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  1. GitHub repository gitter-lab/pria_lifechem software archive

    Description: Virtual screening on PriA-SSB and RMI-FANCM with the LifeChem library.

  2. genome-analysis-workflows CWL workflow definitions for executing MGI analysis pipelines

    Description: CWL and docker based pipelines for analysis of high-throughput sequence data on local or cloud compute

  3. Cerebral Cortex cloud platform example code

    Description: Example code that to demonstrate the capabilities of the Cerebral Cortex Kernel

  4. DEEPEST-Fusion

    Description: This is a statistical fusion detection algorithm particularly engineered for screening big RNA sequencing databases

  5. Tools and workflow to produce VCF files from BAM files using Google Cloud Pipelines

    Description: Although Google Cloud Genomics and Sentieon pipelines support robust tools to obtain high quality VCFs from BAM files, obtaining VCF files from these ...

  6. Processed ATAC-seq from dorsolateral-prefrontal cortex in adult brain

    Description: Processed data ATAC-seq data from 341 samples from dorsolateral-prefrontal cortex samples of individuals with schizophrenia and control

  7. iTextMine

    Description: iTextMine is an Integrated Text Mining System for Large Scale Knowledge Extraction from Literature. The system employs parallel processing for dockeri...

  8. OpenNeuro-processed

    Description: OpenNeuro dataset processed with various neuroimaging tools and pipelines

  9. Regtools software

    Description: Source code for the regtools application

  10. Protein Ontology (PRO)

    Description: Protein Ontology (PRO) provides an ontological representation of protein-related entities by explicitly defining them and showing the relationships be...

  11. GTEx exon-exon-junction-level expression summary for Snaptron

    Description: GTEx exon-exon-junction-level expression summary from the Snaptron collection. Format is a tab-separated text file compressed and indexed using BGZip...

  12. Comparative analysis of the amorfrutin A and rosiglitazone (Rosi)-dependent hepatic transcriptomes in a mouse model of diet-induced obesity

    Keywords: whole liver

    Description: Male C57BL/6 mice at 6 weeks of age were fed a HFD (60% of calories as fat) for 12 weeks to induce obesity and insulin resistance. Subsequently mice w...

    ID: 10.1621/Iw9Fidj7Hn

  13. Analysis of the estrogen-related receptor β (ERRβ/ESRRB) and DY131-regulated transcriptome in human DU145 prostate cancer cells

    Keywords: epithelium DU145 cells

    Description: Human DU145 prostate cancer cells stably transfected with an ERRβ/ESRRB expression vector or an empty vector control were treated for 12 h with 3 µM...

    ID: 10.1621/KhoLDn0eUQ

  14. Chronic time course and dose-dependence analysis of the clofibrate (Clofib)-regulated transcriptome in rat liver

    Keywords: whole liver

    Description: Livers were isolated from rats treated for 4 - 29 d with or without 30 - 300 mg/kg bw/d Clofib.

    ID: 10.1621/N4Z6Zseri5

  15. Analysis of the 17β-estradiol (17βE2)-regulated transcriptome in rat trigeminal ganglia

    Keywords: trigeminal ganglia whole

    Description: Cultured trigeminal ganglia from 8 week old random cycling female rats were 17βE2-deprived then treated for 24 h with or without 1 nM 17βE2.

    ID: 10.1621/gWBqfhz6yG

  16. Comparative analysis of the 17β-estradiol (17βE2)-, genistein (Gen)-, and phytoestrogen (S-equol [Sequol] and liquiritigenin [Liquir])-regulated, es...

    Keywords: epithelium MCF-7 cells

    Description: Human MCF-7 breast cancer cells were infected for 72 h with (i) control adenovirus expressing β-gal; (ii) adenovirus expressing ERβ/ESR2; or (ii) ad...

    ID: 10.1621/0xZtJIMQg2

  17. Analysis of the Ssfa2-dependent transcriptome in mouse liver

    Keywords: whole liver

    Description: Liver was isolated from 32 week old C57BL6/J male Ssfa2 KO and WT mice fed a normal chow diet.

    ID: 10.1621/NCM4UKSDLs

  18. Analysis of the Bromo Adjacent Homology Domain Containing 1 (Bahd1)-dependent transcriptome in mouse E16.5 placenta and liver

    Keywords: whole liver

    Description: Placenta and liver tissue was isolated at embryonic day 16.5 from male and female Bahd1 knockout and wild-type mice.

    ID: 10.1621/FPygkhLBsO

  19. Tissue-specific expression patterns of nuclear receptor coregulators

    Keywords:

    Description: C57/Bl6J and 129x1/SvJ male or female mice (n = 6) at 8-9 weeks of age from each strain were sacrificed at lights-on (ZT0) by halothane inhalation (Ha...

    ID: 10.1621/datasets.04002

  20. Acute time course and dose-dependence analysis of the clofibrate (Clofib)-regulated transcriptome in rat liver

    Keywords: whole liver

    Description: Livers were isolated from rats treated for 3 - 24 h with or without 30 mg - 300 mg/kg bw/d Clofib.

    ID: 10.1621/39jyLTZloo

  21. Analysis of the GW501516 (GW1516)-regulated transcriptome in primary human macrophages expressing constitutively active AMPK

    Keywords: myeloid lineage macrophages monocyte-derived

    Description: Primary human macrophages transduced with constitutively active (T172A) AMPK α1 variant were treated for 24 h with or without 100 nM GW1516.

    ID: 10.1621/2w9z81daL1

  22. Analysis of the dihydrotestosterone (DHT)-regulated transcriptome in human LNCaP-C4-2B prostate cancer cells

    Keywords: epithelium LNCaP-C4-2B cells

    Description: Human LNCaP-C4-2B prostate cancer cells were treated with for 16 h with or without 10 nM DHT.

    ID: 10.1621/mpN8PDaTeM

  23. Time course and dose dependence analysis of the bisphenol A (BPA)-regulated transcriptome in Ishikawa cells

    Keywords: endometrium epithelium Ishikawa cells

    Description: Human Ishikawa endometrial carcinoma cells were treated with or without 1 nM, 100 nM, 10 µM or 100 µM BPA for 8 h, 24 h or 48 h.

    ID: 10.1621/CwEZYldrxg

  24. Time course transcriptomic analysis of rosiglitazone (Rosi)-treated C3H/10T1/2 cells

    Keywords: WAT adipocytes C3H/10T1/2 cell-derived

    Description: Fully differentiated C3 h/10T1/2 adipocytes were cultured with 1 µM Rosi or vehicle for 1 h.

    ID: 10.1621/hLnw2RmSWG

  25. Mutational analysis of the peroxisome proliferator activated receptor-γ coactivator 1- β (PGC1β/Ppargc1b)-regulated transcriptome in mouse liver an...

    Keywords: whole liver

    Description: Liver and skeletal muscle were isolated from C5BL/6 wild type mice or mice expressing a mutant form of PGC1β/Ppargc1b lacking two out of the three LX...

    ID: 10.1621/d4Kt4gB72O

  26. Dose dependent analysis of the rosiglitazone (Rosi)-regulated liver and inguinal adipose tissue transcriptomes in the Leprdb null mutant mouse

    Keywords: whole liver

    Description: Liver or inguinal adipose tissue was collected from male BKS.Cg-m +/+ Leprdb/J mice treated with or without Rosi at a range of doses for 18 days. The...

    ID: 10.1621/9IFwN8xkBn

  27. Analysis of the 17β-estradiol (17βE2) dependent transcriptome in SUM44PE invasive lobular carcinoma breast cancer cell lines

    Keywords: epithelium SUM44PE cells

    Description: SUM44PE invasive lobular carcinoma breast cancer cell lines were treated with 1 nM 17βE2 or vehicle for 3 h and 24 h.

    ID: 10.1621/6ugTmHZK5X

  28. Transcriptomic analysis of progesterone (P4)-treated mouse ovary

    Keywords: Female reproductive ovary whole

    Description: Newborn Sprague-Dawley rat ovaries dissected from pups less than 8 h old, were cultured in the presence or absence of 1 µM P4 for 48 h.

    ID: 10.1621/lbPzmF6Pwq

  29. Analysis of the dexamethasone (Dex)- and testosterone (Test)-regulated transcriptomes in rat gastrocnemius muscle

    Keywords: gastrocnemius whole

    Description: Gastrocnemius muscle was isolated from male Wistar-Hannover rats treated with or without a combination of 0.7 mg/kg/d Dex and 28 mg/kg/d Test for 7 da...

    ID: 10.1621/9MncYfbHNA

  30. Analysis of the androgen receptor (AR) and dihydrotestosterone (DHT)-regulated transcriptomes in normal (LNCaP) and androgen-independent (LNCaP-abl) c...

    Keywords: epithelium LNCaP cells

    Description: Human LNCaP or LNCaP-abl prostate cancer cells were transfected with AR siRNA or scrambled control siRNA for 72 h. LNCaP-abl cells were also treated w...

    ID: 10.1621/UhiFZHfzQW

  31. Analysis of the Nur77/Nr4a1-regulated transcriptome in pyramidal neurons

    Keywords: hippocampus pyramidal neurons

    Description: After 10 days in culture, dissociated mouse hippocampal pyramidal neurons were infected with lentivirus expressing Nur77/Nr4a1 or GFP for 6 d.

    ID: 10.1621/pDfF4bWOiY

  32. Analysis of the GW4604-dependent transcriptome in the intestine of the Cyp27a1 null mutant mouse

    Keywords: other whole mucosa

    Description: 3-4 month Cyp27a1 knockout mice were treated with or without two doses of 100 mg/kg body weight GW4064 by oral gavage 12 h apart. Mice were sacrifice...

    ID: 10.1621/datasets.04008

  33. Dose-dependent transcriptomic analysis of the diethylhexylphthalate (DEHP)-treated rat neonatal cardiomyocytes

    Keywords: cardiac muscle cardiomyocytes 1° cells

    Description: Rat neonatal cardiomyocytes isolated from 2-day-old Sprague-Dawley rat pups were treated with or without a range of doses of DEHP for 72 h.

    ID: 10.1621/796eXQYCUb

  34. Comparative analysis of peroxisome proliferator-activated receptor-γ (PPARγ/Pparg)- and GW7845-regulated transcriptomes in rat pancreatic islets

    Keywords: islets whole

    Description: Rat pancreatic islets isolated from male Wistar rats were transduced with PPARγ/Pparg adenovirus or empty adenovirus for 32 h and treated for 16 h wi...

    ID: 10.1621/VMxZKKVCkB

  35. Analysis of the dihydrotestosterone (DHT)- and RTI 6413-018-dependent transcriptomes in LNCaP prostate cancer cells

    Keywords: epithelium LNCaP cells

    Description: Human LNCaP prostate cancer cells were treated with 10 nM DHT or 100 nM RTI 6413-018 for 6-24 h.

    ID: 10.1621/PG6srxDzNt

  36. Analysis of the p300/CBP interacting protein (pCIP/Ncoa3) dependent transcriptome in mouse embryonic stem cells

    Keywords: pluripotent ESCs E14 cells

    Description: Mouse E14 embryonic stem cells were transfected with two pCIP siRNAs or pooled non-specific siRNAs.

    ID: 10.1621/gMh9LUMTKF

  37. Analysis of the thyroid hormone receptor-α (TRα/THRA) and TRβ/THRB-regulated transcriptomes in human HepG2 hepatocellular carcinoma cells

    Keywords: epithelium HepG2 cells

    Description: Human HepG2 hepatocellular carcinoma cells stably expressing TRα/THRA, TRβ/THRB, or empty vector were treated with or without 100 nM T3 for 6 h.

    ID: 10.1621/OzD9WkdLYj

  38. Analysis of the all-trans retinoic acid (ATRA)-regulated, retinoid X receptor-α (RXRα/Rxra)-dependent transcriptome in mouse liver

    Keywords: whole liver

    Description: Liver was isolated from male C57BL/6 RXRα/Rxra knockout and wild-type (WT) mice fed a 150 mg/kg ATRA or normal chow diet for 7d.

    ID: 10.1621/VeCAnn9CdU

  39. Time course transcriptomic analysis of 17β-estradiol (17βE2)-treated MCF-7 cells

    Keywords: epithelium MCF-7 cells

    Description: Human MCF-7 breast carcinoma cells were treated with or without 100 nM 17βE2 for 10 min, 40 min or 160 min.

    ID: 10.1621/wAeixXWJin

  40. Analysis of the hepatocyte nuclear factor 4-α variant 2 (HNF4α/HNF4A-2)-dependent transcriptome in rat pancreatic beta cells

    Keywords: islets beta cells INS1 cells

    Description: Rat INS-1 pancreatic beta-cells were stably transfected with a vector encoding tetracycline inducible human HNF4α/HNF4A-2 and cultured in the absence...

    ID: 10.1621/fJ25BjavY5

  41. Analysis of the 17β-estradiol (17βE2)-dependent transcriptome in human vagina

    Keywords: whole vagina

    Description: Vaginal samples were retrieved from women treated with or without 0.05 mg/day 17βE2 for 3 months.

    ID: 10.1621/HudStqvikW

  42. Analysis of the Am580 and rosiglitazone (Rosi) dependent transcriptomes in human monocyte-derived dendritic cells

    Keywords: dendritic cells monocyte-derived

    Description: Human monocyte-derived dendritic cells were treated with 100 nM Am580, 2.5 µM Rosi, and 1 µM AGN193109 for 5 days.

    ID: 10.1621/HslyUoSYAs

  43. Analysis of the MEK1/2-regulated transcriptome in R5020-treated human T47D cells

    Keywords: epithelium T47D cells

    Description: Human T47D breast cancer cells were treated with or without a combination of (1) vehicle or (2) 10 µM U0126 (a MEK 1/2 kinase inhibitor) for 10 minut...

    ID: 10.1621/XGSeVZH1LR

  44. Analysis of the 1,25-dihydroxyvitamin D3 (125DVD3)-dependent transcriptome in human primary bronchial smooth muscle cells

    Keywords: smooth muscle bronchus 1° cells

    Description: Human primary bronchial smooth muscle cells were treated with or without 100 nM 125DVD3 for 24 h.

    ID: 10.1621/vmOkKoHIoi

  45. Transcriptomic analysis of WY 14,643 and thyroid hormone receptor-β (TRβ/Thrb) Δ337T cross-talk in mouse heart

    Keywords: whole heart

    Description: 4-6 month old male wild-type mice or mice with cardiomyocyte specific expression of human TRβ/Thrb1 Δ337T dominant negative point mutant were treate...

    ID: 10.1621/iawFmJZiMO

  46. Timecourse analysis of the 17β-estradiol (17βE2) dependent transcriptome in T47D, MCF-7 and BT-474 breast cancer cell lines

    Keywords: epithelium MCF-7 cells

    Description: Human T47D, MCF-7, and BT-474 breast cancer cells were treated with 10 nM 17βE2 or vehicle for 1-24 h. 

    ID: 10.1621/gKdplxXbTj

  47. Time course analysis of the all-trans retinoic acid (ATRA)-regulated transcriptome in multipotent P19-derived A404 cells

    Keywords: pluripotent P19 cells

    Description: Multiprotein A404 cells expressing puromycin-N-acetyltransferase under the smooth muscle α-actin promoter, were treated with or without 1 µM ATRA fo...

    ID: 10.1621/olv1cR29xi

  48. Transcriptomic analysis of (1) wild type peroxisome prolferator activated receptor-γ coactivator 1 (PGC1α/PPARGC1); (2) estrogen receptor related re...

    Keywords: epithelium HepG2 cells

    Description: Human HepG2 liver cancer cells were subjected to adenoviral infection with empty vector or vectors encoding: (1) wild type PGC1; (2) ERRα/Esrra-disru...

    ID: 10.1621/datasets.02004

  49. Analysis of the estrogen receptor-α (ERα/ESR1)-dependent transcriptome in MCF-7 breast cancer cells

    Keywords: epithelium MCF-7 cells

    Description: Human MCF-7 breast cancer cells were transfected with an ERα/ESR1 shRNA plasmid.

    ID: 10.1621/5F49JYoGXU

  50. Analysis of the 17β-estradiol (17βE2)-regulated transcriptome in mouse hippocampus

    Keywords: hippocampus whole

    Description: Four month old ovariectomized female C57BL/6 mice were treated with 0.2mg/kg 17βE2 for 1 h prior to removal of hippocampi.

    ID: 10.1621/u8t3ZH9qPV

  51. Time course analysis of the Tamoxifen (Tam)-regulated transcriptome in mouse uterus

    Keywords: whole uterus

    Description: Ovariectomized female C57BL/6 mice were treated with and without 100 µg/kg body weight Tam for 2 h - 72 h.

    ID: 10.1621/hADB1k9ixl

  52. Analysis of the benzo[a]pyrene (B[a]P)-dependent transcriptome in primary hepatocytes from DNA repair-deficient mice

    Keywords: hepatocytes 1° cells

    Description: Primary hepatocytes from male wild type or DNA repair-deficient Xpa-/- TP53+/- C57BL/6 mice were cultured with 5 - 60 mM B[a]P or vehicle for 24 h..

    ID: 10.1621/mlrq6A5yRX

  53. Age-dependence and time-course analysis of the 17β-estradiol (17βE2)-regulated transcriptome in mouse hippocampus

    Keywords: hippocampus whole

    Description: Young (4 months), middle aged (12 months) or aged (18 months) ovariectomized female C57BL/6 mice were treated with and without a single dose of 5 ug 1...

    ID: 10.1621/2xdFWjzGKz

  54. Comparative analysis of hepatotoxicant transcriptomes in murine liver

    Keywords: whole liver

    Description: Liver was isolated from male and female 7 week old B6C3F1/Crl mice treated for 6 - 72 h with hepatotoxicant activators of: (i) arylhydrocarbon recepto...

    ID: 10.1621/IriKxcGfOe

  55. Chronic time course and dose-dependence analysis of the chlorpromazine (Chlorprom)-regulated transcriptome in rat liver

    Keywords: whole liver

    Description: Livers were isolated from rats treated for 4 - 29 d with or without 4.5 - 45 mg/kg bw/d Chlorprom.

    ID: 10.1621/cq2ujHYtTF

  56. Analysis of the 17β-estradiol (17βE2)-dependent hepatic transcriptome in the Lep null mutant mouse

    Keywords: whole liver

    Description: 12 week old female leptin (Lep) null mutant mice (Lep KO) were injected with or without 100 µg/kg body weight 17βE2 once daily for 30 days before li...

    ID: 10.1621/JwGTmrZrDh

  57. Dose analysis of the fenofibrate (Feno)-regulated transcriptome in rat liver

    Keywords: whole liver

    Description: 7 week old F344/N Slc rats were adminstered (1) ) 0 ppm; (2) 3,000 ppm (8.3 µM); or (3) 6,000 ppm (16.6 µM) Feno for 13 weeks and livers were remove...

    ID: 10.1621/voElhviZ6m

  58. Analysis of the estrogen receptor-related receptor-α (ERRα/Esrra)-regulated transcriptome in mouse kidney

    Keywords: whole kidney

    Description: Kidneys were isolated from ERRα/Esrra knockout and wild-type male 2-3 month old mice.

    ID: 10.1621/BJrnZDjy7P

  59. Analysis of the 17β-estradiol (17βE2)- and Tamoxifen (Tam)- regulated transcriptomes in Hs587T cells stably expressing estrogen receptor-α (ERα/ES...

    Keywords: epithelium Hs578T cells

    Description: Human Hs578T breast cancer cells were stably transfected with tetracycline-inducible vectors encoding ERα/ESR1 or ERβ/ESR2 and treated for 24 h with...

    ID: 10.1621/Il8lr1ojs9

  60. Transcriptomic profiling of GW3965-treated differentiated human adipocytes

    Keywords: WAT adipocytes unspecified 1° cells

    Description: In vitro-differentiated human adipocytes were treated with and without GW3965 for 24 h.

    ID: 10.1621/9JQpRTYs1Y

  61. Analysis of the 17β-estradiol (17βE2)-regulated transcriptome in rat hippocampus

    Keywords: hippocampus whole

    Description: Ovariectomized female Wistar rats were treated with and without 10 µg/kg body weight 17βE2 for 8 h before hippocampi were removed.

    ID: 10.1621/vbz3DkTCTH

  62. Transcriptomic profiling of LGD1069-treated anaplastic thyroid carcinoma DRO cells

    Keywords: DRO cells

    Description: Anaplastic thyroid carcinoma DRO cells were treated with and without 1 µM LGD1069 for 24 h

    ID: 10.1621/IJ7xKFI4Hx

  63. Age dependence analysis of the R5020-regulated transcriptome in mouse mammary gland

    Keywords: epithelium organoid cultures

    Description: The PR/PGR A isoform (PR-A) is highly expressed in mouse pubertal mammary glands while PR-B is detectable only during pregnancy. Mammary organoid cult...

    ID: 10.1621/T2pyrsMPAB

  64. Analysis of the testosterone (Test)-, Flutamide (Flut)- and diethylhexylphthalate (DEHP)-regulated transcriptomes in rat testis

    Keywords: other whole testis

    Description: Testes were removed from immature male Sprague Dawley rats treated via oral gavage for 14 days with or without 1 mg/kg body weight/day Test propionate...

    ID: 10.1621/HupEFZzekz

  65. Analysis of the estrogen receptor-α (ERα/Esr1)-regulated transcriptome in mouse liver

    Keywords: whole liver

    Description: Livers were removed from three month old ERα/Esr1 null mutant and wild-type female C57BL/6J mice.

    ID: 10.1621/xyZZLDZJDZ

  66. Dose dependence analysis of the thyroid hormone (T3)-regulated transcriptome in rat striatum

    Keywords: striatum whole

    Description: Thyroidectomized adult male Wistar rats were given (i) a single dose of 250 µg/kg body weight T3 24 h prior to sacrifice and removal of striatum; or ...

    ID: 10.1621/fV2RSXFvcL

  67. Analysis of the 17β-estradiol (17βE2)- and diarylpropionitrile (DPN)-regulated transcriptomes in U2OS cells stably expressing estrogen receptor-α (...

    Keywords: osteoblasts U2OS cells

    Description: U2OS cells overexpressing ERα/ESR1 or ERβ/ESR2 were treated for 6 h with and without 10 nM 17βE2 or 1 µM DPN.

    ID: 10.1621/rGRCXFd8iw

  68. Analysis of the estrogen receptor-α (ERα/ESR1) and ERβ/ESR2-regulated transcriptomes in 17β-estradiol (17βE2)-treated HUVS-112D cells

    Keywords: smooth muscle HUVSMCs HUVS-112D cells

    Description: (1) ERα/ESR1+ & ERβ/ESR2- or (2) ERβ/ESR2+ & ERα/ESR1- umbilical cord-derived human HUVS-112D vascular smooth muscle cells were treated wi...

    ID: 10.1621/jW7QC7JeJL

  69. Analysis of the AKT-regulated transcriptome in 17β-estradiol (17βE2)-treated MCF-7 cells

    Keywords: epithelium MCF-7 cells

    Description: Parental human MCF-7 breast cancer cells or MCF-7 cells overexpressing the serine/threonine kinase AKT were treated with and without 10 nM 17βE2 for ...

    ID: 10.1621/GjIgi8XmOk

  70. Analysis of the Rev-Erbα/Nr1d1 dependent transcriptome in mouse liver

    Keywords: whole liver

    Description: Liver was isolated from Rev-Erbα/Nr1d1 knockout and wild-type mice at Zeitgeber time 12.

    ID: 10.1621/jNzqntK6gJ

  71. Comparative analysis of the Per2-dependent transcriptome in white (WAT) and brown (BAT) adipose tissue

    Keywords: WAT unspecified

    Description: WAT and BAT was isolated from Per2 KO and WT male mice 20 weeks of age.

    ID: 10.1621/ezy0k4MTGY

  72. Time course analysis of adipocyte differentiation in human SGBS preadipocyte cells

    Keywords: WAT adipocytes SGBS cells

    Description: Human SGBS preadipocyte cells were cultured for 4 h - 12 d with adipocyte differentiation cocktail containing human transferrin, T3, cortisol, insulin...

    ID: 10.1621/VaqwZrrodW

  73. Analysis of the cell death inducing DFFA like effector c (Cidec) and leptin (Lep)-dependent transcriptome in mouse white adipose tissue (WAT)

    Keywords: WAT unspecified

    Description: Gonadal WAT was removed from 4 month old male Cidec/Lep double knockout and Lep knockout mice.

    ID: 10.1621/L0honIuQ7x

  74. Analysis of the mutant picornavirus RNA-dependent RNA polymerase with disrupted primary and secondary RNA structure (RdRPΔrna)-dependent transcriptom...

    Keywords: myeloid lineage myeloblasts AML THP-1 cells

    Description: Human THP-1 monocytic leukemia cells were transduced with a lentiviral vector containing a mutant picornavirus RNA-dependent RNA polymerase with disru...

    ID: 10.1621/gTqItVnDEP

  75. Time course analyses of the 17β-estradiol (17βE2)-regulated transcriptome in Hepa-1c17 cells

    Keywords: epithelium Hepa-1c1c7 cells

    Description: Mouse Hepa-1c17 hepatoma cells were treated with or without 10 nM 17βE2 for a range of time periods up to 24 h.

    ID: 10.1621/lEnP5n4dC8

  76. Proteomic analysis of nuclear receptor coregulator complexes

    Keywords: HeLa

    Description: This dataset shows interacting proteins for nuclear receptor coregulators determined by affinity purification and mass spectroscopy. 15 mg total prote...

    ID: 10.1621/datasets.04005

  77. Analysis of the E6-associated protein (E6AP/Ube3a)-regulated transcriptome in female mouse cerebellum

    Keywords: cerebellum whole

    Description: Cerebellum total RNA was extracted from 6 week-old female wild-type and E6-AP knockout (Ube3a m-/p+) mice.

    ID: 10.1621/pJXmmJiy45

  78. Analysis of free fatty acid receptor 4 (Ffar4)-dependent metabolic tissue transcriptomes in a mouse model of diet-induced obesity

    Keywords: WAT epididymal

    Description: Epididymal white adipose tissue and liver were isolated from Ffar4 KO and WT male 5 week old mice fed a high fat diet (HFD; 60% fat) or a normal diet ...

    ID: 10.1621/bl5w1Ir7eN

  79. Comparative analysis of the white adipose tissue (WAT)-deposit specific transcriptomes in mice

    Keywords: WAT unspecified

    Description: WAT was isolated from two subcutaneous deposits (inguinal and axillary) and two visceral deposits (epididymal and mesenteric) from 8-10 week old male ...

    ID: 10.1621/ysuFOXIUaK

  80. Analysis of the mutant picornavirus RNA-dependent RNA polymerase lacking catalytic activity (RdRPΔcat)-dependent transcriptome in human THP-1 monocyt...

    Keywords: myeloid lineage myeloblasts AML THP-1 cells

    Description: Human THP-1 monocytic leukemia cells were transduced with a lentiviral vector containing a mutant picornavirus RNA-dependent RNA polymerase lacking ca...

    ID: 10.1621/ZjtRLPbE0k

  81. Analysis of the acute E74 like ETS transcription factor 5 (ELF5)-dependent transcriptome in the mouse mammary tumor virus-Polyoma Middle T (PyMT/ELF5)...

    Keywords: epithelium 1° cells

    Description: PyMT/ELF5 transgenic mice containing doxycycline-inducible human ELF5 were generated on a FVB/N background where ELF5 expression is characterized by E...

    ID: 10.1621/axENpMb8qe

  82. Analysis of the peroxisome proliferator activated receptor-α (PPARα/Ppara)-regulated transcriptome in mouse skeletal muscle

    Keywords: gastrocnemius whole

    Description: Gastrocnemius muscle was isolated from 6 week old hybrid B6/CBA transgenic mice overexpressing PPARα/Ppara in skeletal muscle or from hybrid B6/CBA n...

    ID: 10.1621/4rQYtJ4ZdB

  83. Time course transcriptomic profiling of all-trans retinoic acid (ATRA)-treated HL-60 cells

    Keywords: myeloid lineage promyelocytes APL HL-60 cells

    Description: Human myeloid leukemia HL-60 cells were treated with and without 1 µM ATRA for 4 days or 6 days.

    ID: 10.1621/PZwk7Lwtd2

  84. Analysis of the Flutamide (Flut)-regulated transcriptomes in male and female fetal mouse lung

    Keywords: whole lung

    Description: Fetal lung tissue was isolated from fetuses harvested from pregnant BALB/c mice treated with 1 mg/d Flut from gestational day 10 to gestational day 17...

    ID: 10.1621/MCbKlwnbdC

  85. Analysis of the Fulvestrant (Fulv)-regulated transcriptome in EGF-treated MCF-7 cells

    Keywords: epithelium MCF-7 cells

    Description: Human MCF-7 breast cancer cells were pre-treated with (1) vehicle or (2) 100 nM Fulv for 3 h, and then treated with or without 100 µg/ml EGF for 3 h ...

    ID: 10.1621/x6n3bdzH7q

  86. Analysis of the peroxisome proliferator activated receptor-α (PPARα/Pppara)-dependent, Wy 14,643-regulated transcriptomes in mouse liver

    Keywords: whole liver

    Description: Liver was isolated from 3-5 month old wild type or PPARα/Ppara knockout male 129S4/SvJae mice treated with or without 0.1% w/w WY14643 for 5 days.

    ID: 10.1621/ZLIzlILSol

  87. Analysis of the mediator complex subunit 1 (Med1)-dependent transcriptome in mouse embryonic fibroblasts

    Keywords: embryonic

    Description: Mouse embryonic fibroblasts (MEFs) were isolated from mediator complex subunit 1 (Med1) knockout and wild-type E10 embryos.

    ID: 10.1621/wsSonXUBcr

  88. Analysis of the dihydrotestosterone (DHT)-regulated FOXA1-dependent transcriptome in LNCaP prostate cancer cells

    Keywords: epithelium LNCaP cells

    Description: Human LNCaP prostate cancer cells were transfected with non-specific siRNA or FOXA1 siRNA and treated with 100 nM DHT or vehicle for 20h.

    ID: 10.1621/t588AUh5jf

  89. Analysis of the retinoid orphan receptor-α (RORα/Rora)- RORγ/Rorg- or RORα/RORγ-dependent transcriptomes in mouse liver

    Keywords: whole liver

    Description: Livers were isolated from 8-12 week old RORα null, RORγ null, RORα/RORγ double null, or wild-type mice at circadian time 19.

    ID: 10.1621/7fcCpytc5p

  90. Analysis of the Rac1-dependent transcriptome in mouse primary endothelial cells

    Keywords: endothelium 1° cells

    Description: Mouse heart primary endothelial cells were isolated from endothelial cell-specific Rac1 HET and WT mice.

    ID: 10.1621/urNFoseorg

  91. Analysis of the peroxisome proliferator activated receptor-δ (PPARδ/Ppard)-regulated transcriptome in mouse skeletal muscle

    Keywords: gastrocnemius whole

    Description: Gastrocnemius muscle was isolated from 6 week old hybrid B6/CBA transgenic mice overexpressing PPARδ/Ppard in skeletal muscle or from hybrid B6/CBA n...

    ID: 10.1621/qVT5ZB9JYH

  92. Analysis of the retinoid orphan receptor-α (RORα/Rora)-regulated transcriptome in mouse liver and white adipose tissue

    Keywords: whole liver

    Description: Liver or white adipose tissue were isolated from RORα/Rora-deficient staggerer (sg/sg) and wild-type mice fed a high fat diet (35% fat) for 6 weeks.

    ID: 10.1621/b2n1yyAn8P

  93. Comparative transcriptomic analysis of white, brown and beige fat cell lines

    Keywords: other adipocytes immortalized

    Description: Immortalized clonal fat cell lines were derived from primary inguinal (beige and white) or interscapular (brown) stromal-vascular cells. Derived subcl...

    ID: 10.1621/Hn4dqri4Pd

  94. Comparative transcriptomic analysis of spleen- and thymus-derived adult and perinate mouse regulatory T cells (Tregs)

    Keywords: lymphoid lineage T lymphocytes regulatory spleen

    Description: Transcriptomes were compared between the following populations of Tregs (i) perinate and adult spleen-derived; (ii) perinate and adult thymus-derived...

    ID: 10.1621/tFD8zoxH65

  95. Time course analysis of the 17β-estradiol (17βE2) and insulin-like growth factor-1 (IGF1)-regulated transcrptomes in human MCF-7 breast cancer cells

    Keywords: epithelium MCF-7 BUS cells

    Description: Human MCF-7 breast cancer cells were treated for 3 h or 24 h with or without 10 nM 17βE2 or 100 ng/ml IGF1.

    ID: 10.1621/HmGe8Loijj

  96. Analysis of the mineralocorticoid receptor (MR/Nr3c2)-dependent transcriptome in mouse peritoneal macrophages treated with corticosterone (Cortic)

    Keywords: myeloid lineage macrophages peritoneal cavity-derived

    Description: Peritoneal macrophages were isolated from MR/Nr3c2 knockout and wild-type animals treated with and without 1 µM Cortic for 24 h.

    ID: 10.1621/LOO5hhCEtn

  97. Analysis of the peroxisome proliferator-activated receptor-γ (PPARγ/Pparg)-regulated transcriptome in colitic mouse colon

    Keywords: other mucosa whole mucosa

    Description: Colonic tissue was isolated from wild-type and macrophage-specific PPARγ/Pparg knockout animals treated with 2.5% dextran sodium sulfate (S) in the d...

    ID: 10.1621/9vNOcUCexJ

  98. Analysis of the dexamethasone (Dex)-regulated transcriptome in lipopolysaccharide (LPS)-activated inflammatory mouse macrophages

    Keywords: myeloid lineage macrophages bone marrow-derived

    Description: Primary bone marrow derived-macrophages from male 10 week old mice were treated overnight with 1 µM Dex, 100 ng/ml LPS or both.

    ID: 10.1621/NjyEDq96T7

  99. Analysis of the all-trans retinoic acid (ATRA)-regulated transcriptome in murine E14Tg2A embryonic stem cells

    Keywords: pluripotent ESCs E14Tg2A cells

    Description: Mouse E14Tg2A embryonic stem cells were treated for 2 d with or without 1 µM ATRA to induce neuronal differentiation.

    ID: 10.1621/pZbsyIDmOw

  100. Analysis of glucocorticoid receptor (GR/NR3C1) isoform-regulated transcriptomes in dexamethasone (Dex)-treated U2OS cells

    Keywords: osteoblasts U2OS cells

    Description: Human U2OS osteosarcoma cells stably expressing human GR/NR3C1 isoforms under the Tet-off system were cultured in the absence of tetracycline prior to...

    ID: 10.1621/bCuUTHXkhy


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