Table 1. The top 100 data sets with highest tubulin-gene–expression Pearson correlation from the human platform.
Annotated are studies rank-ordered by decreasing tubulin-gene–expression Pearson correlation, with their associated GEO identifiers. Extracted from the CLIC report is differential tubulin gene expression. Unless NA, down-regulated (down) or up-regulated (up) tubulin mRNA levels are annotated. Based on published literature, perturbations in the listed studies are annotated into 11 groups, and their effect on microtubule cytoskeleton is marked as known (yes) or unknown (no).
| GSE | Title of the Study | Average Pearson Correlation Score | DGE of Tubulin, Up/Down/NA | Annotation | Known Microtubule Poison, Yes/No |
|---|---|---|---|---|---|
| GSE59931 | Glutamine deprivation in U2OS cells | 0.98 | down | Metabolites | yes |
| GSE36529 | Expression data from CtBP knockdown MCF-7 cells | 0.98 | up | Gene expression | no |
| GSE32158 | Bisphenol A Regulates the Expression of DNA Repair Genes in Human Breast Epithelial Cells (expression data) | 0.97 | up | Industrial toxin | yes |
| GSE23952 | Expression data from TGF-beta treated Panc-1 pancreatic adenocarcinoma cell line | 0.97 | up | Inflammation | no |
| GSE22522 | Comparison of the transcriptome of K-LEC spheroids to control LEC spheroids | 0.96 | up | Chemical treatment | no |
| GSE56843 | Steroid Receptor Coactivator 1 is an Integrator of Glucose and NAD(+)/NADH Homeostasis | 0.96 | down | Metabolites | no |
| GSE20719 | Gene expression changes upon treatment of T47D breast cancer cells with the Pan-PI3 kinase inhibitor GDC-0941 | 0.96 | down | Signaling | yes |
| GSE4217 | Spheroid Formation and Recovery of Human Foreskin Fibroblasts at Ambient Temperature | 0.95 | down | Culture condition | no |
| GSE46708 | CD24 targets | 0.94 | down | Inflammation | no |
| GSE35428 | Transcriptional profiling of clinically relevant SERMs and SERM/estradiol complexes in a cellular model of breast cancer | 0.94 | NA | Hormone/vitamin treatment | yes |
| GSE7745 | Mapping of HNF4 binding sites, acetylation of histone H3 and expression in Caco2 cells | 0.92 | down | Gene expression | no |
| GSE46924 | 27-Hydroxycholesterol links cholesterol and breast cancer pathophysiology. | 0.91 | up | Hormone/vitamin treatment | no |
| GSE58605 | Expression data from A549 cells infected by adenovirus not carrying virus associated sequences in the genome | 0.90 | down | Virus infection | yes |
| GSE4218 | Spheroid Formation and Recovery of Human T98G Glioma Cells at Ambient Temperature | 0.89 | down | Culture condition | no |
| GSE15499 | HDAC5 is a repressor of angiogenesis and determines the angiogenic gene expression pattern of endothelial cells | 0.89 | NA | Signaling | no |
| GSE52659 | Expression data from WEEV infected BE(2)-C/m cells | 0.88 | down | Virus infection | yes |
| GSE10444 | gene expression levels in long-term cultures of human dental pulp stem cells | 0.88 | down | Differentiation/3D culture | no |
| GSE43700 | Microarray analysis of IL-10 stimulated adherent peripheral blood mononuclear cells | 0.88 | up | Inflammation | no |
| GSE29625 | Human embryonic stem cells derived from embryos at different stages of development share similar transcription profiles | 0.87 | NA | Differentiation/3D culture | yes |
| GSE12098 | Comparison of the migration profile of MSCs | 0.86 | NA | Chemical treatment | no |
| GSE36085 | Regulation of Autophagy by VEGF-C axis in cancer | 0.86 | NA | Signaling | no |
| GSE32161 | Microarray analysis of genes associated with cell surface NIS protein levels in breast cancer | 0.85 | down | Metabolites | no |
| GSE42733 | Gene expression profile of Nurse-Like Cells (NLC) derived from chronic lymphocytic leukemia | 0.85 | up | Transformation | no |
| GSE36176 | Gene expression arrays on lung cancer cells exposed to Notch inhibitor | 0.85 | NA | Chemical treatment | no |
| GSE16070 | Networking of differentially expressed genes in human MCF7 breast cancer cells resistant to methotrexate | 0.84 | up | Chemical treatment | no |
| GSE23399 | Gene expression profling of human breast carcinoma-associated fibroblasts treated with paclitaxol or doxorubicin at therapeutically relevant doses | 0.84 | up | Microtubule poison | yes |
| GSE17368 | Epiphyseal cartilage | 0.84 | NA | Other | no |
| GSE14001 | PAX2: A Potential Biomarker for Low Malignant Potential Ovarian Tumors and Low-Grade Serous Ovarian Carcinomas | 0.83 | down | Gene expression | no |
| GSE16659 | Expression data of HGF/cMET pathway in prostate cancer DU145 cell line | 0.83 | NA | Signaling | no |
| GSE19136 | Gene expression response to implanted drug (paclitaxel)-eluting or bare metal stents in denuded human LIMA arteries | 0.83 | up | Microtubule poison | yes |
| GSE14773 | Roles of EMT regulator in colon cancer | 0.83 | up | Transformation | no |
| GSE31641 | Expression data from treatment of human melanocytes with phenolic compounds | 0.82 | down | Industrial toxin | no |
| GSE13142 | HepG2/C3A cells cultured for 42 h in complete or leucine-devoid medium | 0.81 | down | Metabolites | no |
| GSE19495 | Global Gene Expression of Human Hepatoma Cells After Amino Acid Limitation | 0.81 | down | Metabolites | no |
| GSE9649 | Expression studies of HMEC exposed to lactic acidosis and hypoxia | 0.81 | multiple | Chemical treatment | no |
| GSE7345 | Germline NRAS mutation causes a novel human autoimmune lymphoproliferative syndrome | 0.81 | NA | Signaling | no |
| GSE5838 | Expression data from transplanted intestine bifor signs of rejection, and when their was signs of rejection | 0.81 | NA | Other | no |
| GSE42853 | Distinct gene expression profiles associated with the susceptibility of pathogen-specific CD4 T cells to HIV-1 infection | 0.80 | NA | Virus infection | no |
| GSE9835 | Gene Expression Changes in Response to Baculoviral Vector Transduction of Neuronal Cells In Vitro | 0.80 | down | Virus infection | yes |
| GSE34635 | Defining a No Observable Transcriptional Effect Level (NOTEL) for low dose N-OH-PhIP exposures in human BEAS-2B bronchioepithelial cells | 0.80 | up | Industrial toxin | no |
| GSE12875 | Impaired T-cell function in patients with novel ICOS | 0.79 | up | Inflammation | no |
| GSE8588 | OH-PBDE-induced gene expression profiling in H295R adrenocortical carcinoma cells | 0.79 | down | Industrial toxin | no |
| GSE17044 | Expression data from androgen treated LNCaP cells | 0.79 | NA | Hormone/vitamin treatment | no |
| GSE33143 | Targeted disruption of the BCL9/beta-catenin complex in cancer | 0.79 | up | Signaling | no |
| GSE16089 | Networking of differentially expressed genes in human Saos-2 osteosarcoma cells resistant to methotrexate | 0.79 | up | Chemical treatment | no |
| GSE51130 | Using a rhabdomyosarcoma patient-derived xenograft to examine precision medicine approaches and model acquired resistance | 0.79 | up | Chemical treatment | no |
| GSE49085 | Identification of bone morphogenetic protein (BMP)-7 as a key instructive factor for human epidermal Langerhans cell differentiation and proliferation | 0.78 | NA | Differentiation/3D culture | no |
| GSE53731 | Expression data from hepatitis E virus inoculated PLC/PRF/5 cells | 0.78 | NA | Virus infection | yes |
| GSE44540 | Gene expression in hTERT-RPE1 cells with overexpression of MFRP | 0.78 | up | Other | no |
| GSE15065 | C/EBPbeta-2 regulation of gene expression in MCF10A cells | 0.78 | NA | Chemical treatment | no |
| GSE19510 | Transcriptional response of normal human lung WI-38 fibroblasts to benzo[a]pyrene diol epoxide: a dose-response study | 0.78 | down | Industrial toxin | no |
| GSE16356 | Lymphatic endothelial cells (LEC) treated with a MAF-targeted siRNA | 0.78 | down | Gene expression | no |
| GSE26884 | Bisphenol A Induced the Expression of DNA Repair Genes in Human Breast Epithelial Cells | 0.77 | down | Industrial toxin | yes |
| GSE45636 | eIF3a in Urinary Bladder Cancer, in vivo and in vitro insights | 0.77 | down | Gene expression | no |
| GSE9677 | Gene expression profile in HUVECs before and after Angiopoietin stimulation | 0.77 | NA | Chemical treatment | no |
| GSE5110 | 48h Immobilization in human | 0.77 | down | Other | no |
| GSE23764 | Expression data from actomyosin contractility regulated genes | 0.77 | up | Chemical treatment | no |
| GSE17785 | Endogenous expression of an oncogenic PI3K mutation leads to activated PI3K pathway signaling and an invasive phenotype | 0.77 | up | Signaling | no |
| GSE34512 | PBEF Knockdown in HMVEC-LBI | 0.76 | up | Metabolites | no |
| GSE40517 | Selective Requirement for Mediator MED23 in Ras-active Lung Cancer | 0.75 | up | Signaling | no |
| GSE33606 | Gene expression changes in human hepatocytes exposed to VX (O-ethyl S-[2-(diisopropylamino)ethyl] methylphosphonothiolate) | 0.75 | NA | Chemical treatment | no |
| GSE2328 | Application of genome-wide expression analysis to human health & disease | 0.75 | NA | Transformation | no |
| GSE29384 | Tetracycline-Inducible Cyr61 effect on LN229 glioma cells | 0.75 | NA | Chemical treatment | no |
| GSE45417 | Expression data from knockdown of ZXDC1/2 in PMA-treated U937 | 0.75 | down | Gene expression | no |
| GSE37648 | Gene signatures of normal hTERT immortalized ovarian epithelium and fallopian tube epithelium (paired cultures from 2 donor patients) | 0.74 | NA | Differentiation/3D culture | no |
| GSE6400 | Cultured A549 lung cancer cells treated with actinomycin D and sapphyrin PCI-2050 | 0.74 | up | Chemical treatment | no |
| GSE13378 | Exposure of squamous esophageal cell line HET-1A to deoxycholic acid (DCA) | 0.74 | down | Chemical treatment | no |
| GSE37474 | Dexamethasone induced gene expression changes in the human trabecular meshwork | 0.74 | NA | Chemical treatment | no |
| GSE28339 | Gene expression data following Cyclin T2 and Cyclin T1 depletion by shRNA in HeLa cells | 0.73 | NA | Signaling | no |
| GSE20125 | Transcriptome analysis of human Wharton's jelly stem cells: meta-analysis | 0.73 | multiple | Other | no |
| GSE22533 | Breast cancer cells resistant to hormone deprivation maintain an estrogen receptor alpha-dependent, E2F-directed transcriptional program | 0.73 | down | Hormone/vitamin treatment | no |
| GSE38517 | Expression data from fibroblasts derived from human normal oral mucosa, oral dysplasia and oral squamous cell carcinoma | 0.72 | up | Transformation | no |
| GSE47874 | The Heritage (HEalth, RIsk factors, exercise Training And GEnetics) family study | 0.72 | multiple | Other | no |
| GSE39999 | Filarial nematode AsnRS interacts with interleukin 8 receptors in iDCs but causes different gene expression patterns compared to iDCs stimulated by interleukin 8 | 0.72 | up | Inflammation | no |
| GSE26599 | Gene expression profile in response to doxorubicin-rapamycin combined treatment of HER-2 overexpressing human mammary epithelial cell lines | 0.72 | multiple | Chemical treatment | no |
| GSE20037 | cdr2 siRNA knockdown during passage through mitosis: HeLa cells, Rat1 wild type and c-myc null cells | 0.72 | up | Inflammation | no |
| GSE33243 | Human acute myelogenous leukemia-initiating cells treated with fenretinide | 0.71 | down | Chemical treatment | no |
| GSE12274 | Mesenchymal Stromal Cells of Different Donor Age | 0.71 | multiple | Other | no |
| GSE4824 | Analysis of lung cancer cell lines | 0.71 | multiple | Transformation | no |
| GSE13054 | Genes upregulated by HLX | 0.71 | NA | Gene expression | no |
| GSE16524 | Expression data from skin fibroblasts derived from Setleis Syndrome patients and normal controls | 0.71 | NA | Gene expression | no |
| GSE6494 | Expression data from human liver cell line induced by PCB153 | 0.70 | multiple | Chemical treatment | no |
| GSE32892 | A genome-wide and dose-dependent inhibition map of androgen receptor binding by small molecules reveals its regulatory program upon antagonism | 0.69 | down | Hormone/vitamin treatment | no |
| GSE4289 | Host transcriptome changes associated with episome loss and selection of keratinocytes containing integrated HPV16 | 0.69 | down | Virus infection | no |
| GSE24224 | Analysis of genome-wide methylation and gene expression induced by decitabine treatment in HL60 leukemia cell line | 0.69 | up | Chemical treatment | no |
| GSE17090 | Expression data from human adipose stem cells expanded in allogeneic human serum and fetal bovine serum | 0.68 | down | Metabolites | no |
| GSE40220 | Intestinal filter for use in oesophageal cancer research | 0.68 | NA | Other | no |
| GSE15372 | Expression data from A2780 (cisplatin-sensitive) and Round5 A2780 (cisplatin-resistant) cell lines | 0.68 | up | Chemical treatment | no |
| GSE16538 | Genome-wide gene expression profile analysis in pulmonary sarcoidosis | 0.67 | down | Other | no |
| GSE11208 | Chronic nicotine exposure (kuo-affy-human-232930) | 0.67 | NA | Chemical treatment | no |
| GSE14986 | Antiestrogen-resistant subclones of MCF-7 human breast cancer cells are derived from a common clonal drug-resistant progenitor | 0.67 | multiple | Hormone/vitamin treatment | no |
| GSE11352 | Timecourse of estradiol (10nM) exposure in MCF7 breast cancer cells | 0.67 | up | Hormone/vitamin treatment | no |
| GSE16054 | Transient expression of misfolded surfactant protein C | 0.67 | down | Other | no |
| GSE35170 | Expression data from U87-2M1 glioma cells transduced with baculoviral control decoy vector or baculoviral miR-10b decoy vector | 0.66 | down | Virus infection | no |
| GSE31472 | Host cell gene expression in Influenza A/duck/Malaysia/F118/08/2004 (H5N2) infected A549 cells at 2, 4, 6, 8, and 10 hours post infection | 0.66 | down | Virus infection | yes |
| GSE17624 | Expression data from human Ishikawa cells treated with Bisphenol A | 0.65 | down | Industrial toxin | yes |
| GSE20540 | Gene expression profiles of myeloma cells interacting with bone marrow stromal cells in vitro | 0.61 | up | Other | no |
| GSE18182 | Expression profile of lung adenocarcinoma, A549 cells following targeted depletion of non-metastatic 2 (NME2/NM23 H2) | 0.59 | down | Gene expression | no |
| GSE30494 | Microarray analysis to identify downstream genes after treatment with siKDM3A | 0.58 | NA | Gene expression | no |
| GSE33146 | Expression data from DKAT breast cancer cell line pre- and post-EMT | 0.57 | down | Transformation | no |
Abbreviations: CLIC, CLustering by Inferred Co-expression; DGE, differential gene expression; GEO, Gene Expression Omnibus; GSE, gene set enrichment; NA, not applicable.