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medium_hidden_intermediate_00218 | In a study of cervical adenocarcinoma cell lines (GSE122967), Cardiovirus A infection was found to downregulate a specific gene located at the site of double-strand breaks. This gene exhibited a log2 fold change of -1.019 and an adjusted p-value of 0.0137. Which protein is encoded by this gene? | SMC5-SMC6 complex localization factor protein 2 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00218","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of cervical adenocarcinoma cell lines (GSE122967), Cardiovirus A infection was found to downregulate a specific g... | |
medium_hidden_intermediate_00220 | In the context of Severe acute respiratory syndrome-related coronavirus infection, two genes are known to be upregulated by the virus and to interact with RELA. One of these genes exhibits a log2 fold change of approximately 1.526 and an adjusted p-value of 0.03134 in bronchial epithelial cells. Which protein is encode... | WD repeat and SOCS box-containing protein 2 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00220","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In the context of Severe acute respiratory syndrome-related coronavirus infection, two genes are known to be upregulated by ... | |
medium_hidden_intermediate_00221 | In a study of umbilical vein endothelial cells (GSE119608), a gene located in the Golgi membrane was found to be downregulated by Human gammaherpesvirus 8. This specific gene exhibited a log2 fold change of approximately -1.346 and an adjusted p-value of 0.006958. Which protein is encoded by this gene? | Golgin subfamily A member 3 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00221","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of umbilical vein endothelial cells (GSE119608), a gene located in the Golgi membrane was found to be downregulat... | |
medium_hidden_intermediate_00223 | Pegivirus C downregulates a gene that is involved in phospholipid transfer to the membrane. Evidence for this gene in peripheral blood mononuclear cells (study GSE131504) reports a log2 fold change of approximately -1.678 and an adjusted p-value of 0.003157. Which protein is encoded by this gene? | Oxysterol-binding protein-related protein 11 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00223","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Pegivirus C downregulates a gene that is involved in phospholipid transfer to the membrane. Evidence for this gene in periph... | |
medium_hidden_intermediate_00224 | A gene serves as a marker for classical monocytes and is enriched in neutrophils. Expression data for this gene indicates a mean expression of 370.30 TPM, a z-score of 2.53, and a fold enrichment of 16.69. Which disease is associated with this gene as a biomarker? | psoriasis | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00224","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"A gene serves as a marker for classical monocytes and is enriched in neutrophils. Expression data for this gene indicates a ... | |
medium_hidden_intermediate_00225 | A gene is downregulated by Primate bocaparvovirus 1 and participates in Signaling by Receptor Tyrosine Kinases. Experimental evidence for this gene reports a log2 fold change of -1.108 and an adjusted p-value of 0.03331. Which disease is associated with this gene as a biomarker? | thyrotoxicosis | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00225","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"A gene is downregulated by Primate bocaparvovirus 1 and participates in Signaling by Receptor Tyrosine Kinases. Experimental... | |
medium_hidden_intermediate_00226 | Two distinct drugs are known to interact with both Cyclosporine and Ivosidenib. One of these drugs was evaluated in a study demonstrating its ability to recover the observed effects of CYP3A4 inhibitors (ketoconazole and cyclosporine) and the CYP3A4 inducer rifampicin, as well as to predict interactions with S-warfarin... | pulmonary arterial hypertension | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00226","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two distinct drugs are known to interact with both Cyclosporine and Ivosidenib. One of these drugs was evaluated in a study ... | |
medium_hidden_intermediate_00227 | In a study of cervical adenocarcinoma cell lines (GSE11238), a gene upregulated by Vaccinia virus and participating in Complex IV assembly was found to have a log2 fold change of approximately 1.078 and an adjusted p-value of 0.005178. Which biological process is this specific gene involved in? | negative regulation of neurotransmitter secretion | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00227","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of cervical adenocarcinoma cell lines (GSE11238), a gene upregulated by Vaccinia virus and participating in Compl... | |
medium_hidden_intermediate_00228 | In a study of macrophages (GSE108897), a gene is identified as being downregulated by Human immunodeficiency virus 1 and serving as a biomarker for obesity disorder. This specific gene exhibits a log2 fold change of -1.957 and an adjusted p-value of 0.02163. Which protein is encoded by this gene? | Selenoprotein P | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00228","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of macrophages (GSE108897), a gene is identified as being downregulated by Human immunodeficiency virus 1 and ser... | |
medium_hidden_intermediate_00230 | Human betaherpesvirus 5 is reported to downregulate a gene that subsequently interacts with HIST1H4A. In a specific study involving foreskin fibroblast cell lines, this intermediate gene exhibited a log2 fold change of approximately -1.55 and an adjusted p-value of approximately 0.049. Which protein is encoded by this ... | Anaphase-promoting complex subunit 7 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00230","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Human betaherpesvirus 5 is reported to downregulate a gene that subsequently interacts with HIST1H4A. In a specific study in... | |
medium_hidden_intermediate_00231 | Two genes are structurally linked to Influenza A virus via an 'upregulates' relationship and to non-classical monocytes via an 'enriched in' relationship. One of these genes has been reported in a study (GSE106279) with a log2 fold change of 1.054 and an adjusted p-value of 0.02595. Which disease is associated with thi... | leukemia | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00231","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are structurally linked to Influenza A virus via an 'upregulates' relationship and to non-classical monocytes via ... | |
medium_hidden_intermediate_00233 | Zaire ebolavirus upregulates a gene that is involved in the defense response to Gram-positive bacteria. Evidence for one such gene reports a log2 fold change of 1.143 and an adjusted p-value of 0.04093. Which disease is associated with this gene as a biomarker? | hepatocellular carcinoma | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00233","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Zaire ebolavirus upregulates a gene that is involved in the defense response to Gram-positive bacteria. Evidence for one suc... | |
medium_hidden_intermediate_00234 | Vaccinia virus upregulates a gene that enables transcription coactivator activity. Evidence for this gene reports a log2 fold change of 1.285 and an adjusted p-value of 0.0006013. Which cell type is this gene enriched in? | plasmacytoid dendritic cell | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00234","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Vaccinia virus upregulates a gene that enables transcription coactivator activity. Evidence for this gene reports a log2 fol... | |
medium_hidden_intermediate_00235 | In a study of cervical adenocarcinoma cells (GSE11238), Vaccinia virus infection was found to upregulate certain genes involved in vesicle-mediated transport. One such gene exhibited a log2 fold change of 1.571 and an adjusted p-value of 1.568e-05. Which protein is encoded by this specific gene? | Synaptotagmin-11 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00235","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of cervical adenocarcinoma cells (GSE11238), Vaccinia virus infection was found to upregulate certain genes invol... | |
medium_hidden_intermediate_00238 | Two genes are downregulated by Severe acute respiratory syndrome-related coronavirus and interact with CANX. One of these genes exhibits a log2 fold change of approximately -1.17 and an adjusted p-value of approximately 0.0067 in a specific study. Which cellular component is this gene located in? | membrane | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00238","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are downregulated by Severe acute respiratory syndrome-related coronavirus and interact with CANX. One of these ge... | |
medium_hidden_intermediate_00240 | Human betaherpesvirus 5 is reported to upregulate a gene that is involved in animal organ morphogenesis. Experimental evidence for this specific gene shows a log2 fold change of approximately 2.15 and an adjusted p-value of 2.3e-07. Which protein is encoded by this gene? | Transmembrane protein 176B | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00240","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Human betaherpesvirus 5 is reported to upregulate a gene that is involved in animal organ morphogenesis. Experimental eviden... | |
medium_hidden_intermediate_00241 | Human immunodeficiency virus 1 downregulates a gene that interacts with RNF149. In a study of macrophages (GSE108897), one such gene exhibited a log2 fold change of -1.058 and an adjusted p-value of 0.02175. Which protein is encoded by this gene? | Ankyrin repeat domain-containing protein 46 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00241","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Human immunodeficiency virus 1 downregulates a gene that interacts with RNF149. In a study of macrophages (GSE108897), one s... | |
medium_hidden_intermediate_00243 | Pegivirus C is reported to downregulate a specific gene that is located in the centriole. Experimental data for this gene in peripheral blood mononuclear cells (from study GSE131504) show a log2 fold change of -2.166 and an adjusted p-value of 0.04666. Which biological process is this gene involved in? | spermatid development | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00243","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Pegivirus C is reported to downregulate a specific gene that is located in the centriole. Experimental data for this gene in... | |
medium_hidden_intermediate_00244 | Zika virus is reported to downregulate a specific gene, which is in turn enriched in naive CD8+ T cells. Experimental data for this gene in glioma stem cells indicates a log2 fold change of approximately -2.51 and an adjusted p-value of 0.048. Which protein is encoded by this gene? | SEC14-like protein 2 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00244","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Zika virus is reported to downregulate a specific gene, which is in turn enriched in naive CD8+ T cells. Experimental data f... | |
medium_hidden_intermediate_00245 | PSMB4 is involved in a biological process that is a subtype of T-helper cell differentiation. Evidence for one such process describes it as the process in which a relatively unspecialized T cell acquires the specialized features of a T-helper 1 (Th1) cell, characterized by a CD4-positive, alpha-beta T cell phenotype, T... | T-helper 1 type immune response | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00245","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"PSMB4 is involved in a biological process that is a subtype of T-helper cell differentiation. Evidence for one such process ... | |
medium_hidden_intermediate_00246 | Severe acute respiratory syndrome-related coronavirus downregulates a gene that is located in the extracellular matrix. Evidence for one such gene reports a log2 fold change of -2.078 and an adjusted p-value of 0.01738. Which disease is associated with that gene? | glioma | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00246","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Severe acute respiratory syndrome-related coronavirus downregulates a gene that is located in the extracellular matrix. Evid... | |
medium_hidden_intermediate_00247 | Zaire ebolavirus upregulates a gene that participates in metabolism. Evidence for this gene in retinal pigment epithelium cells (study GSE100839) shows a log2 fold change of 2.496 and an adjusted p-value of 2.485e-09. Which disease is associated with this gene through genomic alterations? | pneumocystosis | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00247","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Zaire ebolavirus upregulates a gene that participates in metabolism. Evidence for this gene in retinal pigment epithelium ce... | |
medium_hidden_intermediate_00248 | A gene is downregulated by Human immunodeficiency virus 1 and serves as a biomarker for lung carcinoma. Evidence for this gene in macrophages (from study GSE108897) reports a log2 fold change of -1.896 and an adjusted p-value of 0.008286. Which disease is connected to this gene through genomic alterations? | gastric cancer | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00248","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"A gene is downregulated by Human immunodeficiency virus 1 and serves as a biomarker for lung carcinoma. Evidence for this ge... | |
medium_hidden_intermediate_00249 | Trovafloxacin and Thiotepa are linked via a common intermediate drug that interacts with both. Clinical evidence indicates that Grade 4 haematological toxicity was more frequent in patients treated with a regimen consisting of methotrexate, the intermediate drug, rituximab, and thiotepa. Which disease is the intermedia... | blast phase chronic myelogenous leukemia, BCR-ABL1 positive | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00249","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Trovafloxacin and Thiotepa are linked via a common intermediate drug that interacts with both. Clinical evidence indicates t... | |
medium_hidden_intermediate_00250 | A gene is downregulated by Severe acute respiratory syndrome-related coronavirus and participates in the metabolism of RNA. Experimental data for this gene reports a log2 fold change of -1.351 and an adjusted p-value of 0.04281. Which protein is encoded by this gene? | mRNA-decapping enzyme 1A | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00250","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"A gene is downregulated by Severe acute respiratory syndrome-related coronavirus and participates in the metabolism of RNA. ... | |
medium_hidden_intermediate_00251 | Cardiovirus A is reported to downregulate a gene that is involved in the negative regulation of DNA-templated transcription. Experimental data from a cervical adenocarcinoma cell line (study GSE122967) indicates that this specific gene has a log2 fold change of approximately -1.65 and an adjusted p-value of 0.0497. Whi... | Zinc finger protein 658 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00251","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Cardiovirus A is reported to downregulate a gene that is involved in the negative regulation of DNA-templated transcription.... | |
medium_hidden_intermediate_00252 | A gene is downregulated by Severe acute respiratory syndrome-related coronavirus and is involved in protein phosphorylation. Evidence for this gene reports a log2 fold change of -1.322 and an adjusted p-value of 0.007343. Which cellular component is this gene located in? | mitochondrial outer membrane | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00252","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"A gene is downregulated by Severe acute respiratory syndrome-related coronavirus and is involved in protein phosphorylation.... | |
medium_hidden_intermediate_00253 | Hepacivirus C upregulates a specific histone variant that participates in DNA methylation. Experimental data for this variant shows a log2 fold change of approximately 1.08 and an adjusted p-value of 0.0027. Which disease is associated with this histone variant as a biomarker? | glioma | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00253","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Hepacivirus C upregulates a specific histone variant that participates in DNA methylation. Experimental data for this varian... | |
medium_hidden_intermediate_00254 | A gene is downregulated by Severe acute respiratory syndrome-related coronavirus and serves as a biomarker for hepatocellular carcinoma. Evidence for this gene reports a log2 fold change of -1.917 and an adjusted p-value of 0.04351. Which molecular function is enabled by this gene? | fibroblast growth factor receptor binding | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00254","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"A gene is downregulated by Severe acute respiratory syndrome-related coronavirus and serves as a biomarker for hepatocellula... | |
medium_hidden_intermediate_00257 | A gene is downregulated by Primate bocaparvovirus 1 and is associated with carcinoma. Experimental data for this gene in vascular endothelial cells (study GSE16354) reports a log2 fold change of approximately -1.453 and an adjusted p-value of 0.01538. Which disease is linked to this gene through genomic alterations? | cerebral palsy | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00257","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"A gene is downregulated by Primate bocaparvovirus 1 and is associated with carcinoma. Experimental data for this gene in vas... | |
medium_hidden_intermediate_00260 | Two biological processes are structurally positioned between 'positive regulation of acetylcholine secretion, neurotransmission' and 'positive regulation of synaptic transmission' via 'is a' relationships. One of these processes is defined by the evidence: 'Any process that activates or increases the frequency, rate or... | neurotransmitter secretion | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00260","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two biological processes are structurally positioned between 'positive regulation of acetylcholine secretion, neurotransmiss... | |
medium_hidden_intermediate_00261 | Severe acute respiratory syndrome-related coronavirus upregulates a specific gene, which in turn binds to JAK1. Experimental data for this gene indicates a log2 fold change of 6.284 and an adjusted p-value of 7.603e-05. Which disease is therapeutically associated with this gene? | prostate cancer | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00261","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Severe acute respiratory syndrome-related coronavirus upregulates a specific gene, which in turn binds to JAK1. Experimental... | |
medium_hidden_intermediate_00263 | Human immunodeficiency virus 1 upregulates a gene that participates in the Toll Like Receptor 9 (TLR9) Cascade. Evidence for this gene reports a log2 fold change of 1.887 and an adjusted p-value of 0.00107. Which protein is encoded by this gene? | Ribosomal protein S6 kinase alpha-2 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00263","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Human immunodeficiency virus 1 upregulates a gene that participates in the Toll Like Receptor 9 (TLR9) Cascade. Evidence for... | |
medium_hidden_intermediate_00264 | Severe acute respiratory syndrome-related coronavirus upregulates a gene that is involved in the positive regulation of cell adhesion. Evidence for one such gene reports a log2 fold change of 2.900 and an adjusted p-value of 5.224e-16. Which protein is encoded by that gene? | Tumor necrosis factor ligand superfamily member 18 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00264","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Severe acute respiratory syndrome-related coronavirus upregulates a gene that is involved in the positive regulation of cell... | |
medium_hidden_intermediate_00265 | EHD1 interacts with a specific protein that enables protein binding. Experimental evidence from two-hybrid analyses indicates that EHD1 and this protein interact with each other. Which cell type is this protein enriched in? | memory B cell | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00265","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"EHD1 interacts with a specific protein that enables protein binding. Experimental evidence from two-hybrid analyses indicate... | |
medium_hidden_intermediate_00267 | Pegivirus C is reported to downregulate a specific gene, which is subsequently involved in the positive regulation of DNA-templated transcription. Experimental data for this gene, derived from peripheral blood mononuclear cells in study GSE131504, indicates a log2 fold change of approximately -1.905 and an adjusted p-v... | cerebellar ataxia | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00267","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Pegivirus C is reported to downregulate a specific gene, which is subsequently involved in the positive regulation of DNA-te... | |
medium_hidden_intermediate_00268 | Severe acute respiratory syndrome-related coronavirus upregulates a gene that participates in the synthesis of substrates in N-glycan biosynthesis. Evidence for one such gene reports a log2 fold change of 3.601 and an adjusted p-value of 0.03845. Which protein is encoded by that gene? | Alpha-2,8-sialyltransferase 8E | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00268","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Severe acute respiratory syndrome-related coronavirus upregulates a gene that participates in the synthesis of substrates in... | |
medium_hidden_intermediate_00269 | Influenza A virus downregulates a gene that participates in the Immune System. Evidence for one such gene reports a log2 fold change of -1.328 and an adjusted p-value of 3.01e-05. Which cell type is this gene enriched in? | basophil | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00269","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Influenza A virus downregulates a gene that participates in the Immune System. Evidence for one such gene reports a log2 fol... | |
medium_hidden_intermediate_00270 | Two biological processes serve as intermediate steps in the hierarchy connecting 'positive regulation of cerebellar neuron development' to 'positive regulation of cell differentiation' via 'is a' relationships. One of these intermediate processes is defined by the evidence: 'Any process that activates or increases the ... | neuron differentiation | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00270","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two biological processes serve as intermediate steps in the hierarchy connecting 'positive regulation of cerebellar neuron d... | |
medium_hidden_intermediate_00271 | In a study of non-small cell lung adenocarcinoma cell lines (GSE147507), Influenza A virus infection was found to upregulate a specific gene, which in turn interacts with SQSTM1. This gene exhibited a log2 fold change of approximately 1.46 and an adjusted p-value of 7.565e-09. Which protein is encoded by this upregulat... | Protein cereblon | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00271","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of non-small cell lung adenocarcinoma cell lines (GSE147507), Influenza A virus infection was found to upregulate... | |
medium_hidden_intermediate_00272 | Two distinct biological processes are linked to 'superior olivary nucleus morphogenesis' via a 'part of' relationship and subsequently connect to 'pons development' via another 'part of' relationship. One of these intermediate processes is defined by the evidence: 'The process in which the anatomical structure of the s... | neural nucleus development | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00272","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two distinct biological processes are linked to 'superior olivary nucleus morphogenesis' via a 'part of' relationship and su... | |
medium_hidden_intermediate_00273 | In a study of Human alphaherpesvirus 1 infection in a monocytic leukemia cell line, a specific gene is upregulated by the virus and is known to bind RNF7. This gene exhibits a log2 fold change of approximately 1.375 and an adjusted p-value of 0.0432. What molecular function is enabled by this gene? | protein binding | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00273","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of Human alphaherpesvirus 1 infection in a monocytic leukemia cell line, a specific gene is upregulated by the vi... | |
medium_hidden_intermediate_00274 | Human betaherpesvirus 5 is reported to downregulate a specific gene, which is subsequently found to be enriched in Regulatory T (Treg) cells. Experimental data for this gene in foreskin fibroblast cell lines indicates a log2 fold change of -1.684 and an adjusted p-value of 0.009763. Which cellular component is this gen... | trans-Golgi network | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00274","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Human betaherpesvirus 5 is reported to downregulate a specific gene, which is subsequently found to be enriched in Regulator... | |
medium_hidden_intermediate_00275 | Zika virus downregulates a gene that is involved in DNA repair. In a study of glioma stem cells (GSE114907), one such gene exhibited a log2 fold change of -1.923 and an adjusted p-value of 0.02633. Which cellular component is this gene located in? | nuclear replication fork | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00275","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Zika virus downregulates a gene that is involved in DNA repair. In a study of glioma stem cells (GSE114907), one such gene e... | |
medium_hidden_intermediate_00276 | Zaire ebolavirus infection leads to the upregulation of certain genes whose protein products are located in the plasma membrane. In a study of retinal pigment epithelium cells (GSE100839), one such upregulated gene exhibited a log2 fold change of 1.852 and an adjusted p-value of 0.0124. Which protein is encoded by this... | Rhophilin-2 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00276","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Zaire ebolavirus infection leads to the upregulation of certain genes whose protein products are located in the plasma membr... | |
medium_hidden_intermediate_00277 | The pretectal region overlaps with two distinct anatomical structures, both of which are classified as structures with developmental contributions from the neural crest. One of these structures is described as a nuclear complex located between the dorsal thalamus and the optic tectum, whose nuclei receive afferents pri... | presumptive midbrain | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00277","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"The pretectal region overlaps with two distinct anatomical structures, both of which are classified as structures with devel... | |
medium_hidden_intermediate_00281 | Measles morbillivirus upregulates a gene that is involved in the regulation of cell division. Transcriptomic evidence for this specific gene reports a log2 fold change of approximately 1.47 and an adjusted p-value of 0.00145. Which protein is encoded by this gene? | ZZ-type zinc finger-containing protein 3 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00281","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Measles morbillivirus upregulates a gene that is involved in the regulation of cell division. Transcriptomic evidence for th... | |
medium_hidden_intermediate_00282 | A gene is upregulated by Human immunodeficiency virus 1 and is involved in the regulation of transcription by RNA polymerase II. Evidence for this gene reports a log2 fold change of 1.779 and an adjusted p-value of 0.01342. Which disease is connected to this gene through genomic alterations? | epilepsy | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00282","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"A gene is upregulated by Human immunodeficiency virus 1 and is involved in the regulation of transcription by RNA polymerase... | |
medium_hidden_intermediate_00284 | Zika virus downregulates a gene that enables ATP binding. In glioma stem cells, this gene exhibits a log2 fold change of -1.149 and an adjusted p-value of 0.0379. Which protein is encoded by this gene? | Pantothenate kinase 3 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00284","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Zika virus downregulates a gene that enables ATP binding. In glioma stem cells, this gene exhibits a log2 fold change of -1.... | |
medium_hidden_intermediate_00287 | A gene is upregulated by Severe acute respiratory syndrome-related coronavirus and participates in Ub-specific processing proteases. Evidence for this gene reports a log2 fold change of 1.064 and an adjusted p-value of 0.02146. Which disease is associated with this gene? | colitis | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00287","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"A gene is upregulated by Severe acute respiratory syndrome-related coronavirus and participates in Ub-specific processing pr... | |
medium_hidden_intermediate_00289 | Zika virus downregulates a gene that is located in chromatin. In a study of glioma stem cells (GSE114907), one such gene exhibits a log2 fold change of -2.154 and an adjusted p-value of 0.00642. Which protein is encoded by this gene? | Shieldin complex subunit 2 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00289","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Zika virus downregulates a gene that is located in chromatin. In a study of glioma stem cells (GSE114907), one such gene exh... | |
medium_hidden_intermediate_00290 | In a study of choroid plexus epithelium (GSE157852), Severe acute respiratory syndrome-related coronavirus was found to downregulate a gene that participates in the activation of GABAB receptors. One such gene exhibited a log2 fold change of -1.123 and an adjusted p-value of 0.0004409. Which protein is encoded by this ... | Adenylate cyclase type 2 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00290","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of choroid plexus epithelium (GSE157852), Severe acute respiratory syndrome-related coronavirus was found to down... | |
medium_hidden_intermediate_00292 | Human alphaherpesvirus 1 upregulates a gene that is involved in double-strand break repair via homologous recombination. In a study of monocytic leukemia cell lines (GSE114966), one such gene showed a log2 fold change of approximately 1.63 and an adjusted p-value of 0.0075. Which protein is encoded by this specific gen... | SMC5-SMC6 complex localization factor protein 1 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00292","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Human alphaherpesvirus 1 upregulates a gene that is involved in double-strand break repair via homologous recombination. In ... | |
medium_hidden_intermediate_00293 | Hepacivirus C downregulates a gene that participates in autophagy. In a study of hepatocytes (GSE132606), one such gene exhibited a log2 fold change of -1.246 and an adjusted p-value of 0.006235. Which protein is encoded by this specific gene? | Ubiquitin carboxyl-terminal hydrolase 30 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00293","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Hepacivirus C downregulates a gene that participates in autophagy. In a study of hepatocytes (GSE132606), one such gene exhi... | |
medium_hidden_intermediate_00295 | Zika virus downregulates a gene that is involved in the cellular response to insulin stimulus. Evidence for this gene in glioma stem cells (study GSE114907) reports a log2 fold change of approximately -1.08 and an adjusted p-value of 0.028. Which protein is encoded by this gene? | Rho-related GTP-binding protein RhoQ | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00295","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Zika virus downregulates a gene that is involved in the cellular response to insulin stimulus. Evidence for this gene in gli... | |
medium_hidden_intermediate_00296 | Zika virus downregulates a gene that is associated with amyloidosis. In a study of glioma stem cells (GSE114907), this gene exhibited a log2 fold change of approximately -1.692 and an adjusted p-value of 0.02013. Which protein is encoded by this gene? | Matrix metalloproteinase-24 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00296","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Zika virus downregulates a gene that is associated with amyloidosis. In a study of glioma stem cells (GSE114907), this gene ... | |
medium_hidden_intermediate_00297 | Zika virus downregulates a specific gene, which in turn interacts with RPL3. Experimental data for this gene in glioma stem cells (study GSE114907) reports a log2 fold change of approximately -1.95 and an adjusted p-value of approximately 0.007. Which protein is encoded by this gene? | Dimethyladenosine transferase | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00297","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Zika virus downregulates a specific gene, which in turn interacts with RPL3. Experimental data for this gene in glioma stem ... | |
medium_hidden_intermediate_00298 | Two genes are upregulated by Severe acute respiratory syndrome-related coronavirus and participate in Axon guidance. One of these genes was reported in a study on cardiomyocyte cell lines (GSE151879) with a log2 fold change of approximately 1.465 and an adjusted p-value of 0.01058. Which protein does this specific gene... | TRPC5 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00298","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are upregulated by Severe acute respiratory syndrome-related coronavirus and participate in Axon guidance. One of ... | |
medium_hidden_intermediate_00299 | Two genes are upregulated by Enterovirus A and participate in the function of cytosolic sensors of pathogen-associated DNA. One of these genes exhibits a log2 fold change of 2.441 and an adjusted p-value of 0.0009144 in rhabdomyosarcoma cells. Which disease is associated with this specific gene? | epilepsy | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00299","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are upregulated by Enterovirus A and participate in the function of cytosolic sensors of pathogen-associated DNA. ... | |
medium_hidden_intermediate_00300 | Two genes are structurally linked to Human immunodeficiency virus 1 via a 'downregulates' relationship and to Class I MHC mediated antigen processing & presentation via a 'participates in' relationship. One of these genes has an associated expression profile in macrophages (from study GSE108897) showing a log2 fold cha... | Parkinson disease | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00300","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are structurally linked to Human immunodeficiency virus 1 via a 'downregulates' relationship and to Class I MHC me... | |
medium_hidden_intermediate_00301 | Rhinovirus A infection is associated with the downregulation of a specific gene, which is subsequently found to be enriched in intermediate monocytes. Transcriptomic data from a study on cytotoxic T-lymphocytes (GSE106475) reports that this gene has a log2 fold change of -2.114 and an adjusted p-value of 0.001479. Whic... | Interferon-induced 35 kDa protein | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00301","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Rhinovirus A infection is associated with the downregulation of a specific gene, which is subsequently found to be enriched ... | |
medium_hidden_intermediate_00302 | In a study of cardiomyocyte cell lines, a gene is upregulated by Severe acute respiratory syndrome-related coronavirus and is involved in the response to retinoic acid. Evidence for this specific gene reports a log2 fold change of 1.177 and an adjusted p-value of 0.006233. Which protein is encoded by this gene? | MHC class I polypeptide-related sequence B | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00302","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of cardiomyocyte cell lines, a gene is upregulated by Severe acute respiratory syndrome-related coronavirus and i... | |
medium_hidden_intermediate_00303 | Severe acute respiratory syndrome-related coronavirus upregulates a gene that interacts with ATXN1L. Experimental data for this gene reports a log2 fold change of 1.100 and an adjusted p-value of 0.006337. Which protein is encoded by this gene? | Ubiquitin carboxyl-terminal hydrolase 54 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00303","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Severe acute respiratory syndrome-related coronavirus upregulates a gene that interacts with ATXN1L. Experimental data for t... | |
medium_hidden_intermediate_00306 | Two genes are upregulated by Severe acute respiratory syndrome-related coronavirus and both enable protein-lysine N-methyltransferase activity. One of these genes exhibits a log2 fold change of approximately 1.52 and an adjusted p-value of approximately 0.0086 in a specific study. Which cellular component is the locati... | protein-containing complex | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00306","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are upregulated by Severe acute respiratory syndrome-related coronavirus and both enable protein-lysine N-methyltr... | |
medium_hidden_intermediate_00309 | A gene is downregulated by Human gammaherpesvirus 8 and is involved in the negative regulation of interleukin-6 production. Evidence for this gene reports a log2 fold change of -3.965 and an adjusted p-value of 0.01083. Which cell type is this gene enriched in? | neutrophil | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00309","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"A gene is downregulated by Human gammaherpesvirus 8 and is involved in the negative regulation of interleukin-6 production. ... | |
medium_hidden_intermediate_00310 | In a study of macrophages (GSE108897), Human immunodeficiency virus 1 upregulates a gene that is involved in the negative regulation of cell migration. One such gene exhibits a log2 fold change of approximately 1.737 and an adjusted p-value of 0.02368. What molecular function is enabled by this specific gene? | protein binding | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00310","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of macrophages (GSE108897), Human immunodeficiency virus 1 upregulates a gene that is involved in the negative re... | |
medium_hidden_intermediate_00311 | Pegivirus C is reported to downregulate a gene that enables histone binding. In a study of peripheral blood mononuclear cells (GSE131504), one such gene exhibited a log2 fold change of -1.943 and an adjusted p-value of 0.0008651. Which protein is encoded by this specific gene? | Zinc finger ZZ-type and EF-hand domain-containing protein 1 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00311","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Pegivirus C is reported to downregulate a gene that enables histone binding. In a study of peripheral blood mononuclear cell... | |
medium_hidden_intermediate_00312 | In a study of lung cells infected with Severe acute respiratory syndrome-related coronavirus, a specific gene is downregulated and is known to enable folic acid binding. Evidence for this gene reports a log2 fold change of approximately -1.82 and an adjusted p-value of 0.0058. Which protein is encoded by this gene? | Folate receptor beta | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00312","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of lung cells infected with Severe acute respiratory syndrome-related coronavirus, a specific gene is downregulat... | |
medium_hidden_intermediate_00313 | Two genes are upregulated by Severe acute respiratory syndrome-related coronavirus and are associated with hyperglycemia. One of these genes was reported in a study (GSE155241) with a log2 fold change of approximately 1.048 and an adjusted p-value of approximately 0.0177. Which protein is encoded by this specific gene? | PAS domain-containing serine/threonine-protein kinase | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00313","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are upregulated by Severe acute respiratory syndrome-related coronavirus and are associated with hyperglycemia. On... | |
medium_hidden_intermediate_00315 | In the choroid plexus epithelium, Severe acute respiratory syndrome-related coronavirus upregulates a gene that participates in Glycerophospholipid biosynthesis. Evidence for this specific gene reports a log2 fold change of 1.089 and an adjusted p-value of 1.49e-05. Which gene interacts with this upregulated entity? | SLC39A7 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00315","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In the choroid plexus epithelium, Severe acute respiratory syndrome-related coronavirus upregulates a gene that participates... | |
medium_hidden_intermediate_00316 | Human alphaherpesvirus 3 is known to upregulate certain genes that are located in chromatin. One such gene exhibits a log2 fold change of 1.244 and an adjusted p-value of 6.467e-11 in a melanoma cell line study. Which protein is encoded by this specific gene? | Zinc finger protein 618 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00316","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Human alphaherpesvirus 3 is known to upregulate certain genes that are located in chromatin. One such gene exhibits a log2 f... | |
medium_hidden_intermediate_00317 | Two genes are structurally linked to CRYAA via an 'interacts with' relationship and to visual perception via an 'involved in' relationship. One of these genes is supported by evidence stating: 'Chloramphenicol acetyltransferase activity indicated that there were interactions between alphaA- (or alphaB-) and betaB2- or ... | cataract 3 multiple types | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00317","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are structurally linked to CRYAA via an 'interacts with' relationship and to visual perception via an 'involved in... | |
medium_hidden_intermediate_00318 | Two genes are upregulated by Severe acute respiratory syndrome-related coronavirus and interact with RC3H2. One of these genes shows a log2 fold change of 1.537 and an adjusted p-value of 0.01869 in a specific study. Which protein is encoded by this gene? | T-complex protein 1 subunit eta | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00318","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are upregulated by Severe acute respiratory syndrome-related coronavirus and interact with RC3H2. One of these gen... | |
medium_hidden_intermediate_00319 | Severe acute respiratory syndrome-related coronavirus upregulates a gene that interacts with VDAC1. One such gene exhibits a log2 fold change of 1.639 and an adjusted p-value of 0.03033. Which protein is encoded by this gene? | Hexokinase-2 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00319","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Severe acute respiratory syndrome-related coronavirus upregulates a gene that interacts with VDAC1. One such gene exhibits a... | |
medium_hidden_intermediate_00320 | In a study of cervical adenocarcinoma cell lines (GSE11238), Vaccinia virus infection was found to upregulate certain genes that subsequently interact with CCDC53. One such gene exhibited a log2 fold change of 2.574 and an adjusted p-value of 8.792e-13. Which protein is encoded by this specific gene? | Heat shock factor-binding protein 1 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00320","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of cervical adenocarcinoma cell lines (GSE11238), Vaccinia virus infection was found to upregulate certain genes ... | |
medium_hidden_intermediate_00321 | Two genes are structurally linked to Severe acute respiratory syndrome-related coronavirus via an 'upregulates' relationship and to negative regulation of cytokine production via an 'involved in' relationship. One of these genes has been reported with a log2 fold change of 1.172 and an adjusted p-value of 0.001158. Whi... | neutrophil | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00321","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are structurally linked to Severe acute respiratory syndrome-related coronavirus via an 'upregulates' relationship... | |
medium_hidden_intermediate_00322 | A gene is upregulated by Severe acute respiratory syndrome-related coronavirus and serves as a biomarker for colon carcinoma. Evidence for this gene reports a log2 fold change of 1.078 and an adjusted p-value of 0.0003314. Which protein is encoded by this gene? | Choline kinase alpha | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00322","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"A gene is upregulated by Severe acute respiratory syndrome-related coronavirus and serves as a biomarker for colon carcinoma... | |
medium_hidden_intermediate_00323 | In a study of rhabdomyosarcoma cells (GSE103308), Enterovirus A infection leads to the downregulation of certain genes that participate in BMP signaling. One such gene exhibits a log2 fold change of approximately -3.03 and an adjusted p-value of 0.013. Which protein is encoded by this specific gene? | Gremlin-2 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00323","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of rhabdomyosarcoma cells (GSE103308), Enterovirus A infection leads to the downregulation of certain genes that ... | |
medium_hidden_intermediate_00324 | Human immunodeficiency virus 1 upregulates a gene that participates in the metabolism of amino acids and derivatives. Evidence for this gene reports a log2 fold change of 1.388 and an adjusted p-value of 0.0001091. Which protein is encoded by this gene? | Solute carrier family 25 member 44 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00324","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Human immunodeficiency virus 1 upregulates a gene that participates in the metabolism of amino acids and derivatives. Eviden... | |
medium_hidden_intermediate_00325 | Human betaherpesvirus 5 is reported to downregulate a specific gene, which is in turn enriched in basophils. Experimental data for this gene shows a log2 fold change of -1.884 and an adjusted p-value of 0.01991. Which protein is encoded by this gene? | Cytoplasmic aconitate hydratase | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00325","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Human betaherpesvirus 5 is reported to downregulate a specific gene, which is in turn enriched in basophils. Experimental da... | |
medium_hidden_intermediate_00327 | Rhinovirus A infection is associated with the upregulation of genes that enable ubiquitin-protein transferase activity. In a study of cytotoxic T-lymphocytes (GSE106475), one such gene exhibited a log2 fold change of approximately 1.182 and an adjusted p-value of 0.002034. Which protein is encoded by this specific gene... | E3 ubiquitin-protein ligase MIB2 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00327","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Rhinovirus A infection is associated with the upregulation of genes that enable ubiquitin-protein transferase activity. In a... | |
medium_hidden_intermediate_00328 | A gene is downregulated by Severe acute respiratory syndrome-related coronavirus and exhibits genomic alterations associated with schizophrenia. Experimental data for this gene in lung cells (study GSE155241) show a log2 fold change of approximately -1.258 and an adjusted p-value of 0.04612. Which disease is linked to ... | asthma | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00328","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"A gene is downregulated by Severe acute respiratory syndrome-related coronavirus and exhibits genomic alterations associated... | |
medium_hidden_intermediate_00329 | Human immunodeficiency virus 1 downregulates a gene that participates in GPCR downstream signalling. In a study of macrophages (GSE108897), this gene exhibited a log2 fold change of approximately -1.20 and an adjusted p-value of 0.001. Which protein is encoded by this gene? | Regulator of G-protein signaling 17 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00329","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Human immunodeficiency virus 1 downregulates a gene that participates in GPCR downstream signalling. In a study of macrophag... | |
medium_hidden_intermediate_00330 | Zika virus downregulates a specific gene, which is also associated with the common cold. Experimental data for this gene in glioma stem cells (study GSE114907) reports a log2 fold change of -1.868 and an adjusted p-value of 0.01082. Which protein is encoded by this gene? | Aspartate aminotransferase, cytoplasmic | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00330","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Zika virus downregulates a specific gene, which is also associated with the common cold. Experimental data for this gene in ... | |
medium_hidden_intermediate_00331 | Human betaherpesvirus 5 is reported to downregulate multiple genes that are involved in the positive regulation of proteasomal ubiquitin-dependent protein catabolic process. One such gene exhibits a log2 fold change of -1.238 and an adjusted p-value of 4.537e-06 in foreskin fibroblast cell lines. Which protein is encod... | Tribbles homolog 2 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00331","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Human betaherpesvirus 5 is reported to downregulate multiple genes that are involved in the positive regulation of proteasom... | |
medium_hidden_intermediate_00332 | In a study of rhabdomyosarcoma cells (GSE103308), Enterovirus A infection was found to upregulate a gene that participates in Pyruvate metabolism. One such gene exhibited a log2 fold change of 1.093 and an adjusted p-value of 0.0001635. Which protein is encoded by this specific gene? | E3 ubiquitin-protein transferase RMND5A | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00332","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of rhabdomyosarcoma cells (GSE103308), Enterovirus A infection was found to upregulate a gene that participates i... | |
medium_hidden_intermediate_00333 | PLIN3 interacts with an intermediate protein, which in turn interacts with RHOBTB3. Evidence indicates that this intermediate protein is a Rab GTPase, which binds directly to RhoBTB3 and functions with it in protein transport from endosomes to the trans Golgi network. Which disease is associated with this intermediate ... | myocardial ischemia | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00333","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"PLIN3 interacts with an intermediate protein, which in turn interacts with RHOBTB3. Evidence indicates that this intermediat... | |
medium_hidden_intermediate_00334 | Two genes are structurally linked to Human immunodeficiency virus 1 via a 'downregulates' relationship and to inborn error of immunity via an 'associated with' relationship. One of these genes exhibits a log2 fold change of -2.565 and an adjusted p-value of 0.01163 in a specific study. Which cell type is enriched for t... | plasmacytoid dendritic cell | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00334","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are structurally linked to Human immunodeficiency virus 1 via a 'downregulates' relationship and to inborn error o... | |
medium_hidden_intermediate_00335 | In a study of peripheral blood mononuclear cells (GSE131504), a gene is downregulated by Pegivirus C and interacts with EHMT1. This gene exhibits a log2 fold change of -1.449 and an adjusted p-value of 0.01375. Which protein is encoded by this gene? | Protein Wiz | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00335","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of peripheral blood mononuclear cells (GSE131504), a gene is downregulated by Pegivirus C and interacts with EHMT... | |
medium_hidden_intermediate_00336 | Two genes are upregulated by Vaccinia virus and are enriched in CD8-positive, alpha-beta memory T cells. One of these genes exhibits a log2 fold change of approximately 2.925 and an adjusted p-value of 1.083e-07 in a specific study context. Which disease is associated with this specific gene as a biomarker? | pediatric osteosarcoma | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00336","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are upregulated by Vaccinia virus and are enriched in CD8-positive, alpha-beta memory T cells. One of these genes ... | |
medium_hidden_intermediate_00337 | In a study of Influenza A virus infection, a specific gene is upregulated by the virus and participates in the 'Antigen processing: Ubiquitination & Proteasome degradation' pathway. Evidence for this gene reports a log2 fold change of 1.022 and an adjusted p-value of 5.284e-05. Which cellular component is this gene loc... | actin cytoskeleton | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00337","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of Influenza A virus infection, a specific gene is upregulated by the virus and participates in the 'Antigen proc... | |
medium_hidden_intermediate_00338 | Vaccinia virus upregulates multiple genes that are located in the perinuclear region of the cytoplasm. One such gene exhibits a log2 fold change of 6.154 and an adjusted p-value of 1.17e-08 in cervical adenocarcinoma cells. Which protein does this specific gene product interact with? | ITCH | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00338","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Vaccinia virus upregulates multiple genes that are located in the perinuclear region of the cytoplasm. One such gene exhibit... | |
medium_hidden_intermediate_00340 | In a study of cervical adenocarcinoma cell lines (GSE11238), Vaccinia virus infection was found to downregulate a specific gene that participates in O-linked glycosylation. This gene exhibited a log2 fold change of -4.684 and an adjusted p-value of 0.01592. Which specific biological process is this gene involved in? | protein O-linked glycosylation via mannose | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00340","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of cervical adenocarcinoma cell lines (GSE11238), Vaccinia virus infection was found to downregulate a specific g... | |
medium_hidden_intermediate_00341 | Human betaherpesvirus 5 upregulates a gene that is located in the cytoplasm. Evidence for this gene reports a log2 fold change of 3.113 and an adjusted p-value of 2.159e-11. Which cell type is this gene enriched in? | basophil | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00341","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Human betaherpesvirus 5 upregulates a gene that is located in the cytoplasm. Evidence for this gene reports a log2 fold chan... | |
medium_hidden_intermediate_00342 | Human immunodeficiency virus 1 upregulates a gene that participates in the epigenetic regulation of gene expression. Experimental data for this gene in macrophages (from study GSE108897) reports a log2 fold change of approximately 1.076 and an adjusted p-value of 0.005629. Which protein is encoded by this gene? | Zinc finger protein 778 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00342","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Human immunodeficiency virus 1 upregulates a gene that participates in the epigenetic regulation of gene expression. Experim... | |
medium_hidden_intermediate_00343 | Two genes are downregulated by Pegivirus C and associated with colon carcinoma. One of these genes exhibits a log2 fold change of approximately -1.14 and an adjusted p-value of 0.0021 in peripheral blood mononuclear cells (study GSE131504). Which disease is therapeutically linked to this specific gene? | leukemia | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00343","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are downregulated by Pegivirus C and associated with colon carcinoma. One of these genes exhibits a log2 fold chan... | |
medium_hidden_intermediate_00346 | Two genes are upregulated by Severe acute respiratory syndrome-related coronavirus and are associated with retinitis pigmentosa. One of these genes exhibits a log2 fold change of approximately 1.075 and an adjusted p-value of 0.01183 in lung tissue data from study GSE155241. Which protein does this specific gene intera... | HRAS | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00346","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are upregulated by Severe acute respiratory syndrome-related coronavirus and are associated with retinitis pigment... | |
medium_hidden_intermediate_00349 | Myocardial ischemia is localized to an artery. Evidence concerning one such entity reports: 'An artery that carries deoxygenated blood from heart to the lungs. They are the only arteries (other than umbilical arteries in the fetus) that carry deoxygenated blood...' Which anatomy is connected to that entity through part... | pulmonary vascular system | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00349","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Myocardial ischemia is localized to an artery. Evidence concerning one such entity reports: 'An artery that carries deoxygen... | |
medium_hidden_intermediate_00351 | Measles morbillivirus upregulates a gene that is involved in the negative regulation of gene expression. Evidence for one such gene reports a log2 fold change of 1.252 and an adjusted p-value of 0.04619. Which protein is encoded by that gene? | Stanniocalcin-2 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00351","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Measles morbillivirus upregulates a gene that is involved in the negative regulation of gene expression. Evidence for one su... | |
medium_hidden_intermediate_00352 | Human immunodeficiency virus 1 upregulates a gene that enables 14-3-3 protein binding. Transcriptomic data for this gene in macrophages (study GSE108897) shows a log2 fold change of 2.733 and an adjusted p-value of 0.002497. Which protein is encoded by this gene? | Heat shock protein beta-6 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00352","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Human immunodeficiency virus 1 upregulates a gene that enables 14-3-3 protein binding. Transcriptomic data for this gene in ... |
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