h***e
发帖数: 232 | 1 Just wondering if there is a way to quantify a specific gene expression in
mixed population of cells.
For example:
Each sample has x number of cells from normal tissue mixed with y number of
cancer cells. x and y are unknown.
How to compare some specific gene expression profiles (those genes only
expressed in cancer cells) among different
samples.
Any reference? |
w*****r
发帖数: 2061 | 2 flow cytometry? use some marker to label cancer cell
of
【在 h***e 的大作中提到】
: Just wondering if there is a way to quantify a specific gene expression in
: mixed population of cells.
: For example:
: Each sample has x number of cells from normal tissue mixed with y number of
: cancer cells. x and y are unknown.
: How to compare some specific gene expression profiles (those genes only
: expressed in cancer cells) among different
: samples.
: Any reference?
|
l***y
发帖数: 4671 | 3 if you have controls.
of
【在 h***e 的大作中提到】
: Just wondering if there is a way to quantify a specific gene expression in
: mixed population of cells.
: For example:
: Each sample has x number of cells from normal tissue mixed with y number of
: cancer cells. x and y are unknown.
: How to compare some specific gene expression profiles (those genes only
: expressed in cancer cells) among different
: samples.
: Any reference?
|
h***e
发帖数: 232 | 4 flow cytometry won't work with few to few tens of cancer cells.
【在 w*****r 的大作中提到】
: flow cytometry? use some marker to label cancer cell
:
: of
|
h***e
发帖数: 232 | 5 that's my question. :(...
【在 l***y 的大作中提到】
: if you have controls.
:
: of
|
l***y
发帖数: 4671 | 6 How about using normal cells as the control? Are cancer cells heterogeneous?
if so, you still cannot get rid of the so-called "volume effects".
【在 h***e 的大作中提到】
: that's my question. :(...
|
h***e
发帖数: 232 | 7 Many people normalize the expression to the housekeeping genes expression;
but what if I don't know how many normal/cancer cells, considering both
normal/cancer cell contribute to the housekeeping gene expression?
heterogeneous?
【在 l***y 的大作中提到】
: How about using normal cells as the control? Are cancer cells heterogeneous?
: if so, you still cannot get rid of the so-called "volume effects".
|
l******u
发帖数: 936 | 8 laser capture microdissections to capture pure tumor cell population.
of
【在 h***e 的大作中提到】
: Just wondering if there is a way to quantify a specific gene expression in
: mixed population of cells.
: For example:
: Each sample has x number of cells from normal tissue mixed with y number of
: cancer cells. x and y are unknown.
: How to compare some specific gene expression profiles (those genes only
: expressed in cancer cells) among different
: samples.
: Any reference?
|
u**********d
发帖数: 573 | 9 没有办法。只有尽可能地在取标本阶段操作准确一些。
【在 h***e 的大作中提到】
: Many people normalize the expression to the housekeeping genes expression;
: but what if I don't know how many normal/cancer cells, considering both
: normal/cancer cell contribute to the housekeeping gene expression?
:
: heterogeneous?
|
l***y
发帖数: 4671 | 10 Actually I am working on an approach to address similar issues.
A friend of mine, who was a postdoc in my PhD lab, worked on FTIR-based
polymer composition assay. He developed a very simple spectrum-based math
method, and the performance was amazing.
I am applying the same idea and developing a spectrum mixture model to
decouple cell phenotypes and reveal the GE features of each phenotype. The
major limitation is the volume effects, and I have worked out a workaround
method.
If reviewers buy the idea, I will let you know.
【在 h***e 的大作中提到】
: Many people normalize the expression to the housekeeping genes expression;
: but what if I don't know how many normal/cancer cells, considering both
: normal/cancer cell contribute to the housekeeping gene expression?
:
: heterogeneous?
|
