Science topic

CLL - Science topic

Explore the latest questions and answers in CLL, and find CLL experts.
Questions related to CLL
  • asked a question related to CLL
Question
3 answers
I have a breeding colony of Emu-TCL-1 mice (CLL model), and since this is a heterozygous model, I need to genotype my pups.
I have 2 different sets of primers and I have tried 4 different DNA extraction protocols (Proteinase K based, NaOH based, a ZymoClean kit and Phire kit (by Thermo Fischer)), but I couldn't get repeatable results. Also, the only enzyme I tried that gave any products is Phire, so this is the one I'm using.
I would very much appreciate any help or advise anyone who managed this model genotyping could give me.
Thanks!
Relevant answer
Answer
Thank you both for your replies.
The DNA samples i'm using are my negative and positive controls for the gene (an ear piece of a WT mouse and one of a model mouse).
My main problem is that the same model DNA sample sometimes gives the right result and sometimes doesn't.
I tried using different amounts of DNA (didnt measure the OD) and it's the same with all of it. My extracted DNA was used only inside a bio hood after UV light was on for at least 10 minutes (to prevent contamination).
I got my primers from an article written by the group that engineered this mice model but I'm starting to think maybe they aren't right
  • asked a question related to CLL
Question
2 answers
All the 3 CLL DNA pellet was reddish. After isopropanol I made 2 washes with ethanol.
Relevant answer
Answer
Measure it using a nano-drop or a bioanalyzer for quality and quantity. If you have a good amount you can clean it one more time. I recommend the Zymo DNA cleaning kit.
  • asked a question related to CLL
Question
4 answers
Dear colleagues,
We are planning to stimulate human derived B lymphocyte (CLL cells) in our lab. We would like to understand the role of activating the B-cell receptor (BCR) signalling in the cross-talk between the CLL cells and tissue microenvironment after a drug treatment. According to the literature and as far as I know, immobilised anti-IgM acts more effective compared with soluble antibody in activation of B cells.
I did a literature search and contacted different companies about immobilised anti-IgM, but I couldn't find any related product for my experiment.
Your advice or suggestions will be much appreciated.
Many thanks in advance.
Best Wishes
Erhan Aptullahoglu
Northern Institute for Cancer Research, UK
Your advice or suggestions will be much appreciated
Relevant answer
Answer
Jean-Jacques Pin Thank you very much for your answer. Really helpful. Best Wishes
  • asked a question related to CLL
Question
1 answer
The energy stored in tank elements (LCL\LCC\LLC\CLL) is required to maintain output current (i.e, discharging of tank elements) . How does the sizing of the tank elements account the discharging of resonant tank elements?
Relevant answer
Dear Uday,
The inductor in the tank stores an energy Ei= LI^2/2 with L is the inductance and I is the current in the inductor while the capacitor stores an energy CV^2/2 with V the voltage across the capacitor and C is its capacitance. If they connected to form a parallel resonance circuit for example, then it is so that the maximum energy in the capacitor will be equal to the maximum energy in the induct. The maximum voltage on the capacitor will be reached when the current in the circuit is equal to zero with the whole energy stored in the capacitor and the inductor is fully discharged. Conversely, the energy will be fully stored in the inductor when the current reaches its maximum value and the capacitor voltage will be zero pointing out that the capacitor is fully discharged. It is so that the energy will will alternate between the two elements similar to pendulum motion with the alternation between the potential and kinetic energy. The potential energy resembles the capacitor energy and the kinetic energy resembles the inductive energy. So, if the capacitor is known and its maximum voltage is known assuming that we charge a capacitor to a voltage V and then connect across it the inductor.
Then if L is known one can get I, the maximum current in the instructor by equating the two energies.
On the other side normally one wants certain resonance frequency f0 from it one can calculate the inductance of the inductor given C such that L=1/ (2pi f)^2 C.
Then one can size the voltage of the capacitor and the current of the inductor. They are required to specify the capacitor and inductor.
If you connect a resistor RL in parallel with the resonance circuit as a load this load current is normally much smaller than inductance current I. It is equal to V/RL.
Best wishes
  • asked a question related to CLL
Question
4 answers
I wanted to start a project to test drugs on CLL cells. at this point i dont want to use sample from hospitals; therefore, I would like to know which commercial leukemia cell lines should be the best to work in this experimental field of research. Thanks for your advice.
Relevant answer
Answer
Leukemia cell lines
  • asked a question related to CLL
Question
3 answers
Hi,
I used to work with T cells which I was told are much more resistant to cryopreservation. B cells on the other hand are apparently more sensitive and the viability after thawing is poor, particularly for CLL samples.
The frozen samples are obtained from collaborators so I do not know how they were frozen and I will not have control over that.
What I plan to do is aliquot 1mL of pre-warmed media into a Falcon tube. Thaw the cells in 37C quickly then transfer them into the media. Top up until 10mL and centrifuge at 1200rpm, 5 minutes, RT. Resuspend in 1mL, top up media to 10mL, repeat wash, transfer to T25 and incubate.
I also want to prevent as much aggregates/debris in the samples as I would need to use them for FISH experiments. If anyone has extensive experience working with B cells, could you tell me if slow/fast addition of media works better and what protocols you may have to achieve the best recovery. What is the % viability you would normally get from your methods?
Relevant answer
Answer
This is an interesting topic. Waiting for some more inputs from other researchers. Good luck!
  • asked a question related to CLL
Question
4 answers
Dear Researchers,
I need a comprehensive guideline to follow to determine analysis cut-off points (e.g.: number of nuclei per sample, percentages to consider a deletion present, false +/- testing for each probe since the % of hybridisation is different for each probe).
I am using Leica: TP53, LEU1, +12 and ATM mutations for my FISH experiments. So far the only one I have found that is of any use is this:
Does anyone have any other papers that may be useful/helpful for my purpose? Would be better if it was specific to CLL.
Thanks in advance.
Relevant answer
Answer
  • asked a question related to CLL
Question
6 answers
Hi all,
I am trying to find the p53 mutation status of the HG3 CLL cell line through the most commonly used databases and papers available and had no luck so far.
Would anyone know whether this particular cell line expresses a wild type or mutated p53?
Many Thanks,
James
Relevant answer
Answer
Hello Mr. Keown,
could you write the exact name of cell line and where did you get, please? Also you can check this encyclopedia. https://portals.broadinstitute.org/ccle
Good day!
  • asked a question related to CLL
Question
6 answers
I am struggling with The XL DLEU/TP53 locus-specific probe (metasystem) detects deletions in the long arm of chromosome 13 and in the short arm of chromosome 17 in Chronic lymphocytic leukemia (CLL) by FISH
Relevant answer
Answer
Dear Wojciech Witarski
I done Fish according my protocol ( metasystem)
but at last when i look slide under the microscope have not get result, I think Dapi didn't paint cells
can you help me?
What can be reason?
What could be the reason that the dipi can not contain cells?
  • asked a question related to CLL
Question
4 answers
Hi all,
We are exploring the potential for our compound scaffolds to target p53 variants in CLL. Would anyone have advice on the best way to find the mutational status of particular cancer cell lines?
Any advice/suggestions would be much appreciated.
Kind Regards,
James
Relevant answer
Answer
Thanks Norman. I'll definitely have a look at that going forward.
  • asked a question related to CLL
Question
4 answers
I need to freeze primary CLL cells. Can anybody tell me the appropriate cell freezing media so that i can get better cell viability at the time of thawing and furthet culturing
Relevant answer
Answer
Hi.. Thanks for the reply. I am doing in the same way. actually i need to know the appropriate freezing media for primary CLL cells.
  • asked a question related to CLL
Question
2 answers
Dear all,
I am working on the CLL cell line entitled "183-E95." After incubation of these cells with mAb anti-CD95 I observed high level expression of CD95. But, I am sure that my cells are totally alive and not undergone apoptosis. This state even seen in control groups. Thanks for any helpful comments.
Kind Reagrads
Alireza Goodarzi
Relevant answer
Answer
Hi Manel,
many thanks for your nice comments.
Hope all the best for you during working for scientific investigations:)
Kind Regards
Alireza Goodarzi
  • asked a question related to CLL
Question
3 answers
After CLL relapse, what might we expect to observe in the genetics of the recurrent cancer?
Relevant answer
Answer
At patient may harbor the same karyotype but it is common to find some other additional cytogenetic lesions. Furthermore, the TP53 abnormalities (deletion or mutation) become more common at relapsed in particular among fludarabine-refractory patients.
  • asked a question related to CLL
Question
4 answers
I am using a anionic drug (490mg) plus an adjuvant (250mg of Polaxamer 188) in 100mL of ultrapure water (Solution A)
Then using a mother solution of an anionic polyssacharide (10mg) in 100mL (solution B)
I pick 25mL of A and 25mL of B (50mL final) and spray dry
But, when I spray dry (Buchi Nano Spray Dryer B-90), I cannot recover anything because all of these solids stay in the particle collector wall.
I am wondering that:
1) the solution (A+B) is too moist, because i am using 60 celsius.
2) the solution have high concentration of drug/adjuvant.
3) Polaxamer 188 is non-anionic and I using two anionic compounds). But all cationic adjuvants that i searched (I.e. benzalkonium hydrochloride) show high pulmonary toxicity.
I have two options that i can try:
1) Change the temperature (60 to 100 celsius to observe that the moist is the problem)
2) Change concentrations of Polaxamer 188.
Anyone can help?
Relevant answer
Answer
Hi Max
Did you use exactly 100C? because that is still low.
I assume by collector wall you are referring to the cyclone?
Did you check the total concentration of solids you have in liquid. That's another reason why the particles may not reach the product collection tube if the particles do not have enough solids and are low in density. If you have a picture of the spray dryer and the deposit and you can send it to me, I can probably help you further. my email is ali_al-khattawi@outlook.com
  • asked a question related to CLL
Question
3 answers
I am doing content analysis of three newspapers. I have developed Coding Sheet for data collection from the three newspapers.
All items of coding sheet are based on categorical data. When calculate Reliability test. The result comes negative. The problem is my all item in the coding sheet separate variables and different from each others. Some variables have four options. Some have seven. Is there any possibility of calculating validity of categorical data???
Relevant answer
Answer
Here are a couple of documents that might be helpful for categorical data:
and
Which also lists some references.
  • asked a question related to CLL
Question
3 answers
I am interested in studying BCR signalling in CLL cells.  I was hoping that someone might be able to recommend an anti-IgM antibody that they have used successfully to stimulate CLL cells.
Thanks.
Relevant answer
Answer
Hi Nicholas,
The abs below work fine. You need Fab2 to avoid FcR interaction. You may also consider attaching these abs onto some kind of beads.
#2022-01 Goat F(ab')2 anti-human IgM-UNLB 0.5mg Cambridge Bioscience
#2032-01 Goat F(ab')2 anti-human IgD-UNLB 0.5mg Cambridge Bioscience
good luck,
Serge
  • asked a question related to CLL
Question
3 answers
We have employed the telomere length assay kit provided by Roche Company. Unfortunately, after trying several times, we could not obtain any result. DNA is first extracted from lymphocyte of CLL patients and then digested according to the protocol, electrophoresis and transfer to the nylon membrane are implemented manually  .Finally, with all steps being done, the marker bands can be observed on the X-ray films, while the telomere smear is absent. However, our first attempt, juxtaposing the membrane with the film, led to complete darkness of the markers, therefore we decreased the exposure time to 10 and 5 minutes in our later attempts. It is also noticeable; that the control DNA provided by kit itself also never showed the telomere smear in any our experiments. In another attempt, we extended the digestion time from 2 hours to overnight and again obtained no result. Regarding the fact that the kit is so expensive and difficult to procure and also the limited number of reactions which could be implemented, we would like to ask you to provide us with any probable solutions to such problems.
Relevant answer
Answer
As both Daniela and Divaker have said, I have used the kit to great effect as well.  Have you tried increasing the time of transfer to the positive nylon?
As to the cost of the kit, all of the components can be purchased from various companies (Roche sells a nice set of wash and block buffers, we use IDT for the probe and NEB for the enzymes.  Obviously other companies also sell, and you can make a lot of the buffers from scratch as well) that cuts the cost of the protocol significantly.
  • asked a question related to CLL
Question
3 answers
I am trying to show changes in CD38 expression in CLL cells as a result of treatment with Acitretin. I want to know how long to treat the cells for.
Relevant answer
Answer
Thank you Beatrice! I am familiar with the first 2 papers you sugessted but have not tried to contact the authors as yet. I appreciate your suggestions.
  • asked a question related to CLL
Question
7 answers
I am struggling with detecting 17p deletion in Chronic lymphocytic leukemia (CLL) by FISH - IS using BAC ( bacterial artificial chromosome) with ImageStream X (Amnis), otherwise centro-mere probes works well.
Many thanks,
Cheers,
Cuc
Relevant answer
Answer
after dropping the slide let it dry overnight and then put it for 2-5 min a 3% (para)formaldehyde solution. Then cells are stabilized and the  you may use normal pepsin treatment and cells should be ok.
Also it happens when you change the batch of pepsin  that you have to test for concentration and time of treatment
  • asked a question related to CLL
Question
9 answers
I have been trying to transduce primary CLL cells with virus made using psPAX2 and pMD2.G plasmids.  The virus I have generated works because I have managed to transduce HEK cells as well as the CLL cell line MEC-1.  However, I haven't had any success with primary CLL cells.  I have tested different polybrene concentrations, concentrating the viral supernatant in an ultracentrifuge as well spinnoculation without any luck.
If anyone has any suggestions or even better a protocol that they would be willing to share I would be most grateful.
Thanks
Nick
Relevant answer
Answer
Hi Nicholas,
I agree with Daniel. I have had first hand experience with lentiviral transduction with primary B cells. They are extremely difficult to transduce. I have had best success with spinoculation followed by incubation at 32C instead of 37C since the virus is more stable at this temperature.
All the best with your experiment!
Thanks,
Siddha
  • asked a question related to CLL
Question
6 answers
I am trying to establish a co-culture system for patient-derived CLL cells. I am planning on using a BMSC cell line and I see from the literature that CD40L or IL4  are usually required. Has anyone tried using the supernatant of another cell line that produces these factors instead of adding purified factors in the media?
Relevant answer
Answer
Sent!
  • asked a question related to CLL
Question
4 answers
Anionic, cationic and neutral.
Relevant answer
Answer
Charging (cationic and anionic ) isnt required for the immunoliposome ,But for delivery system by liposome , cationic and anionicis is required.
Finally,
what is your suggestion ,for negative charge protein delivery in to the leukocyte by immunoliposome method.?
  • asked a question related to CLL
Question
2 answers
I am working on a case report and it makes a difference if the patient is considered immunocompetent or immunosuppressed. I thought this would be easy to answer but not after I read an article regarding immune impairment in successfully treated lymphoma patients. Those, however, were patients of Hodgkins' and non-Hodgkin's lymphoma and I could not find similar data in CLL.
Relevant answer
I personally would consider any patient with CLL - even patients in complete remission after successful treatmen - immunosuppressed. I have treated numerous CLL patients in complete remission, which had opportunistic infections. In the case of CLL it is difficult to distinguish immunosuppression due to the disease itself form immunosuppression as a consequence of treatment. The type of therapy is an important factor since many treatment options for patients with CLL are accomanied by severe long-term immune defects, e.g. alemtuzumab or fludarabine. The number of prior treatments also matters, of course. The more prior treatments the higher the degree of immunsupression. That said, a paper by Michael Keating (http://www.ncbi.nlm.nih.gov/pubmed/9694704) showed that CLL patients in complete remission after fludarabine mono had only a low risk of infection. Hower, the patients in this study had receive only one line of therapy (fludarabine mono) which is certainly not representative of the everage CLL patient in 2012, who usually had serveral prior lines of treatment with combination immunochemotherapy. Another study with heavily pretreated patients supports this assumption (http://www.ncbi.nlm.nih.gov/pubmed/21670470). I would also be cautious to draw conclusions from surrogate parameters such as lymphocyte counts or in vitro tests on the risk of infections. In fact, the study by Keating showed that there was no reliable correlation between immune parameters and the rate of infections.
In summary, a patient with CLL in complete remission should usually be considered to be immunsuppressed and treated accordingly.