The KEGGREST API keggLink and keggGet does not return kegg reaction for the query hsa:5164 But https://www.genome.jp/entry/hsa:5164 lists a Chemical reaction as opposed to KEGG Reaction. https://www.genome.jp/entry/2.7.11.2 lists a KEGG Reaction. What is the difference and why is this not a KEGG Reaction like others? Thanks. Code should be placed in three backticks as shown below
include your problematic code here with any corresponding output
please also include the results of running the following in an R session
```sessionInfo() \R version 4.2.2 (2022-10-31) Platform: x86_64-redhat-linux-gnu (64-bit) Running under: Rocky Linux 8.7 (Green Obsidian)
Matrix products: default BLAS/LAPACK: /usr/lib64/libopenblaso-r0.3.15.so
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_US.UTF-8 LC_COLLATE=en_US.UTF-8
[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages: [1] stats graphics grDevices utils datasets methods base
other attached packages: [1] KEGGREST_1.34.0
loaded via a namespace (and not attached):
[1] IRanges_2.28.0 png_0.1-7 Biostrings_2.62.0
[4] crayon_1.5.1 bitops_1.0-7 GenomeInfoDb_1.30.1
[7] R6_2.5.1 stats4_4.2.2 httr_1.4.3
[10] zlibbioc_1.40.0 curl_4.3.2 XVector_0.34.0
[13] S4Vectors_0.32.4 tools_4.2.2 RCurl_1.98-1.6
[16] compiler_4.2.2 BiocGenerics_0.40.0 GenomeInfoDbData_1.2.7
library(KEGGREST)
keggLink("hsa:5164")
[1,] "hsa:5164" "RG003:26729672" "reverse"
[2,] "hsa:5164" "RG003:76424503" "reverse"
[3,] "hsa:5164" "br:hsa00001" "original"
[4,] "hsa:5164" "br:hsa01000" "original"
[5,] "hsa:5164" "br:hsa01001" "original"
[6,] "hsa:5164" "brc-dna:HGE037835" "reverse"
[7,] "hsa:5164" "brc-dna:HGE037873" "reverse"
[8,] "hsa:5164" "brc-dna:HGE037875" "reverse"
[9,] "hsa:5164" "brc-dna:HGY085921" "reverse"
[10,] "hsa:5164" "brc-dna:HGY096616" "reverse"
[11,] "hsa:5164" "brc-dna:HGY100541" "reverse"
[12,] "hsa:5164" "brc-dna:HKR063300" "reverse"
[13,] "hsa:5164" "brc-dna:HKR063324" "reverse"
[14,] "hsa:5164" "brc-dna:HKR379279" "reverse"
[15,] "hsa:5164" "dr:D05857" "original"
[16,] "hsa:5164" "ec:2.7.11.2" "original"
[17,] "hsa:5164" "emb:AK055119" "equivalent"
[18,] "hsa:5164" "emb:AK290522" "equivalent"
[19,] "hsa:5164" "emb:AK293600" "equivalent"
[20,] "hsa:5164" "emb:AK297089" "equivalent"
[21,] "hsa:5164" "emb:AW302405" "equivalent"
[22,] "hsa:5164" "emb:AW469593" "equivalent"
[23,] "hsa:5164" "emb:BC005811" "equivalent"
[24,] "hsa:5164" "emb:BC040478" "equivalent"
[25,] "hsa:5164" "emb:BC063137" "equivalent"
[26,] "hsa:5164" "emb:BQ024783" "equivalent"
[27,] "hsa:5164" "emb:BQ071206" "equivalent"
[28,] "hsa:5164" "emb:DA199055" "equivalent"
[29,] "hsa:5164" "emb:L42451" "equivalent"
[30,] "hsa:5164" "ensembl:ENSG00000005882" "original"
[31,] "hsa:5164" "gb:AK055119" "equivalent"
[32,] "hsa:5164" "gb:AK290522" "equivalent"
[33,] "hsa:5164" "gb:AK293600" "equivalent"
[34,] "hsa:5164" "gb:AK297089" "equivalent"
[35,] "hsa:5164" "gb:AW302405" "equivalent"
[36,] "hsa:5164" "gb:AW469593" "equivalent"
[37,] "hsa:5164" "gb:BC005811" "equivalent"
[38,] "hsa:5164" "gb:BC040478" "equivalent"
[39,] "hsa:5164" "gb:BC063137" "equivalent"
[40,] "hsa:5164" "gb:BQ024783" "equivalent"
[41,] "hsa:5164" "gb:BQ071206" "equivalent"
[42,] "hsa:5164" "gb:DA199055" "equivalent"
[43,] "hsa:5164" "gb:L42451" "equivalent"
[44,] "hsa:5164" "gn:T01001" "original"
[45,] "hsa:5164" "hgnc:8810" "original"
[46,] "hsa:5164" "ko:K00898" "original"
[47,] "hsa:5164" "ncbi-geneid:5164" "equivalent"
[48,] "hsa:5164" "ncbi-proteinid:NP_002602" "equivalent"
[49,] "hsa:5164" "oc:OC.304223" "reverse"
[50,] "hsa:5164" "omim:602525" "equivalent"
[51,] "hsa:5164" "path:hsa05415" "original"
[52,] "hsa:5164" "pdb:2BTZ" "original"
[53,] "hsa:5164" "pdb:2BU2" "original"
[54,] "hsa:5164" "pdb:2BU5" "original"
[55,] "hsa:5164" "pdb:2BU6" "original"
[56,] "hsa:5164" "pdb:2BU7" "original"
[57,] "hsa:5164" "pdb:2BU8" "original"
[58,] "hsa:5164" "pdb:4MP2" "original"
[59,] "hsa:5164" "pdb:4MP7" "original"
[60,] "hsa:5164" "pdb:4MPC" "original"
[61,] "hsa:5164" "pdb:4MPE" "original"
[62,] "hsa:5164" "pdb:4MPN" "original"
[63,] "hsa:5164" "pdb:4V25" "original"
[64,] "hsa:5164" "pdb:4V26" "original"
[65,] "hsa:5164" "pdb:5J6A" "original"
[66,] "hsa:5164" "pdb:5J71" "original"
[67,] "hsa:5164" "pdb:5M4K" "original"
[68,] "hsa:5164" "pdb:5M4M" "original"
[69,] "hsa:5164" "pdb:5M4N" "original"
[70,] "hsa:5164" "pdb:5M4P" "original"
[71,] "hsa:5164" "pdb:6LIL" "original"
[72,] "hsa:5164" "pdb:6LIN" "original"
[73,] "hsa:5164" "pdb:6LIO" "original"
[74,] "hsa:5164" "pdb:6TMP" "original"
[75,] "hsa:5164" "pdb:6TMQ" "original"
[76,] "hsa:5164" "pdb:6TMZ" "original"
[77,] "hsa:5164" "pdb:6TN0" "original"
[78,] "hsa:5164" "pdb:6TN2" "original"
[79,] "hsa:5164" "pdb:7EA0" "original"
[80,] "hsa:5164" "pdb:7EAS" "original"
[81,] "hsa:5164" "pdb:7EBH" "original"
[82,] "hsa:5164" "pdb:7VBU" "original"
[83,] "hsa:5164" "pdb:7VBV" "original"
[84,] "hsa:5164" "pdb:7VBX" "original"
[85,] "hsa:5164" "pf:PF02518" "original"
[86,] "hsa:5164" "pf:PF10436" "original"
[87,] "hsa:5164" "pf:PF13589" "original"
[88,] "hsa:5164" "pharos:Q15119(Tbio)" "original"
[89,] "hsa:5164" "rs:NM_001199898" "equivalent"
[90,] "hsa:5164" "rs:NM_001199899" "equivalent"
[91,] "hsa:5164" "rs:NM_001199900" "equivalent"
[92,] "hsa:5164" "rs:NM_002611" "equivalent"
[93,] "hsa:5164" "rs:NP_001186827" "equivalent"
[94,] "hsa:5164" "rs:NP_001186828" "equivalent"
[95,] "hsa:5164" "rs:NP_001186829" "equivalent"
[96,] "hsa:5164" "rs:NP_002602" "equivalent"
[97,] "hsa:5164" "sp:Q15119" "equivalent"
[98,] "hsa:5164" "up:Q15119" "equivalent"