolog
## 340 with_mmonoceros_homolog
## 341 with_oniloticus_homolog
## 342 with_pmbairdii_homolog
## 343 with_elucius_homolog
## 344 with_panubis_homolog
## 345 with_mdomestica_homolog
## 346 with_apercula_homolog
## 347 with_pabelii_homolog
## 348 with_cpbellii_homolog
## 349 with_pkingsleyae_homolog
## 350 with_sscrofa_homolog
## 351 with_mnemestrina_homolog
## 352 with_oprinceps_homolog
## 353 with_slucioperca_homolog
## 354 with_mmurdjan_homolog
## 355 with_abrachyrhynchus_homolog
## 356 with_xmaculatus_homolog
## 357 with_oanatinus_homolog
## 358 with_umaritimus_homolog
## 359 with_mochrogaster_homolog
## 360 with_ocuniculus_homolog
## 361 with_omykiss_homolog
## 362 with_rnorvegicus_homolog
## 363 with_vvulpes_homolog
## 364 with_pnattereri_homolog
## 365 with_ecalabaricus_homolog
## 366 with_mcaroli_homolog
## 367 with_scerevisiae_homolog
## 368 with_platipinna_homolog
## 369 with_oarambouillet_homolog
## 370 with_cvariegatus_homolog
## 371 with_saraneus_homolog
## 372 with_mpahari_homolog
## 373 with_bsplendens_homolog
## 374 with_mmoschiferus_homolog
## 375 with_choffmanni_homolog
## 376 with_catys_homolog
## 377 with_pcatodon_homolog
## 378 with_apolyacanthus_homolog
## 379 with_loculatus_homolog
## 380 with_itridecemlineatus_homolog
## 381 with_mspicilegus_homolog
## 382 with_gaculeatus_homolog
## 383 with_csyrichta_homolog
## 384 with_sharrisii_homolog
## 385 with_tnigroviridis_homolog
## 386 with_tctriunguis_homolog
## 387 with_ptaltaica_homolog
## 388 with_hcomes_homolog
## 389 with_csemilaevis_homolog
## 390 with_tbelangeri_homolog
## 391 with_xtropicalis_homolog
## 392 with_spunctatus_homolog
## 393 with_smaximus_homolog
## 394 with_mgallopavo_homolog
## 395 with_nfurzeri_homolog
## 396 with_ngalili_homolog
## 397 with_psinus_homolog
## 398 with_csabaeus_homolog
## 399 with_neugenii_homolog
## 400 with_bmutus_homolog
## 401 with_chyarkandensis_homolog
## 402 with_sldorsalis_homolog
## 403 with_tguttata_homolog
## 404 with_mzebra_homolog
## 405 with_drerio_homolog
## 406 with_marmatus_homolog
## 407 with_interpro
## 408 with_cdd
## 409 with_gene3d
## 410 with_hamap
## 411 with_mobidblite
## 412 with_ncoils
## 413 with_hmmpanther
## 414 with_pfam
## 415 with_pirsf
## 416 with_prints
## 417 with_scanprosite
## 418 with_pfscan
## 419 with_seg
## 420 with_sfld
## 421 with_sifts_import
## 422 with_signalp
## 423 with_smart
## 424 with_superfamily
## 425 with_tigrfam
## 426 with_tmhmm
## 427 interpro
## 428 cdd
## 429 gene3d
## 430 hamap
## 431 hmmpanther
## 432 pfam
## 433 pirsf
## 434 prints
## 435 scanprosite
## 436 pfscan
## 437 sfld
## 438 smart
## 439 superfamily
## 440 tigrfam
## 441 germ_line_variation_source
## 442 somatic_variation_source
## 443 with_validated_snp
## 444 so_mini_parent_name
## description
## 1 Chromosome/scaffold name
## 2 Start
## 3 End
## 4 Band Start
## 5 Band End
## 6 Marker Start
## 7 Marker End
## 8 Encode region
## 9 Strand
## 10 e.g. 1:100:10000:-1, 1:100000:200000:1
## 11 With BioGRID Interaction data, The General Repository for Interaction Datasets ID(s)
## 12 With CCDS ID(s)
## 13 With ChEMBL ID(s)
## 14 With DataBase of Aberrant 3' Splice Sites ID(s)
## 15 With DataBase of Aberrant 5' Splice Sites ID(s)
## 16 With Ensembl Human Transcript ID(s)
## 17 With Ensembl Human Translation ID(s)
## 18 With EntrezGene transcript name ID(s)
## 19 With European Nucleotide Archive ID(s)
## 20 With Expression Atlas ID(s)
## 21 With GeneDB ID(s)
## 22 With GO ID(s)
## 23 With GOSlim GOA ID(s)
## 24 With HGNC Symbol ID(s)
## 25 With Human Protein Atlas ID(s)
## 26 With INSDC protein ID ID(s)
## 27 With KEGG Pathway and Enzyme ID(s)
## 28 With LRG display in Ensembl gene ID(s)
## 29 With LRG display in Ensembl transcript ID(s)
## 30 With MEROPS - the Peptidase Database ID(s)
## 31 With MIM gene ID(s)
## 32 With MIM morbid ID(s)
## 33 With miRBase ID(s)
## 34 With miRBase transcript name ID(s)
## 35 With NCBI gene (formerly Entrezgene) ID(s)
## 36 With PDB ID(s)
## 37 With Reactome ID(s)
## 38 With Reactome gene ID(s)
## 39 With Reactome transcript ID(s)
## 40 With RefSeq mRNA ID(s)
## 41 With RefSeq mRNA predicted ID(s)
## 42 With RefSeq ncRNA ID(s)
## 43 With RefSeq ncRNA predicted ID(s)
## 44 With RefSeq peptide ID(s)
## 45 With RefSeq peptide predicted ID(s)
## 46 With RFAM ID(s)
## 47 With RFAM transcript name ID(s)
## 48 With RNAcentral ID(s)
## 49 With Transcript name ID(s)
## 50 With UCSC Stable ID ID(s)
## 51 With UniParc ID(s)
## 52 With UniProtKB Gene Name ID(s)
## 53 With UniProtKB isoform ID(s)
## 54 With UniProtKB/Swiss-Prot ID(s)
## 55 With UniProtKB/TrEMBL ID(s)
## 56 With WikiGene ID(s)
## 57 Gene stable ID(s) [e.g. ENSG00000000003]
## 58 Gene stable ID(s) with version [e.g. ENSG00000000003.15]
## 59 Transcript stable ID(s) [e.g. ENST00000000233]
## 60 Transcript stable ID(s) with version [e.g. ENST00000000233.10]
## 61 Protein stable ID(s) [e.g. ENSP00000000233]
## 62 Protein stable ID(s) with version [e.g. ENSP00000000233.5]
## 63 Exon ID(s) [e.g. ENSE00000000003]
## 64 Gene Name(s) [e.g. MT-TF]
## 65 Transcript Name(s) [e.g. MT-TF-201]
## 66 Gene Synonym(s) [e.g. 0808y08y]
## 67 BioGRID Interaction data, The General Repository for Interaction Datasets ID(s) [e.g. 106523]
## 68 CCDS ID(s) [e.g. CCDS10]
## 69 ChEMBL ID(s) [e.g. CHEMBL1075092]
## 70 DataBase of Aberrant 3' Splice Sites name(s) [e.g. ABCR ]
## 71 DataBase of Aberrant 3' Splice Sites ID(s) [e.g. 1]
## 72 DataBase of Aberrant 5' Splice Sites name(s) [e.g. BRCA1]
## 73 DataBase of Aberrant 5' Splice Sites ID(s) [e.g. 382]
## 74 Ensembl Human Transcript ID(s) [e.g. ENST00000200639]
## 75 Ensembl Human Translation ID(s) [e.g. ENSP00000200639]
## 76 EntrezGene transcript name ID(s) [e.g. AA06-201]
## 77 European Nucleotide Archive ID(s) [e.g. A06800]
## 78 Expression Atlas ID(s) [e.g. ENSG00000000003]
## 79 GeneDB ID(s) [e.g. Smp_009580.1:pep]
## 80 GO ID(s) [e.g. GO:0000002]
## 81 GOSlim GOA ID(s) [e.g. GO:0000003]
## 82 HGNC ID(s) [e.g. HGNC:100]
## 83 HGNC symbol(s) [e.g. A1BG]
## 84 Human Protein Atlas accession(s) [e.g. CAB000001]
## 85 Human Protein Atlas ID(s) [e.g. 1]
## 86 INSDC protein ID(s) [e.g. AAA02489]
## 87 KEGG Pathway and Enzyme ID(s) [e.g. 00010]
## 88 LRG display in Ensembl gene ID(s) [e.g. LRG_1]
## 89 LRG display in Ensembl transcript ID(s) [e.g. LRG_100t1]
## 90 MEROPS - the Peptidase Database ID(s) [e.g. A01.001]
## 91 MIM gene accession(s) [e.g. 100640]
## 92 MIM morbid accession(s) [e.g. 100100]
## 93 miRBase accession(s) [e.g. MI0000060]
## 94 miRBase ID(s) [e.g. hsa-let-7a-1]
## 95 miRBase transcript name ID(s) [e.g. hsa-mir-1253.1-201]
## 96 NCBI gene (formerly Entrezgene) accession(s) [e.g. A1BG]
## 97 NCBI gene (formerly Entrezgene) ID(s) [e.g. 1]
## 98 PDB ID(s) [e.g. 10GS]
## 99 Reactome ID(s) [e.g. R-HSA-1059683]
## 100 Reactome gene ID(s) [e.g. R-HSA-1059683]
## 101 Reactome transcript ID(s) [e.g. R-HSA-1059683]
## 102 RefSeq mRNA ID(s) [e.g. NM_000014]
## 103 RefSeq mRNA predicted ID(s) [e.g. XM_003118719]
## 104 RefSeq ncRNA ID(s) [e.g. NR_000005]
## 105 RefSeq ncRNA predicted ID(s) [e.g. XR_001736900]
## 106 RefSeq peptide ID(s) [e.g. NP_000005]
## 107 RefSeq peptide predicted ID(s) [e.g. XP_003118767]
## 108 RFAM ID(s) [e.g. RF00001]
## 109 RFAM transcript name ID(s) [e.g. 5S_rRNA.1-201]
## 110 RNAcentral ID(s) [e.g. URS0000000055]
## 111 Transcript name ID(s) [e.g. A1BG-201]
## 112 UCSC Stable ID(s) [e.g. uc001aak.4]
## 113 UniParc ID(s) [e.g. UPI000000003C]
## 114 UniProtKB Gene Name symbol(s) [e.g. 5HT1A]
## 115 UniProtKB Gene Name ID(s) [e.g. A0A023T6R1]
## 116 UniProtKB isoform ID(s) [e.g. A0A096LP49-1]
## 117 UniProtKB/Swiss-Prot ID(s) [e.g. A0A024RBG1]
## 118 UniProtKB/TrEMBL ID(s) [e.g. A0A023T6R1]
## 119 WikiGene name(s) [e.g. A1BG]
## 120 WikiGene ID(s) [e.g. 1]
## 121 With AFFY HC G110 probe ID(s)
## 122 With AFFY HG Focus probe ID(s)
## 123 With AFFY HG U133A probe ID(s)
## 124 With AFFY HG U133A 2 probe ID(s)
## 125 With AFFY HG U133B probe ID(s)
## 126 With AFFY HG U133 Plus 2 probe ID(s)
## 127 With AFFY HG U95A probe ID(s)
## 128 With AFFY HG U95Av2 probe ID(s)
## 129 With AFFY HG U95B probe ID(s)
## 130 With AFFY HG U95C probe ID(s)
## 131 With AFFY HG U95D probe ID(s)
## 132 With AFFY HG U95E probe ID(s)
## 133 With AFFY HTA 2 0 probe ID(s)
## 134 With AFFY HuEx 1 0 st v2 probe ID(s)
## 135 With AFFY HuGeneFL probe ID(s)
## 136 With AFFY HuGene 1 0 st v1 probe ID(s)
## 137 With AFFY HuGene 2 0 st v1 probe ID(s)
## 138 With AFFY PrimeView probe ID(s)
## 139 With AFFY U133 X3P probe ID(s)
## 140 With AGILENT CGH 44b probe ID(s)
## 141 With AGILENT GPL26966 probe ID(s)
## 142 With AGILENT GPL6848 probe ID(s)
## 143 With AGILENT SurePrint G3 GE 8x60k probe ID(s)
## 144 With AGILENT SurePrint G3 GE 8x60k v2 probe ID(s)
## 145 With AGILENT WholeGenome probe ID(s)
## 146 With AGILENT WholeGenome 4x44k v1 probe ID(s)
## 147 With AGILENT WholeGenome 4x44k v2 probe ID(s)
## 148 With CODELINK CODELINK probe ID(s)
## 149 With ILLUMINA HumanHT 12 V3 probe ID(s)
## 150 With ILLUMINA HumanHT 12 V4 probe ID(s)
## 151 With ILLUMINA HumanRef 8 V3 probe ID(s)
## 152 With ILLUMINA HumanWG 6 V1 probe ID(s)
## 153 With ILLUMINA HumanWG 6 V2 probe ID(s)
## 154 With ILLUMINA HumanWG 6 V3 probe ID(s)
## 155 With PHALANX OneArray probe ID(s)
## 156 AFFY HC G110 probe ID(s) [e.g. 737_at]
## 157 AFFY HG Focus probe ID(s) [e.g. 220771_at]
## 158 AFFY HG U133A probe ID(s) [e.g. 211600_at]
## 159 AFFY HG U133A 2 probe ID(s) [e.g. 211600_at]
## 160 AFFY HG U133B probe ID(s) [e.g. 224372_at]
## 161 AFFY HG U133 Plus 2 probe ID(s) [e.g. 1553551_s_at]
## 162 AFFY HG U95A probe ID(s) [e.g. 34279_at]
## 163 AFFY HG U95Av2 probe ID(s) [e.g. 34279_at]
## 164 AFFY HG U95B probe ID(s) [e.g. 49072_at]
## 165 AFFY HG U95C probe ID(s) [e.g. 64410_at]
## 166 AFFY HG U95D probe ID(s) [e.g. 76451_at]
## 167 AFFY HG U95E probe ID(s) [e.g. 88289_at]
## 168 AFFY HTA 2 0 probe ID(s) [e.g. TC0M000002.hg]
## 169 AFFY HuEx 1 0 st v2 probe ID(s) [e.g. 2864632]
## 170 AFFY HuGeneFL probe ID(s) [e.g. Z70759_at]
## 171 AFFY HuGene 1 0 st v1 probe ID(s) [e.g. 7946565]
## 172 AFFY HuGene 2 0 st v1 probe ID(s) [e.g. 17100641]
## 173 AFFY PrimeView probe ID(s) [e.g. 11761516_x_at]
## 174 AFFY U133 X3P probe ID(s) [e.g. 1553551_3p_s_at]
## 175 AGILENT CGH 44b probe ID(s) [e.g. A_14_P129616]
## 176 AGILENT GPL26966 probe ID(s) [e.g. HMNXSV003012672]
## 177 AGILENT GPL6848 probe ID(s) [e.g. A_24_P179339]
## 178 AGILENT SurePrint G3 GE 8x60k probe ID(s) [e.g. A_24_P182122]
## 179 AGILENT SurePrint G3 GE 8x60k v2 probe ID(s) [e.g. A_24_P182122]
## 180 AGILENT WholeGenome probe ID(s) [e.g. A_24_P42453]
## 181 AGILENT WholeGenome 4x44k v1 probe ID(s) [e.g. A_24_P179339]
## 182 AGILENT WholeGenome 4x44k v2 probe ID(s) [e.g. A_24_P182122]
## 183 CODELINK CODELINK probe ID(s) [e.g. GE84207]
## 184 ILLUMINA HumanHT 12 V3 probe ID(s) [e.g. ILMN_1779625]
## 185 ILLUMINA HumanHT 12 V4 probe ID(s) [e.g. ILMN_3308961]
## 186 ILLUMINA HumanRef 8 V3 probe ID(s) [e.g. ILMN_2295987]
## 187 ILLUMINA HumanWG 6 V1 probe ID(s) [e.g. 0005910053]
## 188 ILLUMINA HumanWG 6 V2 probe ID(s) [e.g. ILMN_1779625]
## 189 ILLUMINA HumanWG 6 V3 probe ID(s) [e.g. ILMN_1779625]
## 190 PHALANX OneArray probe ID(s) [e.g. PH_hs_0033947]
## 191 Transcript count >=
## 192 Transcript count <=
## 193 Type
## 194 Transcript Type
## 195 Source (gene)
## 196 Source (transcript)
## 197 Transcript Support Level (TSL)
## 198 GENCODE basic annotation
## 199 APPRIS annotation
## 200 Ensembl Canonical
## 201 MANE Select transcript
## 202 MANE Plus clinical
## 203 Phenotype description
## 204 Phenotype source
## 205 Parent term accession
## 206 Parent term name
## 207 GO Evidence code
## 208 Paralogous Human Genes
## 209 Orthologous Abingdon island giant tortoise Genes
## 210 Orthologous African ostrich Genes
## 211 Orthologous Algerian mouse Genes
## 212 Orthologous Alpaca Genes
## 213 Orthologous Alpine marmot Genes
## 214 Orthologous Amazon molly Genes
## 215 Orthologous American bison Genes
## 216 Orthologous American black bear Genes
## 217 Orthologous American mink Genes
## 218 Orthologous Arabian camel Genes
## 219 Orthologous Arctic ground squirrel Genes
## 220 Orthologous Argentine black and white tegu Genes
## 221 Orthologous Armadillo Genes
## 222 Orthologous Asian bonytongue Genes
## 223 Orthologous Atlantic cod Genes
## 224 Orthologous Atlantic herring Genes
## 225 Orthologous Atlantic salmon Genes
## 226 Orthologous Australian saltwater crocodile Genes
## 227 Orthologous Ballan wrasse Genes
## 228 Orthologous Barramundi perch Genes
## 229 Orthologous Beluga whale Genes
## 230 Orthologous Bicolor damselfish Genes
## 231 Orthologous Black snub-nosed monkey Genes
## 232 Orthologous Blue whale Genes
## 233 Orthologous Blue-ringed sea krait Genes
## 234 Orthologous Bolivian squirrel monkey Genes
## 235 Orthologous Bonobo Genes
## 236 Orthologous Brown trout Genes
## 237 Orthologous Burton's mouthbrooder Genes
## 238 Orthologous Bushbaby Genes
## 239 Orthologous C.intestinalis Genes
## 240 Orthologous C.savignyi Genes
## 241 Orthologous Caenorhabditis elegans Genes
## 242 Orthologous Cat Genes
## 243 Orthologous Chacoan peccary Genes
## 244 Orthologous Channel bull blenny Genes
## 245 Orthologous Channel catfish Genes
## 246 Orthologous Chicken Genes
## 247 Orthologous Chimpanzee Genes
## 248 Orthologous Chinese hamster CHOK1GS Genes
## 249 Orthologous Chinese medaka Genes
## 250 Orthologous Chinese softshell turtle Genes
## 251 Orthologous Chinook salmon Genes
## 252 Orthologous Climbing perch Genes
## 253 Orthologous Clown anemonefish Genes
## 254 Orthologous Coelacanth Genes
## 255 Orthologous Coho salmon Genes
## 256 Orthologous Collared flycatcher Genes
## 257 Orthologous Common canary Genes
## 258 Orthologous Common carp Genes
## 259 Orthologous Common wall lizard Genes
## 260 Orthologous Common wombat Genes
## 261 Orthologous Coquerel's sifaka Genes
## 262 Orthologous Cow Genes
## 263 Orthologous Crab-eating macaque Genes
## 264 Orthologous Degu Genes
## 265 Orthologous Denticle herring Genes
## 266 Orthologous Dingo Genes
## 267 Orthologous Dog Genes
## 268 Orthologous Dolphin Genes
## 269 Orthologous Domestic yak Genes
## 270 Orthologous Donkey Genes
## 271 Orthologous Drill Genes
## 272 Orthologous Drosophila melanogaster Genes
## 273 Orthologous Duck Genes
## 274 Orthologous Eastern brown snake Genes
## 275 Orthologous Eastern happy Genes
## 276 Orthologous Electric eel Genes
## 277 Orthologous Elephant Genes
## 278 Orthologous Elephant shark Genes
## 279 Orthologous Eurasian red squirrel Genes
## 280 Orthologous European seabass Genes
## 281 Orthologous Ferret Genes
## 282 Orthologous Fugu Genes
## 283 Orthologous Giant panda Genes
## 284 Orthologous Gibbon Genes
## 285 Orthologous Gilthead seabream Genes
## 286 Orthologous Goat Genes
## 287 Orthologous Golden Hamster Genes
## 288 Orthologous Golden eagle Genes
## 289 Orthologous Golden snub-nosed monkey Genes
## 290 Orthologous Golden-line barbel Genes
## 291 Orthologous Goldfish Genes
## 292 Orthologous Goodes thornscrub tortoise Genes
## 293 Orthologous Gorilla Genes
## 294 Orthologous Great Tit Genes
## 295 Orthologous Greater amberjack Genes
## 296 Orthologous Greater bamboo lemur Genes
## 297 Orthologous Greater horseshoe bat Genes
## 298 Orthologous Green anole Genes
## 299 Orthologous Guinea Pig Genes
## 300 Orthologous Guppy Genes
## 301 Orthologous Hagfish Genes
## 302 Orthologous Hedgehog Genes
## 303 Orthologous Horse Genes
## 304 Orthologous Huchen Genes
## 305 Orthologous Hybrid - Bos Indicus Genes
## 306 Orthologous Hyrax Genes
## 307 Orthologous Indian cobra Genes
## 308 Orthologous Indian medaka Genes
## 309 Orthologous Japanese medaka HdrR Genes
## 310 Orthologous Japanese quail Genes
## 311 Orthologous Javanese ricefish Genes
## 312 Orthologous Kakapo Genes
## 313 Orthologous Kangaroo rat Genes
## 314 Orthologous Koala Genes
## 315 Orthologous Lamprey Genes
## 316 Orthologous Large yellow croaker Genes
## 317 Orthologous Leishan spiny toad Genes
## 318 Orthologous Leopard Genes
## 319 Orthologous Lesser Egyptian jerboa Genes
## 320 Orthologous Lesser hedgehog tenrec Genes
## 321 Orthologous Lion Genes
## 322 Orthologous Long-tailed chinchilla Genes
## 323 Orthologous Lumpfish Genes
## 324 Orthologous Lyretail cichlid Genes
## 325 Orthologous Ma's night monkey Genes
## 326 Orthologous Macaque Genes
## 327 Orthologous Mainland tiger snake Genes
## 328 Orthologous Makobe Island cichlid Genes
## 329 Orthologous Mangrove rivulus Genes
## 330 Orthologous Marmoset Genes
## 331 Orthologous Medium ground-finch Genes
## 332 Orthologous Megabat Genes
## 333 Orthologous Mexican tetra Genes
## 334 Orthologous Microbat Genes
## 335 Orthologous Midas cichlid Genes
## 336 Orthologous Mouse Genes
## 337 Orthologous Mouse Lemur Genes
## 338 Orthologous Mummichog Genes
## 339 Orthologous Naked mole-rat female Genes
## 340 Orthologous Narwhal Genes
## 341 Orthologous Nile tilapia Genes
## 342 Orthologous Northern American deer mouse Genes
## 343 Orthologous Northern pike Genes
## 344 Orthologous Olive baboon Genes
## 345 Orthologous Opossum Genes
## 346 Orthologous Orange clownfish Genes
## 347 Orthologous Orangutan Genes
## 348 Orthologous Painted turtle Genes
## 349 Orthologous Paramormyrops kingsleyae Genes
## 350 Orthologous Pig Genes
## 351 Orthologous Pig-tailed macaque Genes
## 352 Orthologous Pika Genes
## 353 Orthologous Pike-perch Genes
## 354 Orthologous Pinecone soldierfish Genes
## 355 Orthologous Pink-footed goose Genes
## 356 Orthologous Platyfish Genes
## 357 Orthologous Platypus Genes
## 358 Orthologous Polar bear Genes
## 359 Orthologous Prairie vole Genes
## 360 Orthologous Rabbit Genes
## 361 Orthologous Rainbow trout Genes
## 362 Orthologous Rat Genes
## 363 Orthologous Red fox Genes
## 364 Orthologous Red-bellied piranha Genes
## 365 Orthologous Reedfish Genes
## 366 Orthologous Ryukyu mouse Genes
## 367 Orthologous Saccharomyces cerevisiae Genes
## 368 Orthologous Sailfin molly Genes
## 369 Orthologous Sheep Genes
## 370 Orthologous Sheepshead minnow Genes
## 371 Orthologous Shrew Genes
## 372 Orthologous Shrew mouse Genes
## 373 Orthologous Siamese fighting fish Genes
## 374 Orthologous Siberian musk deer Genes
## 375 Orthologous Sloth Genes
## 376 Orthologous Sooty mangabey Genes
## 377 Orthologous Sperm whale Genes
## 378 Orthologous Spiny chromis Genes
## 379 Orthologous Spotted gar Genes
## 380 Orthologous Squirrel Genes
## 381 Orthologous Steppe mouse Genes
## 382 Orthologous Stickleback Genes
## 383 Orthologous Tarsier Genes
## 384 Orthologous Tasmanian devil Genes
## 385 Orthologous Tetraodon Genes
## 386 Orthologous Three-toed box turtle Genes
## 387 Orthologous Tiger Genes
## 388 Orthologous Tiger tail seahorse Genes
## 389 Orthologous Tongue sole Genes
## 390 Orthologous Tree Shrew Genes
## 391 Orthologous Tropical clawed frog Genes
## 392 Orthologous Tuatara Genes
## 393 Orthologous Turbot Genes
## 394 Orthologous Turkey Genes
## 395 Orthologous Turquoise killifish Genes
## 396 Orthologous Upper Galilee mountains blind mole rat Genes
## 397 Orthologous Vaquita Genes
## 398 Orthologous Vervet-AGM Genes
## 399 Orthologous Wallaby Genes
## 400 Orthologous Wild yak Genes
## 401 Orthologous Yarkand deer Genes
## 402 Orthologous Yellowtail amberjack Genes
## 403 Orthologous Zebra finch Genes
## 404 Orthologous Zebra mbuna Genes
## 405 Orthologous Zebrafish Genes
## 406 Orthologous Zig-zag eel Genes
## 407 With Interpro ID(s)
## 408 With CDD ID(s)
## 409 With Gene3D ID(s)
## 410 With HAMAP ID(s)
## 411 With MobiDB lite
## 412 With Coiled-coils (Ncoils)
## 413 With PANTHER ID(s)
## 414 With Pfam ID(s)
## 415 With PIRSF ID(s)
## 416 With Prints ID(s)
## 417 With PROSITE patterns ID(s)
## 418 With PROSITE profiles ID(s)
## 419 With Low complexity (Seg)
## 420 With SFLD ID(s)
## 421 With PDB-ENSP mappings
## 422 With Cleavage site (Signalp)
## 423 With SMART ID(s)
## 424 With Superfamily ID(s)
## 425 With TIGRFAM ID(s)
## 426 With Transmembrane helices
## 427 Interpro ID(s) [e.g. IPR000001]
## 428 CDD ID(s) [e.g. cd00009]
## 429 Gene3D ID(s) [e.g. 1.10.10.10]
## 430 HAMAP ID(s) [e.g. MF_00001]
## 431 PANTHER ID(s) [e.g. PTHR10003]
## 432 Pfam ID(s) [e.g. PF00001]
## 433 PIRSF ID(s) [e.g. PIRSF000019]
## 434 Prints ID(s) [e.g. PR00001]
## 435 PROSITE patterns ID(s) [e.g. PS00010]
## 436 PROSITE profiles ID(s) [e.g. PS01031]
## 437 SFLD ID(s) [e.g. SFLDF00002]
## 438 SMART ID(s) [e.g. SM00002]
## 439 Superfamily ID(s) [e.g. SSF100879]
## 440 TIGRFAM ID(s) [e.g. TIGR00002]
## 441 limit to genes with germline variant data sources
## 442 limit to genes with somatic variant sources
## 443 Variant supporting evidence
## 444 Parent term nameattributes <- listAttributes(h_sapiens)