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medium_hidden_intermediate_00353 | In a study of cervical adenocarcinoma cell lines (GSE11238), Vaccinia virus infection was found to upregulate certain genes that participate in neddylation. One such gene exhibited a log2 fold change of approximately 1.145 and an adjusted p-value of 0.01577. Which protein is encoded by this specific gene? | WD repeat and SOCS box-containing protein 2 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00353","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_00355 | Measles morbillivirus upregulates a gene that is associated with breast carcinoma via genomic alterations. One such gene exhibits a log2 fold change of 1.607 and an adjusted p-value of 0.0001767 in study GSE131840. Which disease is linked to this specific gene as a biomarker? | cleft palate | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00355","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Measles morbillivirus upregulates a gene that is associated with breast carcinoma via genomic alterations. One such gene exh... | |
medium_hidden_intermediate_00356 | In a study of macrophages (GSE108897), a gene is identified that is downregulated by Human immunodeficiency virus 1 and interacts with KRAS. This specific gene exhibits a log2 fold change of approximately -2.08 and an adjusted p-value of 0.011. Which cellular component is this gene located in? | membrane | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00356","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 that is downregulated by Human immunodeficiency virus 1 and inte... | |
medium_hidden_intermediate_00357 | In a study of rhabdomyosarcoma cells (GSE103308), Enterovirus A upregulates a specific gene, which is located in the Golgi apparatus. This gene exhibits a log2 fold change of 2.076 and an adjusted p-value of 8.909e-06. Which protein does this gene product interact with? | GNPTAB | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00357","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 upregulates a specific gene, which is located in the Golgi a... | |
medium_hidden_intermediate_00358 | Zika virus downregulates a specific gene that is involved in the ERAD pathway. Experimental data from glioma stem cells (study GSE114907) indicate that this gene has a log2 fold change of -2.082 and an adjusted p-value of 0.004004. Which disease is associated with genomic alterations in this gene? | breast carcinoma | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00358","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Zika virus downregulates a specific gene that is involved in the ERAD pathway. Experimental data from glioma stem cells (stu... | |
medium_hidden_intermediate_00359 | A gene is upregulated by Severe acute respiratory syndrome-related coronavirus and participates in PI Metabolism. Evidence for this gene reports a log2 fold change of 1.366 and an adjusted p-value of 0.007264. Which protein is encoded by this gene? | Phosphatidylinositol-3,5-bisphosphate 3-phosphatase MTMR3 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00359","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 PI Metabolism. Evidence f... | |
medium_hidden_intermediate_00360 | A gene is downregulated by Human gammaherpesvirus 8 and enables identical protein binding. Experimental data for this gene in lymphatic endothelial cells from study GSE16354 reports a log2 fold change of approximately -1.116 and an adjusted p-value of 0.0003198. Which disease is associated with this gene? | cervical cancer | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00360","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 enables identical protein binding. Experimental data for this gene i... | |
medium_hidden_intermediate_00361 | A gene is downregulated by Primate bocaparvovirus 1 and is enriched in Regulatory T (Treg) cells. Evidence for this gene reports a log2 fold change of -1.514 and an adjusted p-value of 0.04937. Which protein is encoded by this gene? | Queuosine-tRNA galactosyltransferase | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00361","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 enriched in Regulatory T (Treg) cells. Evidence for this gene rep... | |
medium_hidden_intermediate_00362 | Pegivirus C downregulates a specific gene that is associated with lymphoma. Transcriptomic data for this gene in peripheral blood mononuclear cells (study GSE131504) shows a log2 fold change of approximately -1.23 and an adjusted p-value of approximately 0.0016. Which biological process is this gene involved in? | endocytic recycling | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00362","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Pegivirus C downregulates a specific gene that is associated with lymphoma. Transcriptomic data for this gene in peripheral ... | |
medium_hidden_intermediate_00363 | In a study of cervical adenocarcinoma cell lines (GSE122967), Cardiovirus A infection was found to downregulate a specific gene, which in turn enables cysteine-type peptidase activity. This gene exhibited a log2 fold change of approximately -1.204 and an adjusted p-value of 0.01654. Which protein is encoded by this gen... | Cysteine protease ATG4C | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00363","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_00364 | Human betaherpesvirus 5 is reported to upregulate a gene that enables single-stranded RNA binding. In a specific study, this gene exhibited a log2 fold change of approximately 1.029 and an adjusted p-value of 0.0007296. Which protein is encoded by this gene? | Endoribonuclease LACTB2 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00364","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 enables single-stranded RNA binding. In a specific study, this... | |
medium_hidden_intermediate_00366 | Severe acute respiratory syndrome-related coronavirus downregulates a gene that participates in RNA metabolism. Evidence for this gene reports a log2 fold change of -1.016 and an adjusted p-value of 7.498e-12. Which cellular component is this gene located in? | cytoplasm | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00366","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 participates in RNA metabolism. Evidence for... | |
medium_hidden_intermediate_00367 | Two genes are downregulated by Severe acute respiratory syndrome-related coronavirus and participate in O-linked glycosylation of mucins. One of these genes exhibits a log2 fold change of -1.180 and an adjusted p-value of 0.01921 in a specific study. Which gene interacts with the gene identified by these statistical va... | SLC30A1 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00367","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 participate in O-linked glycosylati... | |
medium_hidden_intermediate_00368 | Rhinovirus A upregulates a specific gene that is implicated in disease. Transcriptomic data for this gene in cytotoxic T-lymphocytes (from study GSE106475) shows a log2 fold change of approximately 1.06 and an adjusted p-value of approximately 0.0084. In which cell type is this gene enriched? | gamma-delta T cell | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00368","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Rhinovirus A upregulates a specific gene that is implicated in disease. Transcriptomic data for this gene in cytotoxic T-lym... | |
medium_hidden_intermediate_00369 | In a study of scleral cells (GSE164073), Severe acute respiratory syndrome-related coronavirus was found to upregulate a gene that participates in the reversible hydration of carbon dioxide. One such gene exhibited a log2 fold change of 1.729 and an adjusted p-value of 0.00219. Which protein is encoded by this specific... | Carbonic anhydrase 13 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00369","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of scleral cells (GSE164073), Severe acute respiratory syndrome-related coronavirus was found to upregulate a gen... | |
medium_hidden_intermediate_00370 | A protein interacts with MYC and is enriched in Mucosa-associated invariant T (MAIT) cells. Evidence indicates that CLK3 directly phosphorylates this protein at tyrosine 708, promoting its binding to c-Myc, preventing Fbxl14-mediated c-Myc ubiquitination, and activating the transcription of purine metabolic genes. Whic... | Ubiquitin carboxyl-terminal hydrolase 13 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00370","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"A protein interacts with MYC and is enriched in Mucosa-associated invariant T (MAIT) cells. Evidence indicates that CLK3 dir... | |
medium_hidden_intermediate_00374 | In a study of cervical adenocarcinoma cell lines (GSE11238), Vaccinia virus infection was found to upregulate genes involved in chaperonin-mediated protein folding. One such gene exhibited a log2 fold change of approximately 1.058 and an adjusted p-value of 1.343e-06. Which protein is encoded by this specific gene? | Prefoldin subunit 4 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00374","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 genes involved... | |
medium_hidden_intermediate_00375 | Pegivirus C downregulates a specific gene product that subsequently interacts with RAC1. Experimental data for this intermediate entity in peripheral blood mononuclear cells (from study GSE131504) indicates a log2 fold change of -1.169 and an adjusted p-value of 0.007122. Which biological process is this entity involve... | regulation of signal transduction | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00375","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Pegivirus C downregulates a specific gene product that subsequently interacts with RAC1. Experimental data for this intermed... | |
medium_hidden_intermediate_00376 | In a study of non-small cell lung adenocarcinoma cells infected with Influenza A virus, a specific gene is upregulated and involved in protein dephosphorylation. This gene exhibits a log2 fold change of approximately 1.087 and an adjusted p-value of 0.01159. Which protein is encoded by this gene? | Dual specificity protein phosphatase 2 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00376","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 cells infected with Influenza A virus, a specific gene is upregulated and i... | |
medium_hidden_intermediate_00377 | In a study of cervical adenocarcinoma cell lines (GSE11238), Vaccinia virus infection was found to upregulate multiple genes involved in protein localization. One such gene exhibited a log2 fold change of 2.376 and an adjusted p-value of 1.228e-09. What molecular function is enabled by this specific gene? | protein binding | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00377","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 multiple genes... | |
medium_hidden_intermediate_00378 | A gene is downregulated by Primate bocaparvovirus 1 and participates in Dengue Virus Infection. Experimental evidence for this gene reports a log2 fold change of -2.574 and an adjusted p-value of 0.000467. Which protein is encoded by this gene? | Histone H4 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00378","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 Dengue Virus Infection. Experimental evidence for th... | |
medium_hidden_intermediate_00381 | In a study of cervical adenocarcinoma cell lines (GSE122967), Cardiovirus A infection leads to the downregulation of a specific gene, which in turn participates in RNA Polymerase II transcription. Evidence for this gene shows a log2 fold change of -1.376 and an adjusted p-value of 0.02396. Which protein is encoded by t... | Zinc finger protein 25 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00381","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 leads to the downregulation of a speci... | |
medium_hidden_intermediate_00382 | A gene is upregulated by Measles morbillivirus and enriched in non-classical monocytes. Evidence for this gene reports a log2 fold change of 1.769 and an adjusted p-value of 0.004895. Which cellular component is this gene located in? | cytosol | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00382","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"A gene is upregulated by Measles morbillivirus and enriched in non-classical monocytes. Evidence for this gene reports a log... | |
medium_hidden_intermediate_00383 | In a study of lung cells infected with Severe acute respiratory syndrome-related coronavirus (SARS-CoV-2), gene expression analysis identified a specific gene that is downregulated by the virus and involved in cilium assembly. This gene exhibited a log2 fold change of -1.654 and an adjusted p-value of 2.203e-06. Which ... | Dynein light chain Tctex-type protein 2B | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00383","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 (SARS-CoV-2), gene expression a... | |
medium_hidden_intermediate_00384 | Pegivirus C is reported to downregulate a gene that subsequently interacts with SNRNP70. In a study of peripheral blood mononuclear cells (GSE131504), one such intermediate gene exhibits a log2 fold change of approximately -1.50 and an adjusted p-value of approximately 0.010. Which protein is encoded by this specific i... | Stalled ribosome sensor GCN1 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00384","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 subsequently interacts with SNRNP70. In a study of peripheral blood mono... | |
medium_hidden_intermediate_00385 | Two genes are structurally linked to Human immunodeficiency virus 1 via a downregulation relationship and to periodontitis via an association relationship. One of these genes exhibits a log2 fold change of -1.891 and an adjusted p-value of 0.02686 in macrophages (study GSE108897). Which disease is connected to this spe... | acute myeloid leukemia | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00385","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 downregulation relationship and to periodontitis v... | |
medium_hidden_intermediate_00386 | Zika virus upregulates a gene that participates in autophagy. Experimental data for this gene shows a log2 fold change of approximately 1.58 and an adjusted p-value of 0.0213. Which protein is encoded by this gene? | Tubulin alpha-8 chain | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00386","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Zika virus upregulates a gene that participates in autophagy. Experimental data for this gene shows a log2 fold change of ap... | |
medium_hidden_intermediate_00387 | VCP interacts with a protein that enables protein binding. Evidence indicates that a specific cofactor of the hexameric ATPase complex known as p97 or VCP in mammals is this protein. Which cell type is enriched in this entity? | basophil | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00387","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"VCP interacts with a protein that enables protein binding. Evidence indicates that a specific cofactor of the hexameric ATPa... | |
medium_hidden_intermediate_00389 | Two genes are downregulated by Severe acute respiratory syndrome-related coronavirus and both enable histone H3K4me3 reader activity. One of these genes exhibits a log2 fold change of -1.155 and an adjusted p-value of 0.0004056 in lung cells. Which protein interacts with this specific gene? | WDR76 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00389","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 both enable histone H3K4me3 reader ... | |
medium_hidden_intermediate_00390 | Human betaherpesvirus 5 is linked to bipolar disorder via a gene that acts as a biomarker and is upregulated by the virus. One such gene exhibits a log2 fold change of 1.267 and an adjusted p-value of 0.0009367 in foreskin fibroblast cell lines. Which protein is encoded by this specific gene? | Gamma-aminobutyric acid receptor subunit rho-1 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00390","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Human betaherpesvirus 5 is linked to bipolar disorder via a gene that acts as a biomarker and is upregulated by the virus. O... | |
medium_hidden_intermediate_00391 | In a study of natural killer cells (GSE125686), Hepacivirus C infection was found to downregulate a specific gene, which is involved in the positive regulation of canonical NF-kappaB signal transduction. This gene exhibited a log2 fold change of approximately -1.53 and an adjusted p-value of 0.012. Which protein is enc... | Serine/threonine-protein kinase PLK2 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00391","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of natural killer cells (GSE125686), Hepacivirus C infection was found to downregulate a specific gene, which is ... | |
medium_hidden_intermediate_00392 | In studies of Severe acute respiratory syndrome-related coronavirus infection, certain genes are downregulated and their products interact with AURKB. One such gene exhibits a log2 fold change of approximately -1.21 and an adjusted p-value of 0.0264 in lung cells. Which protein is encoded by this specific gene? | Ubiquitin-associated and SH3 domain-containing protein B | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00392","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In studies of Severe acute respiratory syndrome-related coronavirus infection, certain genes are downregulated and their pro... | |
medium_hidden_intermediate_00393 | Hepacivirus C upregulates a specific gene, which is associated with hypersensitivity reaction disease. Evidence for this gene in hepatocytes (study GSE132606) reports a log2 fold change of approximately 2.225 and an adjusted p-value of 0.02617. Which disease is connected to this gene via a protective relationship? | lupus nephritis | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00393","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Hepacivirus C upregulates a specific gene, which is associated with hypersensitivity reaction disease. Evidence for this gen... | |
medium_hidden_intermediate_00394 | Two genes are upregulated by Severe acute respiratory syndrome-related coronavirus and are associated with psoriasis. One of these genes was reported in a study (GSE151879) involving cardiomyocyte cell lines, showing a log2 fold change of 1.304 and an adjusted p-value of 0.01047. Which disease is linked to this specifi... | monoclonal gammopathy of uncertain significance | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00394","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 psoriasis. One of... | |
medium_hidden_intermediate_00395 | Rift Valley fever phlebovirus upregulates a gene that is involved in the cytoplasmic pattern recognition receptor signaling pathway. Evidence for one such gene reports a log2 fold change of 2.217 and an adjusted p-value of 0.02895. Which cell type is this gene enriched in? | basophil | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00395","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Rift Valley fever phlebovirus upregulates a gene that is involved in the cytoplasmic pattern recognition receptor signaling ... | |
medium_hidden_intermediate_00396 | Severe acute respiratory syndrome-related coronavirus upregulates a gene that is involved in phosphate-containing compound metabolic process. Evidence for one such gene reports a log2 fold change of 1.365 and an adjusted p-value of 0.004881. Which protein is encoded by that gene? | Sodium-dependent phosphate transporter 1 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00396","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 phosphate-containing compound m... | |
medium_hidden_intermediate_00397 | Rhinovirus A downregulates a specific gene that is associated with leukemia. In a study of cytotoxic T-lymphocytes (GSE106475), this gene exhibited a log2 fold change of -2.240 and an adjusted p-value of 0.01445. Which protein is encoded by this gene? | Scinderin | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00397","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Rhinovirus A downregulates a specific gene that is associated with leukemia. In a study of cytotoxic T-lymphocytes (GSE10647... | |
medium_hidden_intermediate_00398 | Cardiovirus A infection upregulates certain genes whose protein products are located in the extracellular space. In a study of cervical adenocarcinoma cell lines (GSE122967), one such gene exhibited a log2 fold change of 3.616 and an adjusted p-value of 0.02592. Which protein is encoded by this specific gene? | Complement C1q tumor necrosis factor-related protein 1 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00398","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Cardiovirus A infection upregulates certain genes whose protein products are located in the extracellular space. In a study ... | |
medium_hidden_intermediate_00399 | In a study of lung cells infected with Severe acute respiratory syndrome-related coronavirus, two genes are upregulated and participate in the response to elevated platelet cytosolic Ca2+. One of these genes exhibits a log2 fold change of 1.619 and an adjusted p-value of 0.03366. What molecular function is enabled by t... | cysteine-type peptidase activity | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00399","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, two genes are upregulated and ... | |
medium_hidden_intermediate_00401 | Zika virus downregulates a gene that enables DNA binding. Evidence for this gene in glioma stem cells reports a log2 fold change of -1.986 and an adjusted p-value of 0.006285. Which cell type is this gene enriched in? | plasmacytoid dendritic cell | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00401","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Zika virus downregulates a gene that enables DNA binding. Evidence for this gene in glioma stem cells reports a log2 fold ch... | |
medium_hidden_intermediate_00402 | Two distinct proteins are known to interact with both FGFR1 and SQSTM1. One of these proteins is characterized by evidence showing it binds directly to and ubiquitylates activated FGFR1, primarily via its WW3 domain interacting with a novel non-canonical sequence (non-PY motif) on FGFR1. Which cell type is enriched in ... | basophil | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00402","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two distinct proteins are known to interact with both FGFR1 and SQSTM1. One of these proteins is characterized by evidence s... | |
medium_hidden_intermediate_00403 | Two genes are linked to Severe acute respiratory syndrome-related coronavirus via an upregulation relationship and to breast carcinoma via a biomarker relationship. One of these genes is associated with a log2 fold change of approximately 1.16 and an adjusted p-value of approximately 0.0124 in a specific study. Which c... | basophil | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00403","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are linked to Severe acute respiratory syndrome-related coronavirus via an upregulation relationship and to breast... | |
medium_hidden_intermediate_00405 | Two genes are structurally linked from Severe acute respiratory syndrome-related coronavirus to pulmonary emphysema via an upregulation relationship followed by an association relationship. One of these genes is reported in a study (GSE153684) involving stomach cells, with a log2 fold change of approximately 1.435 and ... | Serpin B10 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00405","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are structurally linked from Severe acute respiratory syndrome-related coronavirus to pulmonary emphysema via an u... | |
medium_hidden_intermediate_00406 | Hepacivirus C downregulates a gene that participates in COPI-dependent Golgi-to-ER retrograde traffic. Evidence for one such gene reports a log2 fold change of -1.488 and an adjusted p-value of 0.006458. Which protein is encoded by that gene? | Kinesin-like protein KIFC1 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00406","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Hepacivirus C downregulates a gene that participates in COPI-dependent Golgi-to-ER retrograde traffic. Evidence for one such... | |
medium_hidden_intermediate_00408 | In a study of Influenza A virus infection, a specific gene is upregulated by the virus and subsequently binds to UBA52. Experimental data for this gene reports a log2 fold change of approximately 1.562 and an adjusted p-value of 8.824e-05. Which gene interacts with the entity identified by these statistical values? | UBE2L3 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00408","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 subsequently binds to UBA52. Expe... | |
medium_hidden_intermediate_00410 | In a study of glioma stem cells (GSE114907), Zika virus infection was found to downregulate a specific gene, which in turn binds to RPS14. This gene exhibited a log2 fold change of -1.017 and an adjusted p-value of 0.02103. Which protein is encoded by this gene? | Protein IMPACT | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00410","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of glioma stem cells (GSE114907), Zika virus infection was found to downregulate a specific gene, which in turn b... | |
medium_hidden_intermediate_00411 | Human betaherpesvirus 5 is reported to downregulate a gene that is involved in the positive regulation of protein phosphorylation. In a study of foreskin fibroblast cell lines (GSE111036), one such gene exhibits a log2 fold change of approximately -1.656 and an adjusted p-value of 0.04454. Which protein is encoded by t... | F-box DNA helicase 1 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00411","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 is involved in the positive regulation of protein phosphoryl... | |
medium_hidden_intermediate_00412 | Zika virus upregulates a specific gene that is involved in the negative regulation of transcription by RNA polymerase II. Experimental data for this gene in neural stem cells (study GSE129180) reports a log2 fold change of approximately 1.009 and an adjusted p-value of 0.00398. Which disease is associated with genomic ... | paroxysmal familial ventricular fibrillation | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00412","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Zika virus upregulates a specific gene that is involved in the negative regulation of transcription by RNA polymerase II. Ex... | |
medium_hidden_intermediate_00413 | In the context of Severe acute respiratory syndrome-related coronavirus infection, a specific gene is downregulated and involved in the negative regulation of DNA-templated transcription. Experimental evidence for this gene reports a log2 fold change of -2.534 and an adjusted p-value of 0.04212. Which protein is encode... | Protein LBH | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00413","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, a specific gene is downregulated and invo... | |
medium_hidden_intermediate_00416 | In a study of Hepacivirus C infection in hepatocytes (GSE132606), a specific gene is upregulated by the virus and participates in glycerophospholipid biosynthesis. This gene exhibits a log2 fold change of approximately 1.26 and an adjusted p-value of approximately 2.59e-05. Which protein is encoded by this gene? | Group IID secretory phospholipase A2 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00416","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of Hepacivirus C infection in hepatocytes (GSE132606), a specific gene is upregulated by the virus and participat... | |
medium_hidden_intermediate_00417 | Zika virus downregulates a specific gene that is associated with leukemia. Experimental data for this gene in glioma stem cells (study GSE114907) reports a log2 fold change of -1.924 and an adjusted p-value of 0.0125. Which protein is encoded by this gene? | Ubiquitin-associated and SH3 domain-containing protein B | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00417","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Zika virus downregulates a specific gene that is associated with leukemia. Experimental data for this gene in glioma stem ce... | |
medium_hidden_intermediate_00418 | Two genes are downregulated by Severe acute respiratory syndrome-related coronavirus and are involved in the positive regulation of canonical NF-kappaB signal transduction. One of these genes exhibits a log2 fold change of -3.162 and an adjusted p-value of 0.02441 in a specific study. Which disease is associated with t... | amyotrophic lateral sclerosis | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00418","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 are involved in the positive regula... | |
medium_hidden_intermediate_00419 | In a study of cervical adenocarcinoma cell lines (GSE11238), Vaccinia virus infection was found to upregulate certain genes that subsequently interact with CUL3. One such gene exhibited a log2 fold change of approximately 1.52 and an adjusted p-value of 3.506e-05. Which protein is encoded by this specific gene? | ADP-ribosylation factor-like protein 1 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00419","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_00420 | Zika virus downregulates a specific gene, which is associated with adenoviridae infectious disease. Transcriptomic data from glioma stem cells (study GSE114907) indicates this gene has a log2 fold change of -1.139 and an adjusted p-value of 0.008445. Which protein is encoded by this gene? | Bifunctional 3'-phosphoadenosine 5'-phosphosulfate synthase 1 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00420","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Zika virus downregulates a specific gene, which is associated with adenoviridae infectious disease. Transcriptomic data from... | |
medium_hidden_intermediate_00422 | In a study of rhabdomyosarcoma cells (GSE103308), Enterovirus A infection was found to downregulate a specific gene that participates in GPCR downstream signalling. This gene exhibited a log2 fold change of -1.501 and an adjusted p-value of 0.003717. Which protein is encoded by this gene? | 3',5'-cyclic-AMP phosphodiesterase 4B | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00422","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 downregulate a specific gene that par... | |
medium_hidden_intermediate_00425 | In a study of cervical adenocarcinoma cell lines (GSE122967), Cardiovirus A infection was found to downregulate a specific gene that is involved in the proteasome-mediated ubiquitin-dependent protein catabolic process. This gene exhibited a log2 fold change of approximately -2.36 and an adjusted p-value of 0.0217. Whic... | Cul5-RING ubiquitin ligase complex | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00425","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_00427 | Two genes are structurally linked to POLR2C via a binding interaction and are both involved in mRNA splicing via the spliceosome. One of these genes forms an essential heterodimer with U2AF2, a pre-mRNA splicing factor, which nucleates spliceosome assembly at polypyrimidine signals preceding the major class of 3' splic... | trisomy | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00427","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are structurally linked to POLR2C via a binding interaction and are both involved in mRNA splicing via the spliceo... | |
medium_hidden_intermediate_00428 | Hepacivirus C upregulates a gene that subsequently interacts with YY1. Experimental data from study GSE132606 in hepatocytes indicates that one such gene has a log2 fold change of 1.038 and an adjusted p-value of 0.002029. Which protein is encoded by this specific gene? | Protein Wiz | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00428","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Hepacivirus C upregulates a gene that subsequently interacts with YY1. Experimental data from study GSE132606 in hepatocytes... | |
medium_hidden_intermediate_00429 | In the study GSE131840, Measles morbillivirus upregulates a gene that interacts with YWHAG. One such gene exhibits a log2 fold change of approximately 1.40 and an adjusted p-value of 5.927e-05. Which protein is encoded by this specific gene? | Phosphatase and actin regulator 4 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00429","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In the study GSE131840, Measles morbillivirus upregulates a gene that interacts with YWHAG. One such gene exhibits a log2 fo... | |
medium_hidden_intermediate_00430 | Human immunodeficiency virus 1 downregulates a gene that is located in the extracellular space. In a study of macrophages (GSE108897), this gene exhibited a log2 fold change of -1.130 and an adjusted p-value of 0.004595. Which protein is encoded by this gene? | Malate dehydrogenase, cytoplasmic | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00430","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Human immunodeficiency virus 1 downregulates a gene that is located in the extracellular space. In a study of macrophages (G... | |
medium_hidden_intermediate_00431 | Two genes are structurally linked from Hepacivirus C via an 'upregulates' relationship and subsequently to Natural killer cell via an 'enriched in' relationship. One of these genes is reported in a study (GSE119117) with a log2 fold change of approximately 12.04 and an adjusted p-value of approximately 0.0488. Which di... | vitiligo | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00431","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are structurally linked from Hepacivirus C via an 'upregulates' relationship and subsequently to Natural killer ce... | |
medium_hidden_intermediate_00432 | In a study of cervical adenocarcinoma cell lines (GSE11238), a gene upregulated by Vaccinia virus and associated with heparin-induced thrombocytopenia showed a log2 fold change of approximately 1.10 and an adjusted p-value of approximately 2.04e-06. Which protein is encoded by this specific gene? | Bis(5'-adenosyl)-triphosphatase | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00432","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 associated with hepari... | |
medium_hidden_intermediate_00433 | A specific gene serves as a marker for T cells and is associated with leukemia. Evidence indicates that in cultures of leukemia cells from 21 of 30 patients, cells with stellate morphology and cell fractions positive for CD1a and/or this specific gene were present. Which disease is linked to this gene via a biomarker r... | vasculitis | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00433","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"A specific gene serves as a marker for T cells and is associated with leukemia. Evidence indicates that in cultures of leuke... | |
medium_hidden_intermediate_00437 | Human betaherpesvirus 5 is reported to downregulate a gene that participates in the metabolism of proteins. In a study of foreskin fibroblast cell lines (GSE132081), one such gene exhibited a log2 fold change of approximately -1.156 and an adjusted p-value of 0.04803. What molecular function is enabled by this specific... | protein binding | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00437","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 participates in the metabolism of proteins. In a study of fo... | |
medium_hidden_intermediate_00438 | In a study of cervical adenocarcinoma cell lines (GSE11238), a gene downregulated by Vaccinia virus and involved in post-translational protein modification was found to have a log2 fold change of approximately -3.5 and an adjusted p-value of 0.017. Which biological process is this specific gene involved in? | positive regulation of autophagy | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00438","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 downregulated by Vaccinia virus and involved in post-tra... | |
medium_hidden_intermediate_00440 | Two genes are downregulated by Severe acute respiratory syndrome-related coronavirus and subsequently bind to CXCR1. One of these genes exhibits a log2 fold change of -3.103 and an adjusted p-value of 0.03629 in lung cells. Which disease is associated with this specific gene as a biomarker? | ulcer disease | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00440","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 subsequently bind to CXCR1. One of ... | |
medium_hidden_intermediate_00441 | In a study of macrophages (GSE108897), a gene upregulated by Human immunodeficiency virus 1 and enabling calcium ion binding was found to have a log2 fold change of approximately 1.234 and an adjusted p-value of 0.01699. Which protein does this specific gene interact with? | FXR1 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00441","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of macrophages (GSE108897), a gene upregulated by Human immunodeficiency virus 1 and enabling calcium ion binding... | |
medium_hidden_intermediate_00442 | Severe acute respiratory syndrome-related coronavirus upregulates a gene that is located in the voltage-gated potassium channel complex. Evidence for this gene reports a log2 fold change of 1.003 and an adjusted p-value of 0.01405. Which biological process is this gene involved in? | potassium ion transport | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00442","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 located in the voltage-gated potassium chan... | |
medium_hidden_intermediate_00443 | A gene is upregulated by Severe acute respiratory syndrome-related coronavirus and is involved in peptidyl-lysine methylation. Experimental data for this gene reports a log2 fold change of 1.546 and an adjusted p-value of 0.04039. Which protein is encoded by this gene? | ATP synthase subunit C lysine N-methyltransferase | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00443","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 is involved in peptidyl-lysine methylatio... | |
medium_hidden_intermediate_00444 | Severe acute respiratory syndrome-related coronavirus upregulates a gene that interacts with USP48. Evidence for one such gene reports a log2 fold change of 1.859 and an adjusted p-value of 0.001215. Which protein is encoded by that gene? | Zinc finger protein 232 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00444","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 USP48. Evidence for one such ge... | |
medium_hidden_intermediate_00447 | Zika virus downregulates a gene that is involved in the negative regulation of mitochondrial fusion. In a study of glioma stem cells (GSE114907), one such gene exhibited a log2 fold change of -1.028 and an adjusted p-value of 0.002575. Which protein is encoded by this specific gene? | BCL2/adenovirus E1B 19 kDa protein-interacting protein 3 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00447","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 negative regulation of mitochondrial fusion. In a study of glioma st... | |
medium_hidden_intermediate_00448 | A gene is upregulated by Severe acute respiratory syndrome-related coronavirus and interacts with DYRK1B. Experimental data for this gene reports a log2 fold change of 1.773 and an adjusted p-value of 0.03478. Which disease is associated with this gene? | pterin-4 alpha-carbinolamine dehydratase 1 deficiency | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00448","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 interacts with DYRK1B. Experimental data ... | |
medium_hidden_intermediate_00450 | Starting from the kidney inner medulla collecting duct epithelial cell, there are two potential hierarchical paths leading to a medullary cell type via 'is a' relationships. One path proceeds through an intermediate entity described as 'An epithelial cell that is part of some inner medullary collecting duct.' Which ana... | inner medulla of kidney | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00450","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Starting from the kidney inner medulla collecting duct epithelial cell, there are two potential hierarchical paths leading t... | |
medium_hidden_intermediate_00451 | Rhinovirus A upregulates a specific gene that is also associated with breast carcinoma. Experimental data for this gene in bronchial epithelial cells (study GSE13396) shows a log2 fold change of approximately 2.175 and an adjusted p-value of 0.0344. Which disease is linked to this gene via a biomarker relationship? | hepatocellular carcinoma | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00451","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Rhinovirus A upregulates a specific gene that is also associated with breast carcinoma. Experimental data for this gene in b... | |
medium_hidden_intermediate_00453 | Human betaherpesvirus 5 is reported to downregulate a gene that participates in PI Metabolism. In a study of foreskin fibroblast cell lines (GSE111036), one such gene exhibited a log2 fold change of approximately -1.506 and an adjusted p-value of 0.04313. Which protein is encoded by this specific gene? | Myotubularin-related protein 10 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00453","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 participates in PI Metabolism. In a study of foreskin fibrob... | |
medium_hidden_intermediate_00454 | Two genes are upregulated by Human immunodeficiency virus 1 and are enriched in naive CD8+ T cells. One of these genes exhibits a log2 fold change of 1.124 and an adjusted p-value of 0.002525 in macrophages (study GSE108897). Which biological process is this specific gene involved in? | establishment of glial blood-brain barrier | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00454","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are upregulated by Human immunodeficiency virus 1 and are enriched in naive CD8+ T cells. One of these genes exhib... | |
medium_hidden_intermediate_00455 | Two genes are downregulated by Pegivirus C and interact with YWHAG. One of these genes exhibits a log2 fold change of -1.835 and an adjusted p-value of 0.0006059 in peripheral blood mononuclear cells. Which biological process is this specific gene involved in? | stress granule assembly | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00455","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are downregulated by Pegivirus C and interact with YWHAG. One of these genes exhibits a log2 fold change of -1.835... | |
medium_hidden_intermediate_00456 | Human betaherpesvirus 5 downregulates a gene that interacts with YEATS4. Experimental data for this intermediate gene in foreskin fibroblast cell lines (study GSE111036) reports a log2 fold change of approximately -1.42 and an adjusted p-value of approximately 0.047. Which disease is associated with this intermediate g... | endometriosis | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00456","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Human betaherpesvirus 5 downregulates a gene that interacts with YEATS4. Experimental data for this intermediate gene in for... | |
medium_hidden_intermediate_00457 | Influenza A virus upregulates a specific gene that is enriched in Regulatory T (Treg) cells. Evidence for this gene reports a log2 fold change of 1.209 and an adjusted p-value of 0.00769. Which cellular component is this gene located in? | nucleus | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00457","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Influenza A virus upregulates a specific gene that is enriched in Regulatory T (Treg) cells. Evidence for this gene reports ... | |
medium_hidden_intermediate_00459 | Two genes are structurally linked from Pegivirus C to lung carcinoma via a downregulation relationship followed by genomic alterations. One of these genes exhibits a log2 fold change of -1.317 and an adjusted p-value of 0.04285 in peripheral blood mononuclear cells (study GSE131504). Which disease is associated with th... | pachyonychia congenita 3 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00459","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are structurally linked from Pegivirus C to lung carcinoma via a downregulation relationship followed by genomic a... | |
medium_hidden_intermediate_00461 | Severe acute respiratory syndrome-related coronavirus upregulates a gene that is involved in DNA cytosine deamination. Evidence for one such gene reports a log2 fold change of 1.091 and an adjusted p-value of 0.005235. Which protein is encoded by that gene? | Cytidine and dCMP deaminase domain-containing protein 1 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00461","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 DNA cytosine deamination. Evide... | |
medium_hidden_intermediate_00462 | In a study of pleural mesothelioma cells (GSE117668), Measles morbillivirus upregulates a gene that interacts with HIST1H3C. One such gene exhibits a log2 fold change of 2.393 and an adjusted p-value of 0.0009858. Which protein is encoded by this specific gene? | Chromatin assembly factor 1 subunit B | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00462","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of pleural mesothelioma cells (GSE117668), Measles morbillivirus upregulates a gene that interacts with HIST1H3C.... | |
medium_hidden_intermediate_00464 | In a study of cervical adenocarcinoma cell lines (GSE11238), a gene upregulated by Vaccinia virus and known to bind SOS1 exhibits a log2 fold change of 2.250 and an adjusted p-value of 1.417e-10. Which disease is associated with genomic alterations in this specific gene? | myocardial infarction | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00464","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 known to bind SOS1 exh... | |
medium_hidden_intermediate_00465 | Pegivirus C is reported to downregulate a gene that enables cadherin binding. In a study of peripheral blood mononuclear cells (GSE131504), one such gene exhibited a log2 fold change of -1.171 and an adjusted p-value of 0.0131. Which protein is encoded by this gene? | Switch-associated protein 70 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00465","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 cadherin binding. In a study of peripheral blood mononuclear cel... | |
medium_hidden_intermediate_00466 | In a study of lung cells (GSE148697), Severe acute respiratory syndrome-related coronavirus was found to downregulate a specific gene, which in turn binds to NGF. This gene exhibited a log2 fold change of approximately -1.264 and an adjusted p-value of 0.0001765. Which protein is encoded by this gene? | Megakaryocyte-associated tyrosine-protein kinase | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00466","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"In a study of lung cells (GSE148697), Severe acute respiratory syndrome-related coronavirus was found to downregulate a spec... | |
medium_hidden_intermediate_00467 | Human betaherpesvirus 5 upregulates a gene that is associated with carcinoma. Experimental data for this gene in foreskin fibroblast cell lines (study GSE130665) reports a log2 fold change of approximately 1.87 and an adjusted p-value of 1.60e-05. Which protein is encoded by this gene? | Protocadherin-17 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00467","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Human betaherpesvirus 5 upregulates a gene that is associated with carcinoma. Experimental data for this gene in foreskin fi... | |
medium_hidden_intermediate_00468 | In a study of rhabdomyosarcoma cells (GSE103308), Enterovirus A infection was found to upregulate a gene that is involved in the G protein-coupled receptor signaling pathway. One such gene exhibited a log2 fold change of 2.920 and an adjusted p-value of 0.00187. Which protein is encoded by this specific gene? | Adhesion G-protein coupled receptor G2 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00468","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 is involved in... | |
medium_hidden_intermediate_00469 | A gene is downregulated by Primate bocaparvovirus 1 and is involved in the positive regulation of cold-induced thermogenesis. Experimental data for this gene shows a log2 fold change of -5.173 and an adjusted p-value of 0.0006051. Which disease is associated with this gene as a biomarker? | lung carcinoma | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00469","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 involved in the positive regulation of cold-induced thermogenesis... | |
medium_hidden_intermediate_00472 | Human betaherpesvirus 5 is known to downregulate a specific gene that is involved in signal transduction. Experimental data for this gene in foreskin fibroblast cell lines reports a log2 fold change of approximately -1.598 and an adjusted p-value of 0.03692. Which cellular component is this gene located in? | extracellular space | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00472","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Human betaherpesvirus 5 is known to downregulate a specific gene that is involved in signal transduction. Experimental data ... | |
medium_hidden_intermediate_00476 | Two genes are upregulated by Vaccinia virus and serve as biomarkers for lung cancer. One of these genes exhibits a log2 fold change of approximately 1.85 and an adjusted p-value of approximately 1.05e-06 in cervical adenocarcinoma cell lines (study GSE11238). Which biological process is this specific gene involved in? | cholesterol biosynthetic process | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00476","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are upregulated by Vaccinia virus and serve as biomarkers for lung cancer. One of these genes exhibits a log2 fold... | |
medium_hidden_intermediate_00477 | EED interacts with a protein that is located in the nucleus. Evidence indicates that this protein forms a stable complex with PRC2 and contains Jumonji and ARID domains. Which disease is associated with this protein as a biomarker? | schizophrenia | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00477","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"EED interacts with a protein that is located in the nucleus. Evidence indicates that this protein forms a stable complex wit... | |
medium_hidden_intermediate_00478 | Two genes are structurally linked from Hepacivirus C to colon carcinoma via a downregulation relationship followed by a biomarker association. One of these genes exhibits a log2 fold change of -2.416 and an adjusted p-value of 8.123e-05 in peripheral blood mononuclear cells. Which cell type is enriched for this specifi... | naive thymus-derived CD4-positive, alpha-beta T cell | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00478","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"Two genes are structurally linked from Hepacivirus C to colon carcinoma via a downregulation relationship followed by a biom... | |
medium_hidden_intermediate_00479 | DLG1 and LIN7C are linked by a two-step interaction chain involving an intermediate protein. One such intermediate is part of a complex containing SAP97, CASK, Veli, and Mint1, which associates with Kir2 channels via the C-terminal PDZ-binding motif, as demonstrated by affinity interaction pulldown assays and co-immuno... | Inward rectifier potassium channel 4 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00479","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"DLG1 and LIN7C are linked by a two-step interaction chain involving an intermediate protein. One such intermediate is part o... | |
medium_hidden_intermediate_00482 | A gene is upregulated by Measles morbillivirus and participates in the Immune System. Experimental data for this gene in pleural mesothelioma cells (study GSE117668) reports a log2 fold change of 1.387 and an adjusted p-value of 0.01175. Which disease is associated with this gene through genomic alterations? | essential thrombocythemia | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00482","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"A gene is upregulated by Measles morbillivirus and participates in the Immune System. Experimental data for this gene in ple... | |
medium_hidden_intermediate_00483 | In a study of macrophages (GSE108897), a gene is identified as being downregulated by Human immunodeficiency virus 1 and serving as a biomarker for lung cancer. This specific gene exhibits a log2 fold change of -1.564 and an adjusted p-value of 0.001207. Which protein is encoded by this gene? | Coiled-coil domain-containing protein 85B | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00483","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_00484 | A gene is downregulated by Enterovirus A and participates in Viral Infection Pathways. Experimental data for this gene in rhabdomyosarcoma cells (study GSE103308) reports a log2 fold change of -1.405 and an adjusted p-value of 0.01417. Which cell type is this gene enriched in? | plasmacytoid dendritic cell | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00484","difficulty":"medium","subtype":"hidden_intermediate","detailed_subtype":"upstream_downstream_context_joint","locator":"node_context_joint","question":"A gene is downregulated by Enterovirus A and participates in Viral Infection Pathways. Experimental data for this gene in rh... | |
medium_hidden_intermediate_00486 | Two genes are downregulated by Severe acute respiratory syndrome-related coronavirus and are involved in the positive regulation of the apoptotic process. One of these genes exhibits a log2 fold change of -1.490 and an adjusted p-value of 0.01708 in a specific study. Which gene interacts with the gene identified by the... | RPS6KA3 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00486","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 are involved in the positive regula... | |
medium_hidden_intermediate_00488 | In a study of cervical adenocarcinoma cell lines (GSE122967), Cardiovirus A infection leads to the downregulation of a specific gene, which in turn encodes a protein that binds to RBBP7. The downregulated gene exhibits a log2 fold change of -2.378 and an adjusted p-value of 0.0227. Which protein is encoded by this down... | AT-rich interactive domain-containing protein 4A | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00488","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 leads to the downregulation of a speci... | |
medium_hidden_intermediate_00489 | Severe acute respiratory syndrome-related coronavirus downregulates a gene that is involved in protein maturation. Evidence for this gene shows a log2 fold change of -1.165 and an adjusted p-value of 0.001974. Which gene interacts with this downregulated gene? | SQSTM1 | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00489","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 involved in protein maturation. Evidence ... | |
medium_hidden_intermediate_00491 | In a study of non-small cell lung adenocarcinoma cells infected with Influenza A virus, a specific gene is upregulated by the virus and interacts with YWHAE. This gene exhibits a log2 fold change of approximately 1.02 and an adjusted p-value of 7.126e-06. Which biological process is this gene involved in? | positive regulation of translation | Medium | hidden_intermediate | {"qa_id":"medium_hidden_intermediate_00491","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 cells infected with Influenza A virus, a specific gene is upregulated by th... |
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