The largest database of trusted experimental protocols

74 protocols using non targeting sirna

1

Depletion and Evaluation of Plk4, Cep152, and Cep192

Check if the same lab product or an alternative is used in the 5 most similar protocols
The specificity of Plk4 antibodies was evaluated after siRNA depletion of Plk4. HeLaC1-GFP cells were transfected with non-targeting siRNA (5′-UGG​UUU​ACA​UGU​CGA​CUA​A-3′; Dharmacon) or Plk4 siRNA (5′-GAA​AUG​AAC​AGG​UAU​CUA​A-3′; Dharmacon) using Oligofectamine (12252011; Invitrogen) following the vendor’s instructions. Cells were collected for immunolabeling after 40 h of siRNA depletion.
To deplete Cep152 and Cep192, G1 HeLaC1-GFP cells were treated with Cep192 siRNA (5′-GCU​AGU​AUG​UCU​GAU​ACU​UGG-3′; Dharmacon), Cep152 siRNA (sc-90225; Santa Cruz), non-targeting siRNA (5′-UGG​UUU​ACA​UGU​CGA​CUA​A-3′; Dharmacon), or control siRNA-A (sc-37007; Santa Cruz) 2 h after shake-off as described above. Cells were treated with HU 27 h after shake-off, while in their second G1, and fixed in their second S phase 48 h after treatment with siRNA. In some experiments, ∼48 h after shake-off, cells were treated with CEN for 2 h to induce Plk4 accumulation and fixed, or they were treated with CEN transiently to allow the formation of centriolar rosettes after CEN washout (as depicted in Fig. 5 G).
+ Open protocol
+ Expand
2

FDXR gene silencing by siRNA and shRNA

Check if the same lab product or an alternative is used in the 5 most similar protocols
Nontargeting siRNA was obtained from Dharmacon (catalog number: D0012100220). FDXR siRNA (FDXR si434) with the targeting sequence GCUCAGCAGCAUUGGGUAUAA was obtained from Dharmacon.
Lentiviral FDXR shRNAs were obtained from the Broad Institute TRC shRNA library. The target sequences are as follows:
+ Open protocol
+ Expand
3

Culturing and Transfecting Thyroid Carcinoma Cells

Check if the same lab product or an alternative is used in the 5 most similar protocols
Human follicular thyroid carcinoma cells (FTC-133 ; ECACC 94060901) were grown in Dulbecco's modified Eagle medium (DMEM)–Ham's F-12 medium (Dutscher, Brumath, France) supplemented with 10% fetal bovine serum (FBS), as previously described [59 (link)]. MDA-MB-231 (human breast cancer cells), COS-7 (kidney fibroblasts) and primary dermic fibroblast were cultured in DMEM plus 10% FBS. U87 (human glioblastoma cells) and MNT-1 (human melanoma cells) were grown in Minimum Essential Media (MEM, Dutscher) supplemented with 10% and 20% FBS, respectively. HUVECs (human umbilical vein endothelial cells) were cultured in complete endothelial growth medium (EGM-2, Lonza). FTC-133 cells were transiently transfected with LRP-1-derived mini-receptors or DSR-β1-ITG encoding plasmid using JetPEI reagent (Polyplus Transfection, Illkirch, France) according to manufacturer’s instructions. LRP-1 knockdown was achieved by RNA interference using a previously validated siRNA approach [20 (link)]. LRP-1 siRNA as well as non-targeting siRNA used as controls were purchased from Dharmacon (Lafayette, CO, USA) and transiently transfected using Lipofectamine 2000 (Invitrogen, Carlsbad, CA, USA), as reported [28 (link)].
+ Open protocol
+ Expand
4

Silencing Fibroblast Gene Expression

Check if the same lab product or an alternative is used in the 5 most similar protocols
Passage 3–6 dcSSc dermal fibroblasts were transfected with MeCP2 small interference RNA (siRNA) or non-targeting siRNA according the manufacturer's protocols (Dharmacon). DcSSc fibroblasts were seeded at 70% confluence to 6-well or 12-well culture plates, then transfected with 150 nM (final concentration) non-targeting or MeCP2 siRNA with Transit-TKO transfection reagent (Mirus Bio) and incubated for 48 hours. Similarly, knockdown condition was optimised for AXL (75 nM), ANPEP (25 nM), NID2 (125 nM), adenosine deaminase (ADA) (100 nM), TNFA1P1 (50 nM) and NTN4 (150 nM) in passage 5–6 dcSSc fibroblasts (siRNA were all purchased from Dharmacon). All siRNA targets sequences are available on request.
+ Open protocol
+ Expand
5

Silencing Hsc70 Expression in Cholangiocytes

Check if the same lab product or an alternative is used in the 5 most similar protocols
Transfection of siRNA to reduce Hsc70 expression was carried out as previously described (22 (link)). The siRNA sequences were as follows: sequence 1, GCUUGAGUAAGGAAGAUAU; sequence 2, GAUUAAGUCAGUCCAAGAA; sequence 3, UCACGGACACAGAGAGAUU; sequence 4, CCACAGGGACCCAAAACAA (Dharmacon, Lafayette, CO). Non-targeting siRNA was purchased from Dharmacon. Immunohistochemistry and Western blot analysis was used to detect reduced membrane expression of Hsc70. Immunocytochemistry was performed by harvesting cholangiocytes before and after siRNA transfection and cytospin centrifugation of 10,000 cells onto slides. Slides were fixed in 4% paraformaldehyde and were blocked with 5% normal donkey serum. Slides were incubated at 4°C overnight with rat anti-mouse Hsc70 antibody diluted 1:200 in DAKO antibody diluent. After incubation, the slides were washed with PBS and further incubated with anti-rat Alexafluor 594 conjugated secondary antibody and incubated for 1.5 hours at room temperature. The slides were washed and embedded with DAPI mounting media for visualization under fluorescent microscope (Nikon Eclipse 90).
+ Open protocol
+ Expand
6

Mouse embryonic stem cell culture

Check if the same lab product or an alternative is used in the 5 most similar protocols
R1 mouse ESCs (from A. Nagy, Toronto, Canada) were cultured as described previously (15 (link),16 (link)). For the experiments, ESCs were grown for 48 h on tissue culture plates coated with 0.1% gelatin (Sigma) and cultured in serum-free medium (Knockout Dulbecco's modified Eagle's medium [DMEM], 15% Knockout Serum Replacement, 1× non-essential amino acids, 2 mM glutamine, 5 mM HEPES, 0.4 mM 2-mercaptoethanol [Gibco]) supplemented with 1000 U/ml ESGRO Leukemia Inhibitory Factor (Calbiochem). NIH-3T3 cells (Sigma) were cultured in DMEM supplemented with 10% foetal calf serum (Gibco). The cells were transfected (Lipofectamine 2000; Invitrogen) with 30 nM of siRNA directed against mouse HDAC1 or CHD4 (ON-TARGETplus SMARTpool siRNA; Dharmacon) or with a control siRNA (Non-targeting siRNA; Dharmacon) for 48 h. When indicated, valproic acid (1 mM, Sigma), cycloheximide (10 μg/ml, Sigma) and aphidicolin (0.1–1 μg/ml, Sigma) were used. For differentiation, ESCs cells were grown in N2B27 media (DMEM/F12:Neurobasal 1:1, 0.5× N-2 supplement, 1× B-27 serum-free supplement, 3.2 mM 2-mercaptoethanol; all from Gibco) on monolayer for 5 days (17 (link)).
+ Open protocol
+ Expand
7

Adiponectin Regulation in Murine Adipocytes

Check if the same lab product or an alternative is used in the 5 most similar protocols
Pioglitazone was obtained from the NCI Chemical Repository. Mouse recombinant TNF-α, and ELISA kits for MCP-1 and adiponectin were obtained from R&D Systems. RNeasy mini kits, real-time PCR mouse primers for CD68 (Cat # QT00254051), MCP-1 (Cat # QT00167832), TGF-β (Cat # QT00145250), GAPDH (Cat # QT01658692), adiponectin (Cat # QT01048047), AdipoR1 (Cat # QT00154217), AdipoR2 (Cat # QT00165326) and siRNA for adiponectin were purchased from Qiagen. TNF-α primers were obtained from Sigma (17 (link)). Non-targeting siRNA, AdipoR2 siRNA and DharmaFECT4 were obtained from Dharmacon. Murine leukemia virus reverse transcriptase, RNase inhibitor, oligo (dT)16, and Fast SYBR green PCR master mix were obtained from Applied Biosystems. Insulin, IBMX and dexamethasone were obtained from Sigma.
+ Open protocol
+ Expand
8

CUX1 Knockdown in Cell Culture

Check if the same lab product or an alternative is used in the 5 most similar protocols
Cells were seeded into poly-D-lysine coated 6-well plates at 2.5 × 105 cells per well and incubated for 48 hours. siRNA transfection was performed as previously described [37 (link)] using 10 nM siGENOME SMART pool targeting CUX1 or Non targeting siRNA (Dharmacon, CO, USA) as a transfection control. Effective protein knockdown was observed at 48 hours.
+ Open protocol
+ Expand
9

Genetic Manipulation of Slug and Puma in Mice

Check if the same lab product or an alternative is used in the 5 most similar protocols
Two mouse Slug shRNA clones TRCN0000096227 (mature antisense: TTTACATCAGAGTGGGTCTGC), or TRCN0000096228 (mature antisense: TTGGTATGACAGGTATAGGGT) and non-silencing control shRNA in the pLKO.1 lentiviral vector (Open Biosystems; Huntsville, AL, USA) were used to knock down Slug. To generate viruses, lentiviral vectors were transfected into 293T cells with Tat, Rev, Gag/Pol and VSV-G vectors. Two mouse Puma shRNA clones, V3LHS_342433 (Sense sequence: CGGATGGCGGACGACCTCA) and V3LHS_342436 (Sense: AGTACGAGCGGCGGAGACA). Two human Slug shRNA clones and a non-silencing control shRNA in pLKO.1 lentiviral vectors were from Dr. Guo (AECOM). On-TARTGET plus mouse Puma siRNA (J-050032-08) and non-targeting siRNA (D-001810-01-05) were from Dharmacon (Chicago, IL). Mouse N-cad siRNA (sc-35999) and control siRNA were obtained from Santa Cruz (Santa Cruz, CA). Mouse Slug cDNA was amplified by PCR and subcloned into a pLXSN retroviral vector (Clontech, Palo Alto, CA). For expression of Puma protein into control-sh/PyMT-N-cad cells, mouse Puma cDNA (Clone ID: 5133742) was from Thermo Scientific (Rockford, IL).
+ Open protocol
+ Expand
10

Modulation of Cell Response via IL-1RA and siRNA

Check if the same lab product or an alternative is used in the 5 most similar protocols
Cells were pre‐treated for 1 day with vehicle control (0.1% BSA in 1X PBS) or 400 ng/ml human recombinant IL‐1RA (R&D Systems, Minneapolis, MN; 280‐RA/CF) in the DMEM/10% FBE growth medium. The next day, the medium was removed and replaced with fresh DMEM/10% FBE or HS‐5 CM, plus an additional 400 ng/ml IL‐1RA or vehicle control, for 3 days. Gene silencing (siRNA): The following siRNA concentrations were used: 70nM non-targeting siRNA (Dharmacon, Lafayette, CO; D-001206-13-05) or AR siRNA (Dharmacon, Lafayette, CO; M-003400-02-0005, pool of 4 oligos). Cells were transfected with siRNA using siTran 1.0 transfection reagent (Origene, Rockville, MD; TT300003) DMEM/2.5% FBE growth medium for 4 days.
+ Open protocol
+ Expand

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Sign up for free.
Registration takes 20 seconds.
Available from any computer
No download required

Sign up now

Revolutionizing how scientists
search and build protocols!