Where can I find a complete list of oncogenes and TS for NCI-60 cell lines?

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Linear regression assumption violation?

I am trying to perform linear regression, but my response variable seems not to follow a normal distribution (rejected H0 in ks test) with positive skewness (the distribution is attached - Fig1)....

07 August 2019 5,290 21 View

How to calculate gene expression fold change among multiple conditions?

Hi, This seems a bit unusual to me, since I could not find any related paper. This is my situation: We have CT values (3 replicates each) for following conditions for gene A: - Wild type (WT)...

01 February 2019 5,452 6 View

How to employ hypergeometric test correctly?

Hi, Lets give a vivid example to explain my question: suppose we have a list of universal genes including both oncogenes (OG) and tumor suppressor (TS), and the purpose is to test the enrichment...

06 July 2017 6,023 3 View

How to interpret RMA log2 intensity data?

Hi! I am confused with some terms, so, I appreciate any help in advance. Array data sets are usually reported as intensity levels of probes (expression values). Some researchers report their data...

03 April 2017 2,155 0 View

Can two/more isozymes catalyze the same reaction at the same time?

Is it possible for a cell to have two or more isoenzymes catalyzing a biochemical reaction at the same time? For instance, we know that two alcohol dehydrogenase (ADH) isoenzymes simultaneously...

11 December 2016 6,499 4 View

Repeated N-fold cross validation?

Hi! I am a bit confused with the term of "repeated" in repeated CV. In a typical cross validation problem, let's say 5-fold, the overall process will be repeated 5 times: at each time one subset...

10 November 2016 7,976 4 View

How to reconcile multiple gene ID mapping when dealing with probe set id conversion?

I want to get Entrez IDs for Affymetrix probe sets (hgu133a) to map them on genome-scale metabolic models (GSMMs). Generally, GSMMs use Entrez gene IDs; therefore, to integrate gene expression...

06 July 2016 6,880 3 View

What is a suitable panel for normal/cancerous liver cell lines?

Hi, I plan to do some gene silencing in HepG2 cell line. However, to draw a profound comparison between normal and cancerous liver (in this case, hepatocellular carcinoma) phenotypes, a normal...

08 September 2015 3,357 6 View

Which parameters affect the choice of a tumor cell line?

There are various cell lines in literature from different cell collections (ATCC, DSMZ, etc.) or personal donations extracted from patients or just a gift from a generous researcher. However, not...

08 September 2015 5,639 7 View

How can we concentrate small volumes of a protein solution?

Is there any special centrifuge filter or another instrument for the purpose of tiny volumes?

04 May 2013 3,422 16 View

Why Do TDS and EC Increase with Larger Wastewater Volumes, While BOD and COD Decrease?

I have carried out MFC experiments on three different volumes, 50, 500 and 1000 mL of wastewater. Results after MFC treatment shows that TDS and EC are more in larger volumes of water i.e. TDS and...

09 August 2024 9,621 0 View

Could it be a cell culture contamination?

Hello everyone! I observed in my culture (htert-RPE1 cells) an orange- red particle at the bottom of the dish. It is visible to the naked eye as a very very small red dot. Could it be a...

09 August 2024 2,824 3 View

Is there any way to quantify bacterial and fungal cells in their mixed culture?

I am working in fungal fermentation of soybean meal and there is bacterial growth in them at times. I am trying to quantify fungal cell counts and bacterial cells; but I haven't been able to do at...

07 August 2024 7,535 4 View

How to normalize and take the significance of the MTT OD values with 3 replicates for the same cell-line?

Hi, I have a question about normalizing the MTT OD values for doing the statistical analysis. So, if we have 3 different plates and we call them 3 different replicates, so, first we would...

07 August 2024 8,106 4 View

Why activated CAR-Jurkat cell could not kill targets?

Previously when I co-coluture anti-CD19(FMC63) CAR-Jurkat with Raji with E:T=5:1, Jurkat can eliminate Raji in 24h. However, when I test another CAR construct, although I can dectect totally CD69...

06 August 2024 641 2 View

Weak DAPI staining after immunohistochemistry - how to improve?

After immunohistochemistry of previously fixed in PFA and EtOH and then frozen 20 μm sections of zebrafish brain, DAPI staining is very weak (right) compared to the same sections stained without...

05 August 2024 9,637 2 View

The Curse of Evolution and Complexity?

Brain and body mass together are positively correlated with lifespan (Hofman 1993). The duration of neural development is one of the best predictors of brain size, and conception is the best...

05 August 2024 6,247 3 View

How to isolate lymphocytes from mouse spleen?

I have tried several times to isolate lymphocytes from mouse spleen, but all attempts have been unsuccessful. I tried most available protocols. I used different dissociation media (HBSS with Ca...

04 August 2024 9,913 7 View

How to Add Missing Water Molecules in Protein-Membrane Simulations?

I have protein-membrane simulations (PDB, PSF, DCD) and have noticed that water molecules near the protein are not visible in the simulations. How can I fix this issue? Is there a way to place the...

04 August 2024 1,200 2 View

Does long-term culture of murine Monocytes result in macrophage differentiation?

Hi, I am isolating monocytes from the bone marrow using the Mouse Monocyte EasySep kit. I want to treat these cells and monitor expression of specific markers over the course of 10 days. I will...

04 August 2024 7,282 2 View