Posts in Antibody Discussion Forum

Bhupal
________________________________
From: Antibody Discussion Forum <email obscured>> on behalf of
Bover,Laura <email obscured>>
Sent: Tuesday, September 24, 2019 6:37 PM
To: <email obscured> <email obscured>>
Cc: Hawke,David H <email obscured>>; Bover,Laura <email obscured>>
Subject: Re: [ABRF Ab Forum] [EXT] Epitope Mapping

MDAnderson has a Core facility to which I derive my customers that need epitope
mapping.
They don’t do the traditional overlapping peptides, but MS.
I cc here the Director of the Core David Hawke.
We should be able to do it with OCTET and peptides but we didn’t set up the
protocol yet.
Hope this helps.
Thanks
Laura

Laura Bover, PhD
Professor
Director Monoclonal Antibody Core Facility
University of Texas M.D.Anderson Cancer Center
Associate member of The University of Texas Graduate School of Biomedical
Sciences at Houston
Immunology Department/ Genomics Medicine Department
7455 Fannin St Room 1SCR4.3015/ 1901 East Rd- Room 4SCR5.1039
Houston- TX 77054
T 713-563-2281/ 713-563-3301
F 713-563-3276
<email obscured>
<email obscured>>


On 9/24/19, 1:57 PM, "Thomas White" <email obscured>> wrote:

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    We’ve used CovalX.

    Best,
    Tommy

    Sent from my iPhone

    > On Sep 24, 2019, at 2:23 PM, Christensen, Kurt Richard <email obscured>>
wrote:
    >
    > ― 1 file link ―
    >
    > Hi All,
    > I have a customer that would like to have three mouse monoclonal
antibodies epitope mapped.  Does anyone here offer epitope mapping as a
service?   If so, please provide your contact information and I'll forward it
to them.  I would also be open to companies that offer this service if anyone
has a recommendation, although I would like to send the work to a shared
resource first.
    >
    > Thanks in advance!
    >
    >
    > Kurt
    >
    >
    >        Kurt Christensen
    >        Lab Director
    > Protein and Monoclonal Antibody Production Core
    >
    > Web Page:
    >
https://urldefense.proofpoint.com/v2/url?u=https-3A__www.bcm.edu_centers_cancer-2Dcenter_research_shared-2Dresources_antibody-2Dbased-2Dproteomics_recombinant-2Dprotein-2Dmonoclonal-2Dantibody&d=DwIFaQ&c=lb62iw4YL4RFalcE2hQUQealT9-RXrryqt9KZX2qu2s&r=0t4gvG5S4xJ4qh8QKA3DA2OcWGulGoAxklm2L3plckU&m=OlbDeqBtyV-C-5VeHAb6ElR5WD-4sheOivXB5RgORAQ&s=gvHtBZFltd8uyZ8g2NxQP0oycs7_GyvxdrGSVKpDDfY&e=
    >
    > iLab Requests:
    >
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    >
    > Office: 713-798-2325
    > Lab:713-798-2327
    > Email: <email obscured>
    >
    > Baylor College of Medicine
    > Margaret M. Alkek Building for Biomedical Research, Room R551E, Mail Stop
BCM130
    > 1 Baylor Plaza
    > Houston, Texas  77030
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Louise Lopez
Office Administrator, Scientific Services
The Jackson Laboratory
600 Main Street, Bar Harbor, Maine 04609
P:  207-288-6484 ~ F:  207-288-6044 ~ C:  207-266-1419

The Jackson Laboratory: Leading the search for tomorrow’s cures
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-----Original Message-----
From: Antibody Discussion Forum <email obscured>> on behalf of
"Christensen, Kurt Richard" <email obscured>>
Reply-To: <email obscured>" <email obscured>>
Date: Tuesday, September 24, 2019 at 14:22
To: <email obscured>" <email obscured>>
Subject: [ABRF Ab Forum] Epitope Mapping

    ― 1 file link ―

    Hi All,
    I have a customer that would like to have three mouse monoclonal antibodies
epitope mapped.  Does anyone here offer epitope mapping as a service?   If so,
please provide your contact information and I'll forward it to them.  I would
also be open to companies that offer this service if anyone has a
recommendation, although I would like to send the work to a shared resource
first.

    Thanks in advance!


    Kurt


            Kurt Christensen
            Lab Director
    Protein and Monoclonal Antibody Production Core

    Web Page:
https://www.bcm.edu/centers/cancer-center/research/shared-resources/antibody-based-proteomics/recombinant-protein-monoclonal-antibody

    iLab Requests:
    https://bcm.corefacilities.org/account/login

    Office: 713-798-2325
    Lab:713-798-2327
    Email: <email obscured>

    Baylor College of Medicine
    Margaret M. Alkek Building for Biomedical Research, Room R551E, Mail Stop
BCM130
    1 Baylor Plaza
    Houston, Texas  77030






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>
> Thanks in advance!
>
>
> Kurt
>
>
>        Kurt Christensen
>        Lab Director
> Protein and Monoclonal Antibody Production Core
>
> Web Page:
>
https://urldefense.proofpoint.com/v2/url?u=https-3A__www.bcm.edu_centers_cancer-2Dcenter_research_shared-2Dresources_antibody-2Dbased-2Dproteomics_recombinant-2Dprotein-2Dmonoclonal-2Dantibody&d=DwIFaQ&c=lb62iw4YL4RFalcE2hQUQealT9-RXrryqt9KZX2qu2s&r=0t4gvG5S4xJ4qh8QKA3DA2OcWGulGoAxklm2L3plckU&m=OlbDeqBtyV-C-5VeHAb6ElR5WD-4sheOivXB5RgORAQ&s=gvHtBZFltd8uyZ8g2NxQP0oycs7_GyvxdrGSVKpDDfY&e=
>
> iLab Requests:
>
https://urldefense.proofpoint.com/v2/url?u=https-3A__bcm.corefacilities.org_account_login&d=DwIFaQ&c=lb62iw4YL4RFalcE2hQUQealT9-RXrryqt9KZX2qu2s&r=0t4gvG5S4xJ4qh8QKA3DA2OcWGulGoAxklm2L3plckU&m=OlbDeqBtyV-C-5VeHAb6ElR5WD-4sheOivXB5RgORAQ&s=oSEcaUOTnBYHNu0MymyFlCuPlOOZjC5I1ISkAP-msZI&e=
>
> Office: 713-798-2325
> Lab:713-798-2327
> Email: <email obscured>
>
> Baylor College of Medicine
> Margaret M. Alkek Building for Biomedical Research, Room R551E, Mail Stop
BCM130
> 1 Baylor Plaza
> Houston, Texas  77030
>
>
>
>
>
>
> ― 1 file ―
>
>  □ Picture (Device Independent Bitmap) 1.jpg  (4.8kb)
>
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Sample language: We gratefully acknowledge the contribution of [optional: name
of person] and the [insert Service’s name] Service at The Jackson Laboratory
for expert assistance with the work described in this publication.

Alan Sawyer
Senior Director, Scientific Services
The Jackson Laboratory
600 Main Street
Bar Harbor, ME 04609
207-288-6978
<email obscured><email obscured>>
www.jax.org
https://orcid.org/0000-0001-5942-4498

Louise Lopez
Office Administrator, Scientific Services
The Jackson Laboratory
600 Main Street, Bar Harbor, Maine 04609
P:  207-288-6484 ~ F:  207-288-6044 ~ C:  207-266-1419

The Jackson Laboratory: Leading the search for tomorrow’s cures
--

On Sep 4, 2019, at 15:08, Bover,Laura
<email obscured><email obscured>>> wrote:

Hi Frances, we use the same sites than Scott and we also use Genecards that
provide links for similar analysis.
It depends on which your clients find more friendly.
Thanks!
Laura


Laura Bover, PhD
Professor
Director Monoclonal Antibody Core Facility
University of Texas M.D.Anderson Cancer Center
Associate member of The University of Texas Graduate School of Biomedical
Sciences at Houston
Member of the Scientific Review Committee 2 (former CRC 2)
Member of the Steering Committee of the Immunology Program GSBS
Immunology Department/ Genomics Medicine Department
7455 Fannin St<x-apple-data-detectors://5/1> Room 1SCR4.2021
Houston- TX 77054<x-apple-data-detectors://7/0>
T  713-563-3301<tel:713-563-3301>
F 713-563-3276<tel:713-563-3276>
<email obscured><email obscured><email obscured>>

Sent from my iPhone

On Sep 4, 2019, at 1:11 PM, David Blum
<email obscured><email obscured><email obscured>>> wrote:

WARNING: This email originated from outside of MD Anderson. Please validate the
sender's email address before clicking on links or attachments as they may not
be safe.

One of our crystallographers recommends XtalPred Server (
http://xtalpred.godziklab.org/XtalPred-cgi/xtal.pl).  Paste in your
sequence and check all of the boxes and it will spit out secondary
structure information as well as known structural homologs and disordered
regions of the protein.

On Wed, Sep 4, 2019 at 1:39 PM Brown, Scott A
<email obscured><email obscured><email obscured>>>
wrote:

I don't know of any specific protein that does it.  I think some of the
big companies have programs that do it, but I piecemeal information from
multiple programs in DNASTAR Navigator.

1.  I use Protean to look for hydrophilic regions, antigenic regions,
surface probabilities and posttranslational modifications.
2.  I use MegAlign to align similar proteins
3.  If there is a crystal structure, I use Protean 3D.

I sent an email a while back that included a powerpoint on my process.  If
I find it, I will send it along.

Best,
Scott

-----Original Message-----
From: Antibody Discussion Forum
<email obscured><email obscured><email obscured>>>
On Behalf Of
Frances Weis-Garcia
Sent: Wednesday, September 04, 2019 12:17 PM
To:
<email obscured><email obscured><email obscured>>
Subject: [ABRF Ab Forum] Online Resources for Antigen Design

Caution: External Sender


Happy Wednesday everyone.
Hope you were able to carve out some personal time this summer and the new
academic year is off to a good start.

Got a request for “online resources” through which someone can run a
protein sequence to “identify areas of conservation, areas of surface
residue concentration, secondary structure and/or other features that
should be taken into consideration in the design of recombinant fragments”
for antibody generation.  Oddly enough, they are not asking us to make the
antibody with them … sigh … but hopefully that will come.

I am not familiar with anything … are any of you?

As always, thanks in advance for your sharing your knowledge.

Frances
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> I don't know of any specific protein that does it.  I think some of the
> big companies have programs that do it, but I piecemeal information from
> multiple programs in DNASTAR Navigator.
>
> 1.  I use Protean to look for hydrophilic regions, antigenic regions,
> surface probabilities and posttranslational modifications.
> 2.  I use MegAlign to align similar proteins
> 3.  If there is a crystal structure, I use Protean 3D.
>
> I sent an email a while back that included a powerpoint on my process.  If
> I find it, I will send it along.
>
> Best,
> Scott
>
> -----Original Message-----
> From: Antibody Discussion Forum <email obscured>> On Behalf Of
> Frances Weis-Garcia
> Sent: Wednesday, September 04, 2019 12:17 PM
> To: <email obscured>
> Subject: [ABRF Ab Forum] Online Resources for Antigen Design
>
> Caution: External Sender
>
>
> Happy Wednesday everyone.
> Hope you were able to carve out some personal time this summer and the new
> academic year is off to a good start.
>
> Got a request for “online resources” through which someone can run a
> protein sequence to “identify areas of conservation, areas of surface
> residue concentration, secondary structure and/or other features that
> should be taken into consideration in the design of recombinant fragments”
> for antibody generation.  Oddly enough, they are not asking us to make the
> antibody with them … sigh … but hopefully that will come.
>
> I am not familiar with anything … are any of you?
>
> As always, thanks in advance for your sharing your knowledge.
>
> Frances
> ――
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Frances

    -----Original Message-----

    From: Antibody Discussion Forum <email obscured>> on behalf of Scott
Brown <email obscured>>

    Reply-To: <email obscured>>

    Date: Tuesday, July 16, 2019 at 4:16 PM

    To: <email obscured>" <email obscured>>

    Subject: [ABRF Ab Forum] Purification of IgM



        Good afternoon all,

        I have run into a bit of a snag trying to purify IgM antibodies from
hyrbridoma supernatant.  I don't typically select the IgM clones, but one of my
labs is interested in studying the IgM response, so I need to purify them.
I've tried GE Lifesciences  HiTrap IgM Purification HP.  While I purified it, I
lost activity.  I haven't tried size exclusion chromatography, as I wanted to
purify from larger volumes of supernatants.  If anyone purifies IgM routinely
and can send me some suggestions, I would be most appreciative.

        Thanks,



        Scott



        Scott A. Brown, Ph.D.

        262 Danny Thomas Place

        Immunologic Reagent Facility

        Department of Immunology

        St. Jude Children's Res. Hosp.

        Memphis, TN 38105

        w. (901) 595-4067

        F. (901) 595-3107

        c. (901) 674-9960





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-----Original Message-----
From: Antibody Discussion Forum <email obscured>> On Behalf Of
Weis-Garcia, Frances/Sloan Kettering Institute
Sent: Tuesday, July 16, 2019 3:43 PM
To: <email obscured>
Subject: Re: [ABRF Ab Forum] Purification of IgM

Caution: External Sender


Ugh ... no fun.



Many moons ago we always purified all our MAb with Anion Exchange
Chromatography (HiTrap Q) from bioreactor supernatant (CELLine) and if we could
not get it to 95% purity we would then polish it off with Ceramic
Hydroxyapatite.  This approach was taken to avoid denaturing the antibody.



If you need more specifics, I’ll need to dig them up.





-----Original Message-----

From: Antibody Discussion Forum <email obscured>> on behalf of Scott
Brown <email obscured>>

Reply-To: <email obscured>>

Date: Tuesday, July 16, 2019 at 4:16 PM

To: <email obscured>" <email obscured>>

Subject: [ABRF Ab Forum] Purification of IgM



    Good afternoon all,

    I have run into a bit of a snag trying to purify IgM antibodies from
hyrbridoma supernatant.  I don't typically select the IgM clones, but one of my
labs is interested in studying the IgM response, so I need to purify them.
I've tried GE Lifesciences  HiTrap IgM Purification HP.  While I purified it, I
lost activity.  I haven't tried size exclusion chromatography, as I wanted to
purify from larger volumes of supernatants.  If anyone purifies IgM routinely
and can send me some suggestions, I would be most appreciative.

    Thanks,



    Scott



    Scott A. Brown, Ph.D.

    262 Danny Thomas Place

    Immunologic Reagent Facility

    Department of Immunology

    St. Jude Children's Res. Hosp.

    Memphis, TN 38105

    w. (901) 595-4067

    F. (901) 595-3107

    c. (901) 674-9960





    ________________________________



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