upregulated in cisplatin treated TBX2 mutant MCF-7
Description:
Western blot analysis was performed to measure protein amounts in MCF-7 cells treated with cisplatin and an antisense RNA to TBX2. Genes were entered as HGNC identifiers.
lower in cisplatin-treated MCF-7 TBX2 mutant cells
Description:
Activation of proteins was detected in various ways.This set describes proteins whose activity was lower when MCF-7 cells were treated with cisplatin and an antisense RNA to TBX2.
List of positional candidate genes after correcting for multiple testing and controlling the false discovery rate from genome wide association studies (GWAS) retrieved from the NHGRI-EBI Catalog of published genome-wide association studies (http://www.ebi.ac.uk/gwas/). The disease/trait examined in this study, as reported by the authors, was Sitting height ratio. The EFO term sitting height ratio was annotated to this set after curation by NHGRI-EBI. Intergenic SNPS were mapped to both the upstream and downstream gene. P-value uploaded. This gene set was generated using gwas2gs v. 0.1.8 and the GWAS Catalog v. 1.0.1.
Authors:
Y Chan, RM Salem, YH Hsu, G McMahon, TH Pers, S Vedantam, T Esko, MH Guo, ET Lim, L Franke, GD Smith, DP Strachan, JN Hirschhorn
List of positional candidate genes after correcting for multiple testing and controlling the false discovery rate from genome wide association studies (GWAS) retrieved from the NHGRI-EBI Catalog of published genome-wide association studies (http://www.ebi.ac.uk/gwas/). The disease/trait examined in this study, as reported by the authors, was Mean arterial pressure. The EFO term mean arterial pressure was annotated to this set after curation by NHGRI-EBI. Intergenic SNPS were mapped to both the upstream and downstream gene. P-value uploaded. This gene set was generated using gwas2gs v. 0.1.8 and the GWAS Catalog v. 1.0.1.
Authors:
N Kato, M Loh, F Takeuchi, N Verweij, X Wang, W Zhang, TN Kelly, D Saleheen, B Lehne, I Mateo Leach, AW Drong, J Abbott, S Wahl, ST Tan, WR Scott, G Campanella, M Chadeau-Hyam, U Afzal, TS Ahluwalia, MJ Bonder, P Chen, A Dehghan, TL Edwards, T Esko, MJ Go, SE Harris, J Hartiala, S Kasela, A Kasturiratne, CC Khor, ME Kleber, H Li, ZY Mok, M Nakatochi, NS Sapari, R Saxena, AF Stewart, L Stolk, Y Tabara, AL Teh, Y Wu, JY Wu, Y Zhang, I Aits, A Da Silva Couto Alves, S Das, R Dorajoo, JC Hopewell, YK Kim, RW Koivula, J Luan, LP Lyytikäinen, QN Nguyen, MA Pereira, I Postmus, OT Raitakari, M Scannell Bryan, RA Scott, R Sorice, V Tragante, M Traglia, J White, K Yamamoto, Y Zhang, LS Adair, A Ahmed, K Akiyama, R Asif, T Aung, I Barroso, A Bjonnes, TR Braun, H Cai, LC Chang, CH Chen, CY Cheng, YS Chong, R Collins, R Courtney, G Davies, G Delgado, LD Do, PA Doevendans, RT Gansevoort, YT Gao, TB Grammer, N Grarup, J Grewal, D Gu, GS Wander, AL Hartikainen, SL Hazen, J He, CK Heng, JE Hixson, A Hofman, C Hsu, W Huang, LL Husemoen, JY Hwang, S Ichihara, M Igase, M Isono, JM Justesen, T Katsuya, MG Kibriya, YJ Kim, M Kishimoto, WP Koh, K Kohara, M Kumari, K Kwek, NR Lee, J Lee, J Liao, W Lieb, DC Liewald, T Matsubara, Y Matsushita, T Meitinger, E Mihailov, L Milani, R Mills, N Mononen, M Müller-Nurasyid, T Nabika, E Nakashima, HK Ng, K Nikus, T Nutile, T Ohkubo, K Ohnaka, S Parish, L Paternoster, H Peng, A Peters, ST Pham, MJ Pinidiyapathirage, M Rahman, H Rakugi, O Rolandsson, MA Rozario, D Ruggiero, CF Sala, R Sarju, K Shimokawa, H Snieder, T Sparsø, W Spiering, JM Starr, DJ Stott, DO Stram, T Sugiyama, S Szymczak, WH Tang, L Tong, S Trompet, V Turjanmaa, H Ueshima, AG Uitterlinden, S Umemura, M Vaarasmaki, RM van Dam, WH van Gilst, DJ van Veldhuisen, JS Viikari, M Waldenberger, Y Wang, A Wang, R Wilson, TY Wong, YB Xiang, S Yamaguchi, X Ye, RD Young, TL Young, JM Yuan, X Zhou, FW Asselbergs, M Ciullo, R Clarke, P Deloukas, A Franke, PW Franks, S Franks, Y Friedlander, MD Gross, Z Guo, T Hansen, MR Jarvelin, T Jørgensen, JW Jukema, M Kähönen, H Kajio, M Kivimaki, JY Lee, T Lehtimäki, A Linneberg, T Miki, O Pedersen, NJ Samani, TI Sørensen, R Takayanagi, D Toniolo, H Ahsan, H Allayee, YT Chen, J Danesh, IJ Deary, OH Franco, L Franke, BT Heijman, JD Holbrook, A Isaacs, BJ Kim, X Lin, J Liu, W März, A Metspalu, KL Mohlke, DK Sanghera, XO Shu, JB van Meurs, E Vithana, AR Wickremasinghe, C Wijmenga, BH Wolffenbuttel, M Yokota, W Zheng, D Zhu, P Vineis, SA Kyrtopoulos, JC Kleinjans, MI McCarthy, R Soong, C Gieger, J Scott, YY Teo, J He, P Elliott, ES Tai, P van der Harst, JS Kooner, JC Chambers
Differential gene expression between CS13 and CS15
Description:
Human craniofacial tissues were collected from the Joint MRC/Wellcome Trust Human Developmental Biology (HDBR). Donations of tissue to HDBR are made under-informed ethical consent with Research Tissue Bank ethical approval by women undergoing termination of pregnancy. Gene expression profiles were generated from multiple biological replicates of primary craniofacial (CF) tissue from four distinct Carnegie Stages (CS) of the embryonic period, CS13, CS14, CS15, and CS17. Here the differential expression comparison between CS13 and CS15 is shown. Gene expressions values with log to the base 2 are presented with P-Adj <0.05. UBERON:0015789, cranial or facial muscle.
Authors:
Tara N Yankee, Sungryong Oh, Emma Wentworth Winchester, Andrea Wilderman, Kelsey Robinson, Tia Gordon, Jill A Rosenfeld, Jennifer VanOudenhove, Daryl A Scott, Elizabeth J Leslie, Justin Cotney
Data from GEO GSE194368 and analyzed using GEO2R, only top gene shown. Authors identified transcriptional adaptations of GR signaling in the amygdala of humans with OUD. Thus, GRs, their coregulators and downstream systems may represent viable therapeutic targets to treat the “stress side” of OUD.
Authors:
Stephanie A Carmack, Janaina C M Vendruscolo, M Adrienne McGinn, Jorge Miranda-Barrientos, Vez Repunte-Canonigo, Gabriel D Bosse, Daniele Mercatelli, Federico M Giorgi, Yu Fu, Anthony J Hinrich, Francine M Jodelka, Karen Ling, Robert O Messing, Randall T Peterson, Frank Rigo, Scott Edwards, Pietro P Sanna, Marisela Morales, Michelle L Hastings, George F Koob, Leandro F Vendruscolo
Differential gene expression between CS13 and CS15 - Log2FC
Description:
Human craniofacial tissues were collected from the Joint MRC/Wellcome Trust Human Developmental Biology (HDBR). Donations of tissue to HDBR are made under-informed ethical consent with Research Tissue Bank ethical approval by women undergoing termination of pregnancy. Gene expression profiles were generated from multiple biological replicates of primary craniofacial (CF) tissue from Carnegie Stages (CS) of the embryonic period, CS13, CS14, CS15, CS17, and CS22. Here the differential expression comparison between CS13 and CS15 is shown. Gene expressions values with log to the base 2, FC are presented with P-Adj <0.05. UBERON:0015789, cranial or facial muscle.
Authors:
Tara N Yankee, Sungryong Oh, Emma Wentworth Winchester, Andrea Wilderman, Kelsey Robinson, Tia Gordon, Jill A Rosenfeld, Jennifer VanOudenhove, Daryl A Scott, Elizabeth J Leslie, Justin Cotney
Differential gene expression between CS13 and CS15 - Adj-P value
Description:
Human craniofacial tissues were collected from the Joint MRC/Wellcome Trust Human Developmental Biology (HDBR). Donations of tissue to HDBR are made under-informed ethical consent with Research Tissue Bank ethical approval by women undergoing termination of pregnancy. Gene expression profiles were generated from multiple biological replicates of primary craniofacial (CF) tissue from Carnegie Stages (CS) of the embryonic period, CS13, CS14, CS15, CS17 and CS22. Here the differential expression comparison between CS13 and CS15 is shown. Gene expressions values, Ensembl Gene ids and the corresponding Adjusted P value are presented. UBERON:0015789, cranial or facial muscle.
Authors:
Tara N Yankee, Sungryong Oh, Emma Wentworth Winchester, Andrea Wilderman, Kelsey Robinson, Tia Gordon, Jill A Rosenfeld, Jennifer VanOudenhove, Daryl A Scott, Elizabeth J Leslie, Justin Cotney
Differential gene expression between CS14 and CS17 - Log2FC
Description:
Human craniofacial tissues were collected from the Joint MRC/Wellcome Trust Human Developmental Biology (HDBR). Donations of tissue to HDBR are made under-informed ethical consent with Research Tissue Bank ethical approval by women undergoing termination of pregnancy. Gene expression profiles were generated from multiple biological replicates of primary craniofacial (CF) tissue from Carnegie Stages (CS) of the embryonic period, CS13, CS14, CS17, CS17, and CS22. Here the differential expression comparison between CS14 and CS17 is shown. Gene expressions values with log to the base 2, FC are presented with P-Adj <0.05. UBERON:0015789, cranial or facial muscle.
Authors:
Tara N Yankee, Sungryong Oh, Emma Wentworth Winchester, Andrea Wilderman, Kelsey Robinson, Tia Gordon, Jill A Rosenfeld, Jennifer VanOudenhove, Daryl A Scott, Elizabeth J Leslie, Justin Cotney
Differential gene expression between CS14 and CS17 - Adj-P value
Description:
Human craniofacial tissues were collected from the Joint MRC/Wellcome Trust Human Developmental Biology (HDBR). Donations of tissue to HDBR are made under-informed ethical consent with Research Tissue Bank ethical approval by women undergoing termination of pregnancy. Gene expression profiles were generated from multiple biological replicates of primary craniofacial (CF) tissue from Carnegie Stages (CS) of the embryonic period, CS13, CS14, CS15, CS17 and CS22. Here the differential expression comparison between CS14 and CS17 is shown. Gene expressions values, Ensembl Gene ids and the corresponding Adjusted P value are presented. UBERON:0015789, cranial or facial muscle.
Authors:
Tara N Yankee, Sungryong Oh, Emma Wentworth Winchester, Andrea Wilderman, Kelsey Robinson, Tia Gordon, Jill A Rosenfeld, Jennifer VanOudenhove, Daryl A Scott, Elizabeth J Leslie, Justin Cotney
Differential gene expression between CS15 and CS22 - Adj-P value
Description:
Human craniofacial tissues were collected from the Joint MRC/Wellcome Trust Human Developmental Biology (HDBR). Donations of tissue to HDBR are made under-informed ethical consent with Research Tissue Bank ethical approval by women undergoing termination of pregnancy. Gene expression profiles were generated from multiple biological replicates of primary craniofacial (CF) tissue from Carnegie Stages (CS) of the embryonic period, CS13, CS14, CS17, CS17 and CS22. Here the differential expression comparison between CS15 and CS22 is shown. Gene expressions values, Ensembl Gene ids and the corresponding Adjusted P value are presented. UBERON:0015789, cranial or facial muscle.
Authors:
Tara N Yankee, Sungryong Oh, Emma Wentworth Winchester, Andrea Wilderman, Kelsey Robinson, Tia Gordon, Jill A Rosenfeld, Jennifer VanOudenhove, Daryl A Scott, Elizabeth J Leslie, Justin Cotney
Differential gene expression between CS14 and CS22 - Adj-P value
Description:
Human craniofacial tissues were collected from the Joint MRC/Wellcome Trust Human Developmental Biology (HDBR). Donations of tissue to HDBR are made under-informed ethical consent with Research Tissue Bank ethical approval by women undergoing termination of pregnancy. Gene expression profiles were generated from multiple biological replicates of primary craniofacial (CF) tissue from Carnegie Stages (CS) of the embryonic period, CS13, CS14, CS17, CS17 and CS22. Here the differential expression comparison between CS14 and CS22 is shown. Gene expressions values, Ensembl Gene ids and the corresponding Adjusted P value are presented. UBERON:0015789, cranial or facial muscle.
Authors:
Tara N Yankee, Sungryong Oh, Emma Wentworth Winchester, Andrea Wilderman, Kelsey Robinson, Tia Gordon, Jill A Rosenfeld, Jennifer VanOudenhove, Daryl A Scott, Elizabeth J Leslie, Justin Cotney
Gene expression changes in the post-mortem nucleus accumbens of chronic heroin abusers. Overall, little overlap in gene expression profiles was seen between the two drug-abusing cohorts: out of the approximately 39,000 transcripts investigated, the abundance of only 25 was significantly changed in both cocaine and heroin abusers, with nearly one-half of these being altered in opposite directions. 1050 Transcripts had different in abundance between the majority of heroin subjects and their matched controls.
Positional candidate genes for HOTPLATE_MEANOF2 in BXD RI Females & Males on Chr11
Description:
Position candidates for HOTPLATE_MEANOF2 measured in BXD RI Females & Males. HOTPLATE_MEANOF2 measures Thermal Nociception Hot Plate Avg of 2Trials under the domain Pain. The QTL found was a Suggestive QTL and spans 80 Mb to 90 Mb.
Authors:
Philip VM, Duvvuru S, Gomero B, Ansah TA, Blaha CD, Cook MN, Hamre KM, Lariviere WR, Matthews DB, Mittleman G, Goldowitz D, Chesler EJ
Heterozygote mice from a hybrid cross of C57BL/6J and FVB/NJ had heightened EtOH consumption, preference or blood EtOH concentration compared to either homozygous groups. The magnitude of dominant deviation on Chr. 11, as noted in Fig. 9, was measured after a drinking in the dark paradigm, 24hr two-bottle-choice and subsequent blood ethanol concentration measurement.
Authors:
Phillips TJ, Reed C, Burkhart-Kasch S, Li N, Hitzemann R, Yu CH, Brown LL, Helms ML, Crabbe JC, Belknap JK
cocaine related behavior 12 (Cocrb12) spans 85.558736 - 135.558736 Mbp (NCBI Build 37) on Chr 11. Obtained from MGI (http://www.informatics.jax.org) by searching for QTLs containing the keyword .
QTL for alcohol preference locus on Chr11 at NA (70.38 Mbp , Build 37)
Description:
alcohol preference locus spans 45.38 - 95.38 Mbp (NCBI Build 37) on Chr11. This interval was obtained by using an interval width of 25 Mbp around the peak marker (Build 37, MGI, http://informatics.jax.org).
QTL for alcohol preference locus on Chr11 at D11Mit35 (80.34 Mbp , Build 37)
Description:
alcohol preference locus spans 55.34 - 105.34 Mbp (NCBI Build 37) on Chr11. This interval was obtained by using an interval width of 25 Mbp around the peak marker (Build 37, MGI, http://informatics.jax.org).
QTL for nicotine sensitivity on Chr11 at D11Mit39 (81.17 Mbp , Build 37)
Description:
nicotine sensitivity spans 56.17 - 106.17 Mbp (NCBI Build 37) on Chr11. This interval was obtained by using an interval width of 25 Mbp around the peak marker (Build 37, MGI, http://informatics.jax.org).
QTL for alcohol preference locus on Chr11 at D11Mit35 (106.61 Mbp , Build 37)
Description:
alcohol preference locus spans 81.61 - 131.61 Mbp (NCBI Build 37) on Chr11. This interval was obtained by using an interval width of 25 Mbp around the peak marker (Build 37, MGI, http://informatics.jax.org).
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