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14 protocols using h 190

1

Progesterone Receptor Interactome Analysis

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T47D-MTVL cells treated or not with 50 pM or 10 nM R5020 were lysed, and cell extracts (1 mg protein) were incubated overnight with protein A/G agarose beads previously coupled with 3 μg of the corresponding PR antibody (Santa Cruz, H-190) or an unspecific control antibody. The immunoprecipitated proteins (IPs) were eluted by boiling in SDS sample buffer. Inputs and IPs were analyzed by western blot using PR-, p300-, SRC3- and ERK-specific antibodies.
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2

ChIP-seq Profiling of Transcription Factors in T47D and MCF-7 Cells

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ChIP-seq experiments in T47D cells for H3K4me3, RNA-polymerase II, PGR, FOXA1, and CTCF were described previously (Ballare et al. 2013 (link); Le Dily et al. 2014 (link); Nacht et al. 2016 (link)). Additional ChIP-seq experiments in T47D for H3K27ac (ab4729, Abcam) and BRD4, as well as in MCF-7 for PGR (H190, Santa-Cruz Biotechnology) and ESR1 (HC20, Santa-Cruz Biotechnology), were performed as described previously (Nacht et al. 2016 (link)). After library preparation and sequencing on a HiSeq 2000, reads were trimmed and processed by aligning to the reference human genome (GRCh38) using BWA (Li and Durbin 2009 (link)). Only uniquely aligned reads were conserved. ChIP-seq signals were normalized for sequencing depth (expressed as reads per millions [rpm]), and binding sites (or peaks) were identified using MACS2 (Zhang et al. 2008 (link)).
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3

Immunostaining of FFPE Breast Tissue

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Formalin‐fixed paraffin‐embedded (FFPE) tissue sections were processed 12 and immunostained with PR antibodies: clone 16 (Leica, Buffalo Grove, IL, USA), clone 636 (Dako; Carpinteria, CA, USA), H‐190 (Santa Cruz Biotech) or Ab‐6 (Thermo Fisher; Waltham, MA, USA) using avidin–biotin–peroxidase complex as described previously 12. The regions recognized by each antibody are shown in Figure 1, adapted from 13. T47D‐YA and ‐YB cores and breast cancer cores from a tissue microarray (TMA) 3 were also included. The average number of positive nuclei with respect to total tumour cells in 10 different representative fields of different tumours was quantified (mean ± SD).
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4

Western Blotting Protein Detection

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Isolated protein was applied to a Bis-Tris NuPAGE 4%−12% gel (Novex by Life Technologies) for protein separation. Protein was wet transferred to a polyvinylidene difluoride membrane and blocked in 5% blotting grade nonfat milk diluted in phosphate-buffered saline (PBS) with 0.1% Tween for at least one hour. Membranes were incubated with primary antibody (PGR Santa Cruz H-190 (1:400), ACTIN Santa Cruz I-19 (1:10,000), myc-tag Origene TA100010 (1:1000), CCND1 Thermo Fisher RB-9041-P0 (1:200), mTORC1 Cell Signaling 2983 (1:1000), pmTORC1 Cell Signaling 2971 (1:1000), COX1 Cayman Chemical 160110 (1:200), COX2 Cell Signaling 12282 (1:1000), ERK Cell Signaling 9102 (1:1000), pERK Cell Signaling 4370 (1:1000)) overnight. Membranes were washed and incubated with secondary antibody (anti-rabbit peroxidase (1:4000), anti-mouse peroxidase (1:5000), and anti-goat peroxidase (1:4000) according to primary antibody requirements) in 5% milk diluted in PBS with Tween. The Amersham ECL Western blotting system was utilized to develop peroxidase labeled protein according to manufacturer’s instructions (GE Healthcare).
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5

Immunohistological Analysis of Arterial Biopsies

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Normal appearing, non-atherosclerotic internal mammary artery biopsies, collected at coronary bypass surgery as described before [35 (link)], and inner lining of atherosclerotic carotid artery, collected at endarterectomy surgeries, were employed for immunohistological analyses. Upon collection, the specimens were fixed in PBS (10 mmol/L phosphate, 150 mmol/L NaCl, pH 7.2), buffered 4% formaldehyde and subsequently embedded in paraffin. Sections of arterial samples (4 μm) were incubated overnight at 4°C with rabbit polyclonal antibody H-190 (Santa Cruz Biotechnology, Inc.; dil.:1/100), which recognizes an epitope common to all fibulin-1 isoforms (A-D). Envision system HRP-conjugated secondary antibodies were used (K4002, Dako) for detection. Diaminobenzidine (DAB+, K3468; Dako) was applied for 50 seconds and stopped in H2O. Control sections were incubated with secondary antibody only. Caluminin and reticulocalbin staining was done with rabbit polyclonal antibodies affinity purified and tested as previously described [14 (link)] using UltraView Universal Alkaline Phosphatase Red Detection Kit from Ventana Medical Systems.
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6

Western Blot Analysis of STAT3, SALL Proteins

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Different types of treated HLCZ01 cells were lysed in a RIPA buffer supplemented with proteinase inhibitors. 30 μg of proteins were loaded and separated on SDS-PAGE gel; then, the proteins were transferred onto a PVDF membrane, blocked in 5% (w/v) non-fat milk, and incubated with the primary antibodies. Sources of the primary antibodies were anti-STAT3 (H-190) (Santa Cruz, H-190, sc-7179), p-STAT3 (Tyr705) (Santa Cruz, sc-7993), anti-SALL1 (cat# ab130705), anti-SALL2 (Proteintech, cat#12679-1-AP), and anti-SALL4 mAb (Abcam, cat#ab61703). Protein bands were visualized by enhanced chemiluminescence (Milipore).
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7

Antibody Generation and Purification

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The purified recombinant reticulocalbin and calumenin were used for immunization of rabbits and for affinity purification of anti-calumenin and anti-reticulocalbin polyclonal antibodies essentially as previously described [14 (link)]. Rabbit polyclonal antibody H-190 was obtained from Santa Cruz Biotechnology, which recognizes an epitope common to all fibulin-1 isoforms (A-D). Monoclonal anti-fibulin-1 antibody was kindly provided by Dr. W. Scott Argraves, Medical University of South Carolina. Monoclonal anti-grp75 antibody was obtained from Biosite.
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8

Decorin and Cell Proliferation Regulation

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Human recombinant decorin was purchased from R&D Systems (Minneapolis, MN, USA). The rabbit monoclonal anti-human decorin antibody (product code ab151988) used for immunoblotting and immunohistochemistry (IHC) and the mouse monoclonal anti-human β-actin antibody used for immunoblotting were purchased from Abcam (Cambridge, MA, USA). The mouse monoclonal anti-human p21 antibody (product code 554228) used for immunoblotting was purchased from BD Biosciences (San Jose, CA, USA). The rabbit monoclonal anti-human c-Met antibody (product code LS-C49950) used for immunoblotting and IHC was purchased from LifeSpan Biosciences, Inc. (Seattle, WA, USA). A goat anti-human decorin antibody used as a neutralizing antibody for decorin was purchased from R&D Systems. The BD Falcon 96-well microplates used for the cell proliferation assays were purchased from BD (Franklin Lakes, NJ, USA). A rabbit anti-progesterone receptor (PR) antibody (H-190) used in the chromatin immunoprecipitation (ChIP) assay was purchased from Santa Cruz Biotechnology.
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9

Progesterone Receptor Expression in Ishikawa PR-B Cells

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Ishikawa PR-B cells, in steroid free media, were treated with indicated concentrations of purified compounds for 24 hours. Cells were lysed in RIPA buffer containing protease and phosphatase inhibitors and the protein concentration was determined via BCA. Twenty-five micrograms of protein was separated on SDS-PAGE cells by electrophoresis and transferred to nitrocellulose membranes.36 (link) Membranes were blocked for one hour in 5% milk and probed overnight for progesterone receptor (diluted 1:500, H-190, Santa Cruz Biotechnology) or β actin (diluted 1:1000, A2066, Sigma Aldrich, St. Louis MO). The next day, membranes were washed with TBS-T, incubated with anti-rabbit secondary antibody and developed with SuperSignal West Femto Substrate (34095, Thermo Scientific, Rockford IL). Images were captured with a FluorChem C (Protein Simple, San Jose, CA).
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10

Histopathological Analysis of Organ Damage in Mice Post-BMT

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Mice were sacrificed on day 28 after BMT and organs captured, cryoembedded, and sectioned. Tissue specimens were fixed in 10% formalin buffer and embedded in paraffin. Sections (6 μm thick) were stained with H&E and the histologic score was determined using established scoring systems [31 (link), 32 (link)]. For immunohistochemistry staining, sections were stained with primary antibodies against IL-6 [Abcam, Cambridge, England (ab7737)], IL-17 [Abcam (ab79056)], TNF-α [Abcam (ab6671)] and Foxp3 [H-190, Santa Cruz Biotechnology (sc-28705)] overnight at 4 °C, followed by addition of a biotinylated secondary antibody and a streptavidin-peroxidase mixture for 1 h. Color was developed by addition of 3,3-diaminobenzidine (Dako, Carpinteria, CA).
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