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Fwd: Confirmed - Keynote Speaker for Clinical Genomics Track at BioITWorld 2017 this May 23-25 in Boston

I discuss how we interpret and prioritize the many variants in a personal genome. I concentrate on rare and somatic variants and discuss ways of assessing their impact in coding regions using protein structure. For non-coding regions, I present ways to analyze the overall burden of mutations, finding allelic elements differentially affected by variants in paternal and maternal chromosomes and using network connectivity to prioritize variants.

65 word edit

==
i0bioit17 

 

Native Media Network / Indian Country Books

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Our plan for 2017 is to introduce a Tribal publishing program with a focus on cultural literacy and K12 educational material. 

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Abstract for talk at UNC Charlotte (Nov. 2016)

TITLE:

Personal Genomics

ABSTRACT:

My talk will focus on a variety of topics in personal genomics,
principally on how we interpret and prioritize the many variants in a
personal genome. I will concentrate on rare and somatic variants. I
will discuss a number of ways of assessing their impact in coding
regions using protein structure (via looking for cryptic allosteric
sites and regions of change in frustration). For non-coding regions,
I will present ways to analyze the overall burden of mutations,
finding allelic elements differentially affected by variants in
paternal and maternal chromosomes and using network connectivity (eg
hubs) to prioritize variants. Throughout the talk I will highlight a
number of practical software tools that we have developed for
prioritization, including: FunSeq.gersteinlab.org,
AlleleDB.gersteinlab.org, STRESS.gersteinlab.org and
Networks.gersteinlab.org . I will also motivate the talk a bit by
discussing why prioritization is useful in the context of rapidly
increasing amounts of genome sequences.

REFS

http://papers.gersteinlab.org/papers/alleledb
http://papers.gersteinlab.org/papers/stress
http://papers.gersteinlab.org/papers/costseq2
http://papers.gersteinlab.org/papers/larva
http://papers.gersteinlab.org/papers/music
http://papers.gersteinlab.org/papers/funseq
==

i0uncc16

Fwd: Abstract for talk at Ohio State for BMI seminar series (Oct. 2016)

Personal Genomics

My talk will focus on a variety of topics in personal genomics,
principally on how we interpret and prioritize the many variants in a
personal genome. I will concentrate on rare and somatic variants. I
will discuss a number of ways of assessing their impact in coding regions
using protein structure (via
looking for cryptic allosteric sites and regions of regions great
change in frustration).
For non-coding regions, I will present ways to analyze
the overall burden of mutations, finding allelic elements
differentially affected by variants in paternal and maternal alleles
and using network connectivity (eg hubs) to prioritize variants.
Throughout the talk I will
highlight a number of practical software tools that we have developed
for prioritization, including: FunSeq.gersteinlab.org ,
AlleleDB.gersteinlab.org, STRESS.gersteinlab.org and
Networks.gersteinlab.org . I will also motivate the talk a bit by
discussing why prioritization is useful in the context of rapidly
increasing amounts of genome sequences.

==
i0os16

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Abstract for talk at Penn Bioinformatics Forum (Sep. 2016)

Personal Genomics

My talk will focus on a variety of topics in personal genomics,
principally on how we interpret and prioritize the many variants in a
personal genome. I will concentrate on rare and somatic variants. I
will discuss a number of ways of assessing their impact in coding regions
using protein structure (via
looking for cryptic allosteric sites and regions of regions great
change in frustration).
For non-coding regions, I will present ways to analyze
the overall burden of mutations, finding allelic elements
differentially affected by variants in paternal and maternal alleles
and using network connectivity (eg hubs) to prioritize variants.
Throughout the talk I will
highlight a number of practical software tools that we have developed
for prioritization, including: FunSeq.gersteinlab.org ,
AlleleDB.gersteinlab.org, STRESS.gersteinlab.org and
Networks.gersteinlab.org . I will also motivate the talk a bit by
discussing why prioritization is useful in the context of rapidly
increasing amounts of genome sequences.

==
i0pbf

Hello

Hello,

My name is Paul,i am from USA and i am an Engineer.

I lost my wife some years back and i have a daughter whom i cherish so much.I have been single and alone since then. I think this is my time to move on.

I am looking for woman who is honest and sincere in wanting a serious relationship,someone kind and caring, with a good sense of humor,someone who knows how to treat a man and make him feel that he is important to her.Most importantly,someone who does not lie or play head games.

Age or location is not a barrier.All i need is TRUE love.I am a happy person, responsible,honest, considerate, caring,sincere,serious and have a good sense of humor.Please let me know if you are interested in having a serious relationship with me.

I understand this is not the appropriate way or platform for such form of introduction, but i am only taking the chance to see if i will be lucky to get a response from you.

Am sorry if i invaded your private space. Apologies. I would be glad to share more about myself with you and send you some of my pictures.

With Love,

Paul

2016 SFNM1 Indian Market

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This Is My Second Letter To You!!

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I am contacting you again because you bear the surname credentials of a deceased client and therefore can present you as the beneficiary to the inheritance in the intent of the deceased since there is no written will "intestate" Our legal services aim to provide our private clients with a complete service; we are ready to prepare files, set-up and administer Trusts, carry out the Administration Of Estates, prepare and administer Powers of Attorney.

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Warm regards,

Alan 

Abstract for Talk on Genomic Privacy at Birkbeck College in July 2016

Genomic Privacy

I will talk about Genomic Privacy in general and then in relation to a
specific application of RNA-seq data. In general, with every new
exciting development in genomics come the often
under-appreciated ethical, legal and social concerns. Particularly with
regard to issues of privacy, there are tradeoffs as the
technology continues to develop and the real-life applications of
genomics become more of a reality. Numerous technical solutions have
been proposed, but every technical safeguard is accompanied by
increased complications with analyzing and manipulating datasets.
Moreover, technical solutions invite both white-hat and black-hat
efforts of circumvention, making them less useful in the long-run.
I propose a multi-prong approach to dealing with privacy
issues in genomics that includes technical, regulatory and social
advances that will create an environment that both safeguards privacy,
prevents harms associated with a lack of privacy and promotes
innovation in the fields of genomics and medicine.

To illustrate the complex aspects of privacy, I go through two case
studies that inter-relate RNA-seq data (and functional genomics data,
in general) with variants. On one hand, scientists can use these data
to generate general conclusions; on the other hand it is interesting
and worthwhile to relate it to genetic variants. I go over some
aspects of private information leakage in dealing with RNA-seq,
particularly related to eQTLs. Then I describe aspects of RNA-seq
calculations that cannot be abstracted from variants -- particularly,
those related to allele-specific expression.

==
i0genc16+bida

Abstract & Title for talk at Royal Holloway, University of London (July 2016)

Personal Genomics

My talk will focus on a variety of topics in personal genomics,
principally on how we interpret and prioritize the many variants in a
personal genome. I will concentrate on rare and somatic variants. I
will discuss a number of ways of getting at their impact including
looking for cryptic allosteric sites in coding regions, analyzing the
burdening in non-coding regions, finding allelic elements
differentially affected by variants in paternal and maternal alleles
and using network connectivity (eg hubs). Throughout the talk I will
highlight a number of practical software tools that we have developed
for prioritization, including: FunSeq.gersteinlab.org ,
AlleleDB.gersteinlab.org, STRESS.gersteinlab.org and
Networks.gersteinlab.org . I will also motivate the talk a bit by
discussing why prioritization is useful in the context of rapidly
increasing amounts of genome sequences.

==
i0genc16+rh

Fwd: Abstract for Talk on Personal Genomics

Abstract & Title for talk at Big Data Bioinformatics (May 2016, Boston, MA)

Personal Genomics

My talk will focus on a variety of topics in personal genomics,
principally on how we interpret and prioritize the many variants in a
personal genome. I will concentrate on rare and somatic variants. I
will discuss a number of ways of getting at the impact of rare
variants including looking for cryptic allosteric sites in coding
regions, analyzing the burdening in non-coding regions, finding
allelic elements differentially affected by variants in paternal and
maternal alleles and using at network connectivity (eg hubs).
Throughout the talk I will highlight a number of practical software
tools that we have developed for this purpose, including:
FunSeq.gersteinlab.org , AlleleDB.gersteinlab.org ,
STRESS.gersteinlab.org and Networks.gersteinlab.org .

==
i0gtcbio

Re: ModSTI: Conference Abstract

Abstract:

The emergence of collective creative enterprise such as large
scientific consortia is a unique feature in modern scientific
research, especially in genomic areas. Recent examples include the
ENCyclopedia Of DNA Elements (ENCODE) consortium annotating the human
genome and the 1000 Genomes consortium generating a catalog of
uniformly called variants for the biomedical community. To ensure that
the scientific community can benefit from these efforts, it is
important to understand the connections between consortium members and
researchers outside of the consortium. To address the issue, we
analyzed the temporal co-authorship network structures of ENCODE and
modENCODE consortia. Our analysis revealed their publication
patterns showing that the consortium members work closely as a
community whereas non-members collaborate in the scale of a few
laboratories. We also identified a few brokers playing an important
role to facilitate collaborations with outside researchers, which
suggests that large scientific consortia should set up formal an
outreach group to communicate with outside researchers.

Daifeng Wang, Koon-Kiu Yan, Joel Rozowsky, Eric Pan, Mark
Gerstein, Temporal dynamics of collaborative networks driven by large
scientific consortia, Trends in Genetics, 2016
http://dx.doi.org/10.1016/j.tig.2016.02.006
==
i0scisipc