How to convert a json file to tsv file or table format?

General
, , , ,
1

Hi,

I have a json file with me (example below), I am interested in converting the json to a table like tsv file format (example below).Is it possible to convert from json to tsv file using R studio?

json file:

{
    "Gene1": {
        "datasvc-openai-poc-gpt4-turbo_1": [
            "```json",
            "{",
            "  \"gene_name\": \"Gene1\",",
            "  \"brief_summary\": \"Gene1 (Gene1 associated kinase 1) is a gene that encodes a protein kinase involved in endocytosis, a process by which cells internalize molecules and particles from their environment. The Gene1 protein regulates the binding of the Gene1 complex to clathrin and the plasma membrane, which is crucial for the formation of clathrin-coated vesicles. This process is important for the internalization of proteins and receptors from the cell surface and their subsequent recycling or degradation.\",",
            "  \"evidence_scores\": {",
            "    \"This gene is specifically associated with the biology of the airway epithelium\": 1,",
            "    \"This gene is specifically associated with the biology of bsl cells within the airway epithelium\": 1,",
            "    \"This gene is specifically associated with the biology of cla cells within airway epithelium\": 1,",
            "    \"This gene is involved in mediating influenza virus egress\": 3,",
            "    \"This gene is involved in mediating the initiation or priming of the adaptive immune response\": 3",
            "  }",
            "}",
            "```",
            "",
            "Please note that the scores provided are not based on."
        ]
    },
    "Protein4": {
        "datasvc-openai-poc-gpt4-turbo_1": [
            "```json",
            "{",
            "  \"gene_name\": \"Protein4\",",
            "  \"brief_summary\": \"Protein4 (Protein4 aminotransferase) is an enzyme that catalyzes the conversion of gamma-aminobutyric acid (GABA) and alpha-ketoglutarate to succinic semialdehyde and glutamate. It plays a role in the catabolism of GABA, a major inhibitory neurotransmitter in the central nervous system, and is involved in multiple metabolic pathways.\",",
            "  \"evidence_scores\": {",
            "    \"This gene is specifically associated with the biology of the airway epithelium\": 1,",
            "    \"This gene is specifically associated with the biology of bsl cells within the airway epithelium\": 1,",
            "    \"This gene is specifically associated with the biology of cla cells within airway epithelium\": 1,",
            "    \"This gene is involved in mediating influenza virus egress\": 0,",
            "    \"This gene is involved in mediating the initiation or priming of the adaptive immune response\": 3",
            "  }",
            "}",
            "```",
            "",
            "Please note that the scores provided are indicative."
        ]
    }
}

Output tsv file


Best Regards,
Toufiq

2

Hi @mtoufiq ,

i used your json code and stored it into a file named example.json . I used jsonlite and rrapply since they have no dependencies - you can use other libraries if you want.

# install packages if you don't have them
# install.packages(c("jsonlite","rrapply"))

# Step 1
jsonToList <- jsonlite::fromJSON(txt = "example.json")

# Step 2
extractJson <- lapply(jsonToList, function(x){
  # Step 2a
  markBeginEnd <- which(x[[1]] %in% c("```json", "```"))
  getJson <- x[[1]][(markBeginEnd[1]+1):(markBeginEnd[2]-1)]
  # Step 2b
  jsonlite::fromJSON(paste0(getJson, collapse = "\n"))
})
# Step 3
finalDF <- rrapply::rrapply(object = extractJson, how = "bind")

Explanation of steps

Step 1. Parse the json with some library (i used jsonlite). You will get a list
Step 2. Since you have a json file which includes a json file (some markup) you need to
Step 2a. Extract the begining and end of your "inlcuded json"
Step 2b. Parse that json to an R object - the same as in step 1. The result of this step is a list of lists.
Step 3. Use the rrapply function to recursively go throught the list of lists and create a df.

Result:

image
image2551×185 14.4 KB

The column names are long but you can change that easily.
Hope it helps.

2 Likes
3

@vedoa thank you very much. This addressed my question.

I have 15 json files obtained from a batch run, what would be the best way to merge?

  1. To parse all the json files and create a table (follow your approach and run 15 times)

OR

  1. Maybe, looping the process?
4

Hi, i would prefer the first option. At the end of the process you will have 15 dataframes. If some of them have columns that missmatch with others (or some other issue) you can still find a way to do that without having to parse all json files again.

The package data.table is great for merging multiple dataframes to one (it will consider mismatched columns etc..)

1 Like
5

Thank you very much @vedoa

6

@vedoa I tried to run on my original file, the below step throws an error:

# Step 2
extractJson <- lapply(jsonToList, function(x){
  # Step 2a
  markBeginEnd <- which(x[[1]] %in% c("```json", "```"))
  getJson <- x[[1]][(markBeginEnd[1]+1):(markBeginEnd[2]-1)]
  # Step 2b
  jsonlite::fromJSON(paste0(getJson, collapse = "\n"))
})

Error: parse error: trailing garbage
e of cell type identity." } { "This gene is specifically
(right here) ------^

Show traceback

6. parse_string(txt, bigint_as_char)
5. parseJSON(txt, bigint_as_char)
4. parse_and_simplify(txt = txt, simplifyVector = simplifyVector,
simplifyDataFrame = simplifyDataFrame, simplifyMatrix = simplifyMatrix,
flatten = flatten, ...)
3. jsonlite::fromJSON(paste0(getJson, collapse = "\n"))
2. FUN(X[[i]], ...)
1. lapply(jsonToList, function(x) {
markBeginEnd <- which(x[[1]] %in% c("```json", "```"))
getJson <- x[[1]][(markBeginEnd[1] + 1):(markBeginEnd[2] -
1)] ...
7

@mtoufiq is it possible that you share the original file? It would be easier to debug.

8

@vedoa yes sure. I could not upload the json file, below is the file. Probably, the reason for the error is the different patterns detected in the file for instance,

\"evidence_scores\"
\"scores\"
\"associations\"
\"statements\"
\"associations\"
\"gene_associations\"
\"statements_scores\"

{
    "gene1": {
        "datasvc-turbo_1": [
            "```json",
            "{",
            "  \"gene_name\": \"gene1\",",
            "  \"brief_summary\": \"gene1 (kinase 1) is a gene that encodes a protein kinase involved in endocytosis, a process by which cells internalize molecules and particles from their environment. The gene1 protein regulates the binding of the AP2 complex to clathrin and the plasma membrane, which is crucial for the formation of clathrin-coated vesicles. This process is important for the internalization of proteins and receptors from the cell surface and their subsequent recycling or degradation.\",",
            "  \"evidence_scores\": {",
            "    \"This gene is specifically associated with the biology of the airway epithelium\": 1,",
            "    \"This gene is specifically associated with the biology of bsl cells within the airway epithelium\": 1,",
            "    \"This gene is specifically associated with the biology of cla cells within airway epithelium\": 1,",
            "    \"This gene is involved in mediating influenza virus egress\": 3,",
            "    \"This gene is involved in mediating the initiation or priming of the adaptive immune response\": 3",
            "  }",
            "}",
            "```",
            "",
            "Please note that the scores provided are not based on extensive scientific evidence but are rather indicative and might be speculative. For an accurate assessment, a thorough review of scientific literature is required. The scores are meant to reflect a general sense of the gene's association with specific biological processes or disease mechanisms based on current knowledge, which may be limited."
        ]
    },
    "protein1ac": {
        "datasvc-turbo_1": [
            "```json",
            "{",
            "  \"gene_name\": \"protein1ac\",",
            "  \"brief_summary\": \"protein1ac, also known as Protein 1 (xx), is a member of the superfamily of ATP-binding cassette (ABC) transporters. These transporters play a crucial role in the cellular efflux of various substances, including drugs, lipids, and xenobiotics. protein1ac specifically functions as a transporter protein that can pump a variety of drugs out of cells, contributing to multidrug resistance in cancer chemotherapy. It is also involved in the transport of leukotriene C4 and other glutathione conjugates out of cells, which is significant for detoxification processes.\",",
            "  \"scores\": {",
            "    \"This gene is specifically associated with the biology of the airway epithelium\": 1,",
            "    \"This gene is specifically associated with the biology of bsl cells within the airway epithelium\": 1,",
            "    \"This gene is specifically associated with the biology of cla cells within airway epithelium\": 1,",
            "    \"This gene is involved in mediating influenza virus egress\": 3,",
            "    \"This gene is involved in mediating the initiation or priming of the adaptive immune response\": 3",
            "  }",
            "}",
            "```",
            "",
            "Please note that the scores provided are hypothetical and illustrative. The actual evidence linking the protein1ac gene to these specific aspects of airway epithelium biology and influenza virus interactions may differ and require thorough scientific research and review to determine."
        ]
    },
    "metabolite123": {
        "datasvc-turbo_1": [
            "```json",
            "{",
            "  \"gene_name\": \"metabolite123\",",
            "  \"brief_summary\": \"The metabolite123 gene encodes a member of the (ABC) transporter superfamily, known as multidrug resistance 5 (xx). It functions as a transporter for various molecules, including cyclic nucleotides, antiviral drugs, and other substrates, across cellular membranes. metabolite123 plays a role in cellular detoxification and contributes to the chemoresistance of cancer cells.\",",
            "  \"associations\": {",
            "    \"This gene is specifically associated with the biology of the airway epithelium\": 1,",
            "    \"This gene is specifically associated with the biology of bsl cells within the airway epithelium\": 1,",
            "    \"This gene is specifically associated with the biology of cla cells within airway epithelium\": 1,",
            "    \"This gene is involved in mediating influenza virus egress\": 3,",
            "    \"This gene is involved in mediating the initiation or priming of the adaptive immune response\": 3",
            "  }",
            "}",
            "```",
            "",
            "Please note that the scores provided for the statements are arbitrary and for illustrative purposes only. In a real-world setting, these scores would need to be derived from a thorough review of the scientific literature."
        ]
    },
    "compound20": {
        "datasvc-turbo_1": [
            "```json",
            "{",
            "  \"gene_name\": \"compound20\",",
            "  \"summary\": \"compound20, also known as ATP 9, is a gene that encodes for the protein. This protein is part of the ATP-sensitive potassium (KATP) channel complex, which plays a key role in coupling metabolic status to cellular excitability in various tissues, including cardiac and skeletal muscle, neurons, and pancreatic beta cells. The protein encoded by this gene is involved in the regulation of insulin secretion, myocardial contractility, and vascular tone. Mutations in compound20 can cause dilated cardiomyopathy and are associated with Cantu syndrome, a rare disorder characterized by hypertrichosis, osteochondrodysplasia, and cardiomegaly.\",",
            "  \"statements\": {",
            "    \"This gene is specifically associated with the biology of the airway epithelium\": 1,",
            "    \"This gene is specifically associated with the biology of bsl cells within the airway epithelium\": 1,",
            "    \"This gene is specifically associated with the biology of cla cells within airway epithelium\": 1,",
            "    \"This gene is involved in mediating influenza virus egress\": 3,",
            "    \"This gene is involved in mediating the initiation or priming of the adaptive immune response\": 3",
            "  }",
            "}",
            "```",
            "",
            "Please note that the scores provided for the statements are hypothetical and not based on specific scientific evidence. The values given are for illustrative purposes to demonstrate how to structure the JSON response. The actual evidence for such specific statements about the role of the compound20 gene in the airway epithelium and influenza virus infection would require detailed literature research and expert analysis, which is beyond the scope of this response."
        ]
    },
    "ABCD": {
        "datasvc-turbo_1": [
            "```json",
            "{",
            "  \"gene_name\": \"ABCD\",",
            "  \"brief_summary\": \"ABCD (Containing 10) is a Protein Coding gene. The ABCD gene encodes a member of the alpha/beta hydrolase superfamily. This gene has not been characterized thoroughly and its specific functions are still under investigation. It may play a role in metabolic processes, including the metabolism of drugs and other xenobiotics in the body. The expression and regulation of this gene in different tissues, including the airway epithelium, and its involvement in various cellular processes may provide insights into its biological functions.\",",
            "  \"gene_associations\": {",
            "    \"This gene is specifically associated with the biology of the airway epithelium\": 1,",
            "    \"This gene is specifically associated with the biology of bsl cells within the airway epithelium\": 1,",
            "    \"This gene is specifically associated with the biology of cla cells within airway epithelium\": 1,",
            "    \"This gene is involved in mediating influenza virus egress\": 3,",
            "    \"This gene is involved in mediating the initiation or priming of the adaptive immune response\": 3",
            "  }",
            "}",
            "```",
            "",
            "Please note that the scores provided in the \"gene_associations\" section are all set to 0, as there is no evidence provided in the context of this answer that directly links the ABCD gene to the specific functions listed in relation to airway epithelium or influenza virus infection. These scores should be updated based on peer-reviewed scientific evidence that specifically addresses these associations."
        ]
    },
    "XYZ": {
        "datasvc-turbo_1": [
            "```json",
            "{",
            "  \"gene_name\": \"XYZ\",",
            "  \"brief_summary\": \"XYZ, or 'Domain Containing 2,' is a gene that encodes an enzyme belonging to the superfamily. This enzyme is involved in various biological processes, including lipid metabolism, signal transduction, and possibly the regulation of the androgen receptor. The exact functions of XYZ in airway epithelium and its role in the context of influenza virus infection are subjects of research and not fully characterized as of the current knowledge cutoff date.\",",
            "  \"statements_scores\": {",
            "    \"This gene is specifically associated with the biology of the airway epithelium\": 1,",
            "    \"This gene is specifically associated with the biology of bsl cells within the airway epithelium\": 1,",
            "    \"This gene is specifically associated with the biology of cla cells within airway epithelium\": 1,",
            "    \"This gene is involved in mediating influenza virus egress\": 3,",
            "    \"This gene is involved in mediating the initiation or priming of the adaptive immune response\": 3",
            "  }",
            "}",
            "```",
            "",
            "Please note that the scores are all set to 0 because, as of my last update, there is no strong evidence or widely recognized research specifically linking the XYZ gene to the statements provided about airway epithelium biology or influenza virus interactions. If there is new research or findings, the scores may need to be updated accordingly."
        ]
    },
    "gene34": {
        "datasvc-turbo_1": [
            "```json",
            "{",
            "  \"gene_name\": \"gene34\",",
            "  \"brief_summary\": \"ATP lyase (gene34) is an enzyme that plays a crucial role in cellular energy metabolism by converting citrate to acetyl-CoA and oxaloacetate, thus linking the metabolism of carbohydrates and fats with the production of cholesterol and fatty acids.\",",
            "  \"evidence_scores\": {",
            "    \"This gene is specifically associated with the biology of the airway epithelium\": 1,",
            "    \"This gene is specifically associated with the biology of bsl cells within the airway epithelium\": 1,",
            "    \"This gene is specifically associated with the biology of cla cells within airway epithelium\": 1,",
            "    \"This gene is involved in mediating influenza virus egress\": 3,",
            "    \"This gene is involved in mediating the initiation or priming of the adaptive immune response\": 3",
            "  }",
            "}",
            "```",
            "",
            "Please note that the scores provided for each statement are indicative and based on a hypothetical scenario, as there is not enough information to provide accurate scores. In a real-world scenario, these scores would be based on scientific evidence from research studies and literature on the gene34 gene and its role in airway epithelium and influenza virus interactions. The scores above should not be taken as scientifically validated evidence."
        ]
    }
}
9

@mtoufiq I don't encounter any issues. It just does everything :confused: on my side.

Sorry can't reproduce the error. I'm using jsonlite 1.8.8, rrapply 1.2.6 on R 4.2.1 (windows) .

10

@vedoa sorry, I created a synthetic file but did not run this in R. But, the issue still exists, you might notice 33 columns in the file with some NA values instead of 7 columns. Example below:

dput(finalDF)
structure(list(gene_name = c("gene1", "protein1ac", "metabolite123", 
"compound20", "ABCD", "XYZ", "gene34"), brief_summary = c("gene1 (kinase 1) is a gene that encodes a protein kinase involved in endocytosis, a process by which cells internalize molecules and particles from their environment. The gene1 protein regulates the binding of the AP2 complex to clathrin and the plasma membrane, which is crucial for the formation of clathrin-coated vesicles. This process is important for the internalization of proteins and receptors from the cell surface and their subsequent recycling or degradation.", 
"protein1ac, also known as Protein 1 (xx), is a member of the superfamily of ATP-binding cassette (ABC) transporters. These transporters play a crucial role in the cellular efflux of various substances, including drugs, lipids, and xenobiotics. protein1ac specifically functions as a transporter protein that can pump a variety of drugs out of cells, contributing to multidrug resistance in cancer chemotherapy. It is also involved in the transport of leukotriene C4 and other glutathione conjugates out of cells, which is significant for detoxification processes.", 
"The metabolite123 gene encodes a member of the (ABC) transporter superfamily, known as multidrug resistance 5 (xx). It functions as a transporter for various molecules, including cyclic nucleotides, antiviral drugs, and other substrates, across cellular membranes. metabolite123 plays a role in cellular detoxification and contributes to the chemoresistance of cancer cells.", 
NA, "ABCD (Containing 10) is a Protein Coding gene. The ABCD gene encodes a member of the alpha/beta hydrolase superfamily. This gene has not been characterized thoroughly and its specific functions are still under investigation. It may play a role in metabolic processes, including the metabolism of drugs and other xenobiotics in the body. The expression and regulation of this gene in different tissues, including the airway epithelium, and its involvement in various cellular processes may provide insights into its biological functions.", 
"XYZ, or 'Domain Containing 2,' is a gene that encodes an enzyme belonging to the superfamily. This enzyme is involved in various biological processes, including lipid metabolism, signal transduction, and possibly the regulation of the androgen receptor. The exact functions of XYZ in airway epithelium and its role in the context of influenza virus infection are subjects of research and not fully characterized as of the current knowledge cutoff date.", 
"ATP lyase (gene34) is an enzyme that plays a crucial role in cellular energy metabolism by converting citrate to acetyl-CoA and oxaloacetate, thus linking the metabolism of carbohydrates and fats with the production of cholesterol and fatty acids."
), `evidence_scores.This gene is specifically associated with the biology of the airway epithelium` = c(1L, 
NA, NA, NA, NA, NA, 1L), `evidence_scores.This gene is specifically associated with the biology of bsl cells within the airway epithelium` = c(1L, 
NA, NA, NA, NA, NA, 1L), `evidence_scores.This gene is specifically associated with the biology of cla cells within airway epithelium` = c(1L, 
NA, NA, NA, NA, NA, 1L), `evidence_scores.This gene is involved in mediating influenza virus egress` = c(3L, 
NA, NA, NA, NA, NA, 3L), `evidence_scores.This gene is involved in mediating the initiation or priming of the adaptive immune response` = c(3L, 
NA, NA, NA, NA, NA, 3L), `scores.This gene is specifically associated with the biology of the airway epithelium` = c(NA, 
1L, NA, NA, NA, NA, NA), `scores.This gene is specifically associated with the biology of bsl cells within the airway epithelium` = c(NA, 
1L, NA, NA, NA, NA, NA), `scores.This gene is specifically associated with the biology of cla cells within airway epithelium` = c(NA, 
1L, NA, NA, NA, NA, NA), `scores.This gene is involved in mediating influenza virus egress` = c(NA, 
3L, NA, NA, NA, NA, NA), `scores.This gene is involved in mediating the initiation or priming of the adaptive immune response` = c(NA, 
3L, NA, NA, NA, NA, NA), `associations.This gene is specifically associated with the biology of the airway epithelium` = c(NA, 
NA, 1L, NA, NA, NA, NA), `associations.This gene is specifically associated with the biology of bsl cells within the airway epithelium` = c(NA, 
NA, 1L, NA, NA, NA, NA), `associations.This gene is specifically associated with the biology of cla cells within airway epithelium` = c(NA, 
NA, 1L, NA, NA, NA, NA), `associations.This gene is involved in mediating influenza virus egress` = c(NA, 
NA, 3L, NA, NA, NA, NA), `associations.This gene is involved in mediating the initiation or priming of the adaptive immune response` = c(NA, 
NA, 3L, NA, NA, NA, NA), summary = c(NA, NA, NA, "compound20, also known as ATP 9, is a gene that encodes for the protein. This protein is part of the ATP-sensitive potassium (KATP) channel complex, which plays a key role in coupling metabolic status to cellular excitability in various tissues, including cardiac and skeletal muscle, neurons, and pancreatic beta cells. The protein encoded by this gene is involved in the regulation of insulin secretion, myocardial contractility, and vascular tone. Mutations in compound20 can cause dilated cardiomyopathy and are associated with Cantu syndrome, a rare disorder characterized by hypertrichosis, osteochondrodysplasia, and cardiomegaly.", 
NA, NA, NA), `statements.This gene is specifically associated with the biology of the airway epithelium` = c(NA, 
NA, NA, 1L, NA, NA, NA), `statements.This gene is specifically associated with the biology of bsl cells within the airway epithelium` = c(NA, 
NA, NA, 1L, NA, NA, NA), `statements.This gene is specifically associated with the biology of cla cells within airway epithelium` = c(NA, 
NA, NA, 1L, NA, NA, NA), `statements.This gene is involved in mediating influenza virus egress` = c(NA, 
NA, NA, 3L, NA, NA, NA), `statements.This gene is involved in mediating the initiation or priming of the adaptive immune response` = c(NA, 
NA, NA, 3L, NA, NA, NA), `gene_associations.This gene is specifically associated with the biology of the airway epithelium` = c(NA, 
NA, NA, NA, 1L, NA, NA), `gene_associations.This gene is specifically associated with the biology of bsl cells within the airway epithelium` = c(NA, 
NA, NA, NA, 1L, NA, NA), `gene_associations.This gene is specifically associated with the biology of cla cells within airway epithelium` = c(NA, 
NA, NA, NA, 1L, NA, NA), `gene_associations.This gene is involved in mediating influenza virus egress` = c(NA, 
NA, NA, NA, 3L, NA, NA), `gene_associations.This gene is involved in mediating the initiation or priming of the adaptive immune response` = c(NA, 
NA, NA, NA, 3L, NA, NA), `statements_scores.This gene is specifically associated with the biology of the airway epithelium` = c(NA, 
NA, NA, NA, NA, 1L, NA), `statements_scores.This gene is specifically associated with the biology of bsl cells within the airway epithelium` = c(NA, 
NA, NA, NA, NA, 1L, NA), `statements_scores.This gene is specifically associated with the biology of cla cells within airway epithelium` = c(NA, 
NA, NA, NA, NA, 1L, NA), `statements_scores.This gene is involved in mediating influenza virus egress` = c(NA, 
NA, NA, NA, NA, 3L, NA), `statements_scores.This gene is involved in mediating the initiation or priming of the adaptive immune response` = c(NA, 
NA, NA, NA, NA, 3L, NA)), row.names = c(NA, 7L), class = "data.frame")
11

@mtoufiq

Now i get your request that the columns are number from 1 - 5 from the original message. Try this

# install packages if you don't have them
# install.packages(c("jsonlite","rrapply"))

# Step 1
jsonToList <- jsonlite::fromJSON(txt = "example.json")

# Step 2
extractJson <- lapply(jsonToList, function(x){
  # Step 2a
  markBeginEnd <- which(x[[1]] %in% c("```json", "```"))
  # Step 2b
  getJson <- x[[1]][(markBeginEnd[1]+1):(markBeginEnd[2]-1)]
  # Step 2c
  tempdf <- jsonlite::fromJSON(paste0(getJson, collapse = "\n"))
  names(tempdf) <- c("gene_name", "brief_summary", "scores")
  tempdf
})
# Step 3
finalDF <- rrapply::rrapply(object = extractJson, how = "bind")

You should only have 7 columns now:

structure(list(gene_name = c("gene1", "protein1ac", "metabolite123", 
"compound20", "ABCD", "XYZ", "gene34"), brief_summary = c("gene1 (kinase 1) is a gene that encodes a protein kinase involved in endocytosis, a process by which cells internalize molecules and particles from their environment. The gene1 protein regulates the binding of the AP2 complex to clathrin and the plasma membrane, which is crucial for the formation of clathrin-coated vesicles. This process is important for the internalization of proteins and receptors from the cell surface and their subsequent recycling or degradation.", 
"protein1ac, also known as Protein 1 (xx), is a member of the superfamily of ATP-binding cassette (ABC) transporters. These transporters play a crucial role in the cellular efflux of various substances, including drugs, lipids, and xenobiotics. protein1ac specifically functions as a transporter protein that can pump a variety of drugs out of cells, contributing to multidrug resistance in cancer chemotherapy. It is also involved in the transport of leukotriene C4 and other glutathione conjugates out of cells, which is significant for detoxification processes.", 
"The metabolite123 gene encodes a member of the (ABC) transporter superfamily, known as multidrug resistance 5 (xx). It functions as a transporter for various molecules, including cyclic nucleotides, antiviral drugs, and other substrates, across cellular membranes. metabolite123 plays a role in cellular detoxification and contributes to the chemoresistance of cancer cells.", 
"compound20, also known as ATP 9, is a gene that encodes for the protein. This protein is part of the ATP-sensitive potassium (KATP) channel complex, which plays a key role in coupling metabolic status to cellular excitability in various tissues, including cardiac and skeletal muscle, neurons, and pancreatic beta cells. The protein encoded by this gene is involved in the regulation of insulin secretion, myocardial contractility, and vascular tone. Mutations in compound20 can cause dilated cardiomyopathy and are associated with Cantu syndrome, a rare disorder characterized by hypertrichosis, osteochondrodysplasia, and cardiomegaly.", 
"ABCD (Containing 10) is a Protein Coding gene. The ABCD gene encodes a member of the alpha/beta hydrolase superfamily. This gene has not been characterized thoroughly and its specific functions are still under investigation. It may play a role in metabolic processes, including the metabolism of drugs and other xenobiotics in the body. The expression and regulation of this gene in different tissues, including the airway epithelium, and its involvement in various cellular processes may provide insights into its biological functions.", 
"XYZ, or 'Domain Containing 2,' is a gene that encodes an enzyme belonging to the superfamily. This enzyme is involved in various biological processes, including lipid metabolism, signal transduction, and possibly the regulation of the androgen receptor. The exact functions of XYZ in airway epithelium and its role in the context of influenza virus infection are subjects of research and not fully characterized as of the current knowledge cutoff date.", 
"ATP lyase (gene34) is an enzyme that plays a crucial role in cellular energy metabolism by converting citrate to acetyl-CoA and oxaloacetate, thus linking the metabolism of carbohydrates and fats with the production of cholesterol and fatty acids."
), `scores.This gene is specifically associated with the biology of the airway epithelium` = c(1L, 
1L, 1L, 1L, 1L, 1L, 1L), `scores.This gene is specifically associated with the biology of bsl cells within the airway epithelium` = c(1L, 
1L, 1L, 1L, 1L, 1L, 1L), `scores.This gene is specifically associated with the biology of cla cells within airway epithelium` = c(1L, 
1L, 1L, 1L, 1L, 1L, 1L), `scores.This gene is involved in mediating influenza virus egress` = c(3L, 
3L, 3L, 3L, 3L, 3L, 3L), `scores.This gene is involved in mediating the initiation or priming of the adaptive immune response` = c(3L, 
3L, 3L, 3L, 3L, 3L, 3L)), row.names = c(NA, 7L), class = "data.frame")
12

Perfect, thank you very much @vedoa

13

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