GeneCard_Symbol_Details: GET DETAILS OF GENE SYMBOLS
In GeneBook: Multi-Types Gene ID Converting/Annotating

Description Usage Arguments Details Value Examples

View source: R/GeneCard_Search_System_copy.r

Function to get the detailed information of the gene interested

1	GeneCard_Symbol_Details(x)

`x`	R string of converted gene by function GeneCard_ID_Convert

This function works only for the genes with consistent symbols. Please use function GeneCard_ID_Convert first and then apply function GeneCard_Symbol_Details to get the detailed information of the gene.

Value return is a dataframe with 7 columns describing the properties of genes

1
2
3

## One Gene Details
x = "TRBV14"
GeneCard_Symbol_Details(x)

      gene           type                      description\n1 "TRBV14" Protein Coding T Cell Receptor Beta Variable 14\n                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 summary_uniport\n1 UniProtKB/Swiss-Prot for TRBV14 Gene TVB14_HUMAN,A0A5B0 V region of the variable domain of T cell receptor (TR) beta chain that participates in the antigen recognition (PubMed:24600447). Alpha-beta T cell receptors are antigen specific receptors which are essential to the immune response and are present on the cell surface of T lymphocytes. Recognize peptide-major histocompatibility (MH) (pMH) complexes that are displayed by antigen presenting cells (APC), a prerequisite for efficient T cell adaptive immunity against pathogens (PubMed:25493333). Binding of alpha-beta TR to pMH complex initiates TR-CD3 clustering on the cell surface and intracellular activation of LCK that phosphorylates the ITAM motifs of CD3G, CD3D, CD3E and CD247 enabling the recruitment of ZAP70. In turn ZAP70 phosphorylates LAT, which recruits numerous signaling molecules to form the LAT signalosome. The LAT signalosome propagates signal branching to three major signaling pathways, the calcium, the mitogen-activated protein kinase (MAPK) kinase and the nuclear factor NF-kappa-B (NF-kB) pathways, leading to the mobilization of transcription factors that are critical for gene expression and essential for T cell growth and differentiation (PubMed:23524462). The T cell repertoire is generated in the thymus, by V-(D)-J rearrangement. This repertoire is then shaped by intrathymic selection events to generate a peripheral T cell pool of self-MH restricted, non-autoaggressive T cells. Post-thymic interaction of alpha-beta TR with the pMH complexes shapes TR structural and functional avidity (PubMed:15040585).\n  summary_entrez\n1           <NA>\n                                                                                                   summary_genecard\n1 TRBV14 (T Cell Receptor Beta Variable 14) is a Protein Coding gene. An important paralog of this gene is TRBV7-2.\n  summary_Tocris summary_CIViC\n1           <NA>          <NA>\nWarning messages:\n1: In dplyr::filter(genecard_description_summary, genecard_description_summary$gene ==  :\n  input string \'LYST (Lysosomal Trafficking Regulator) is a Protein Coding gene. Diseases associated with LYST include Chediak-Higashi Syndrome and Attenuated Ch\xe9diak-Higashi Syndrome. Gene Ontology (GO) annotations related to this gene include binding and phospholipid binding. An important paralog of this gene is NBEAL2.\' cannot be translated to UTF-8, is it valid in \'ANSI_X3.4-1968\'?\n2: In dplyr::filter(genecard_description_summary, genecard_description_summary$gene ==  :\n  input string \'SPRED1 (Sprouty Related EVH1 Domain Containing 1) is a Protein Coding gene. Diseases associated with SPRED1 include Legius Syndrome and Autosomal Dominant Caf\xe9 Au Lait Spots. Among its related pathways are RET signaling and Developmental Biology. Gene Ontology (GO) annotations related to this gene include protein kinase binding and protein serine/threonine kinase inhibitor activity. An important paralog of this gene is SPRED2.\' cannot be translated to UTF-8, is it valid in \'ANSI_X3.4-1968\'?\n3: In dplyr::filter(genecard_description_summary, genecard_description_summary$gene ==  :\n  input string \'SPRED2 (Sprouty Related EVH1 Domain Containing 2) is a Protein Coding gene. Diseases associated with SPRED2 include Autosomal Dominant Caf\xe9 Au Lait Spots and Legius Syndrome. Among its related pathways are RET signaling and Developmental Biology. Gene Ontology (GO) annotations related to this gene include protein kinase binding and stem cell factor receptor binding. An important paralog of this gene is SPRED1.\' cannot be translated to UTF-8, is it valid in \'ANSI_X3.4-1968\'?\n4: In dplyr::filter(genecard_description_summary, genecard_description_summary$gene ==  :\n  input string \'TNFSF13B (TNF Superfamily Member 13b) is a Protein Coding gene. Diseases associated with TNFSF13B include Sialadenitis and Primary Sj\xf6gren Syndrome. Among its related pathways are Akt Signaling and Rheumatoid arthritis. Gene Ontology (GO) annotations related to this gene include signaling receptor binding and tumor necrosis factor receptor binding. An important paralog of this gene is TNFSF12-TNFSF13.\' cannot be translated to UTF-8, is it valid in \'ANSI_X3.4-1968\'?\n5: In dplyr::filter(genecard_description_summary, genecard_description_summary$gene ==  :\n  input string \'TROVE2 (TROVE Domain Family Member 2) is a Protein Coding gene. Diseases associated with TROVE2 include Primary Sj\xf6gren Syndrome and Sjogren Syndrome. Among its related pathways are Activated PKN1 stimulates transcription of AR (androgen receptor) regulated genes KLK2 and KLK3. Gene Ontology (GO) annotations related to this gene include RNA binding and U2 snRNA binding.\' cannot be translated to UTF-8, is it valid in \'ANSI_X3.4-1968\'?\n6: In dplyr::filter(genecard_description_summary, genecard_description_summary$gene ==  :\n  input string \'ERCC2 functions as a DNA repair gene involved in separating the double helix via 5\x92-3\x92 helicase activity. It forms a part of the transcription factor II Human (TFIIH) complex and is ATP-dependent. The TFIIH complex is known to be involved in the nucleotide excision repair pathway (NER) which can repair DNA damage caused by chemotherapeutic treatment and basal transcription. ERCC2 variants have been observed in a variety of cancers. A number of studies have suggested ERCC2 variants can act as biomarkers to predict response to neoadjuvant treatment, and cancer prognosis. Additionally the Lys751Gln polymorphism has been observed to increase risk in a number of cancer types; however, results have been conflicting.\' cannot be translated to UTF-8, is it valid in \'ANSI_X3.4-1968\'?\n7: In dplyr::filter(genecard_description_summary, genecard_description_summary$gene ==  :\n  input string \'FGFR1 is a member of the Fibroblast Growth Factor family, comprising of 4 receptors and 18 Ligands. FGFR1 signalling downstream functions mainly via PI3K and MAPK pathways (Turner et. al.). Several ways of involvement of FGFR1 in cancer have been proposed: auto- and paracrine activation, amplification and overexpression (Marshall et. al, Weiss et. al., Cheng et. al.). Especially amplification of FGFR1 in lung cancer is an emerging treatment target with clinical studies currently ongoing (e.g. NCT01004224). However, FGFR1 amplification does not always correlate with protein expression and predictive biomarkers still remain to be defined in clinic (von M\xe4ssenhausen et. al.). Mutation of FGFR1 seems to be less common, but has been described in glioblastoma, pilocytic astrocytomas and Ewing\'s sarcoma (Rand et. al., Jones et. al., Agelopoulos et. al.).\' cannot be translated to UTF-8, is it valid in \'ANSI_X3.4-1968\'?\nsh: 1: rm: Permission denied\n