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Tscratch software version 1

Manufactured by MathWorks
Sourced in United States

TScratch software, Version 1.0 is a data analysis tool used for processing and visualizing time-series data. It provides basic functionality for importing, manipulating, and plotting time-series data.

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7 protocols using tscratch software version 1

1

Wound Healing Assay for PC-3 Cell Migration

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Wound healing assay was conducted to investigate the effects of the different treatments on PC-3 cell migration. In total, 0.6 million cells/well were seeded in 6-well plates with complete media and incubated at 37 °C in 5% CO2 for 24 h to allow attachment of cells into monolayers. The next day, the growth media were replaced with serum-free media supplemented with 1 µg/mL of Mitomycin-C (Calbiochem, San Diego, CA, USA), and incubated for 2 h to inhibit cell proliferation. Then, a sterile pipette tip was used to instill wounds of similar size to the monolayer. The cells were washed with 1× PBS twice to remove the cell debris before treatment with ACA, blank NLC, ACA-NLC, AMD-NLC, and AMD-ACA-NLC in serum-free media for 24 h at 37 °C. The images of the wound area before and after treatment were captured using the Nikon Eclipse TS100 inverted fluorescence microscope (Nikon Instruments, Tokyo, Japan), and the migrated area was measured using TScratch software, Version 1.0 (MathWorks Inc., Natick, MA, USA).
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2

Evaluating Anti-Migration Effects of ACA and Analogs

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The anti-migration effects of ACA and its analogs were determined using the wound-healing assay. MDA-MB-231 cells were seeded in six-well plates and cultured until 80% confluent. After an overnight cultivation, complete medium was then replaced by serum-free medium treated with 1 μg/mL mitomycin-C, and the cells were further incubated at 37°C for 2 h to stop cell proliferation. A vertical scratch was made using a sterile pipette tip across the well, and cell debris was removed by washing with 1× phosphate-buffered saline. Cells were treated with control solvent or ACA and its analogs at their 20% inhibitory concentrations (IC20; Table S1) in serum-free medium. IC20 were used instead of IC50, because IC20 were less toxic on the cells. Images of wounded cells were captured using an inverted fluorescence microscope, Nikon Eclipse TS-100 (Nikon Corporation, Tokyo, Japan), at 0 and 24 h after wounding. The distance between two sides of the wound was analyzed using Tscratch software, version 1.0 (The Mathworks, Natick, MA, USA).
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3

Taraxasterol Inhibits Prostate Cancer Cell Migration

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The cancer cells treated with taraxasterol were performed by in vitro scratch test due to analysis of migration ability. Prostate cells were cultured in a four-well plate with 70,000 cells per well and allowed to form a monolayer. Then, the monolayers were scraped using a sterile pipette tip and rinsed with PBS. The IC50 concentration (114.68 ± 3.28 μM) of taraxasterol was added to the plates and incubated for 24 h for the next steps. Imaging was then performed using a reverse microscope. Image analysis was performed using TScratch software version 1.0 (Math Works Inc., MA and USA). Each group (prostate cancer and taraxasterol treatment) was evaluated in three replications.
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4

Wound-Healing Assay for Cell Migration

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The migration of H1299 and H460 cells was determined using wound-healing assays as previously described (27 (link)). Briefly, for wound-healing assays, 3×105 H1299 and H460 cells/well were seeded in 12-well plates, and were grown overnight until they reached ~95% confluence, after which wound gaps were generated using a sterile pipette tip. Cellular debris was removed with PBS and cells were incubated in medium containing 0.5, 1, 2, and 5 µM CPT. The wound-healing ability of the cells was documented after 16 h using the Nikon Eclipse TE2000U microscope (Nikon Corporation, Melville, NY, USA). The migration distance was assessed using TScratch software, version 1.0 (MathWorks Inc., Natick, MA, USA). The migration rate was calculated according to the relative cell migration area for each treatment.
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5

Cell Migration Assessment via Wound Healing

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Cell migration was determined using the wound healing assay. Equal number A549 or PC-3 cells (4.0 × 105/ml) were seeded in 6-well plates and incubated at 37°C in 5% CO2 for 24 h in growth media with 10% FBS (Kansas, USA) media to allow cells to attach onto the plate to form a monolayer. The growth media was changed to serum-free medium containing of Mitomycin-C (Calbiochem, USA) at 1.0 μg/ml and further incubated in 37°C for 2 h to inhibit cell proliferation, before wounds of similar size were introduced into the monolayer by a sterile pipette tip. Cell debris generated from the scratch were washed with 1x PBS twice, and treated with ACA stand alone, rhAFP stand alone, or combination of rhAFP and ACA in serum-free medium for 24 h at 37°C. The images and speed of wound closure was documented at 0 h and 24 h post-wounding using the Nikon Eclipse TS100 inverted fluorescence microscope (Nikon Instruments, Japan) and analyzed using TScratch software, Version 1.0 (MathWorks Inc., USA).
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6

In vitro scratch assay of HUVEC migration

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In vitro scratch assay was carried out to examine the effect of T. polium and/or tranilast on the migratory ability of HUVECs. Cells were cultured in 4-well plates and allowed to form a confluent monolayer. Wounds were made with a plastic tip (1 mm width) and debris was removed by washing with phosphate buffered saline (PBS). The plates were incubated for 72 h and the artificial scratch was then photographed.by an inverted microscope equipped with a digital camera, The length of the wound was then chosen for photograph. After photography, medium containing T. polium and/or tranilast were added. Finally, the images were analyzed using TScratch software, Version 1.0 (MathWorks Inc).32 (link)
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7

Assessing GBM Cell Migration

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An in vitro scratch assay was performed to examine the effect of TMZ and/or TQ on the migratory ability of GBM cells. U87MG cells (7 × 10 4 ) were cultured in 4 well plates and allowed to form confluent monolayer. Then, the monolayers were scratched using a sterile pipette tip, and debris was removed by washing with phosphate-buffered saline (PBS). Medium containing TMZ and/or TQ was added, and plates were incubated for 72 h and then photographed using an inverted microscope. Finally, images were analyzed by means of TScratch software, version 1.0 (MathWorks Inc., MA, USA).
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