Welcome – I really need to update this site, so please dont judge me by it right now... Once tournament baseball stops I'll bring this site into the current century



As a kid, I was primarily a jealous onlooker, watching friends toy with their Commodore 64s or Apples. Later, I was equally jealous selling hi-end business computers. Today I enjoy writing and applying algorithms to complex data sets to identify new starting points for drug discovery.


use strict; warn (when needed) ; and fork() as often as possible



I am an avid outdoorsman, spending as much time as I can with family and a few of our 5 dogs in the field. Yes, 5 dogs... What's the line from that Dirks Bentley song “What was I Thinking?” My next outdoor adventure will be a Colorado backcountry elk hunt in September where I will spend 2 weeks in the mountains with a backpack, bow and a tent.

I have worked the past 7 years for GLAXOSMITHKLINE as an Investigator in Molecular Discovery Research. As I mention above, my work is largely related to computational biology and computational chemistry. The technology I can share is called Encoded Library Technology (ELT) where proteins are immobilized on a surface and pools containing billions of different DNA-tagged compounds are washed over the protein. The molecules that do not bind are washed away, the binders are sequenced using illumina Next-Gen DNA sequencers. I managed the 5 terabytes (TB) of data generated by this process weekly. Here's a link to the publication in Chemical Biology entitled Design, synthesis and selection of DNA-encoded small-molecule libraries.

Previously working for QIAGEN, I managed a project for the development of HaploPrep™ probes that were used for unambiguous identification of an individuals' HLA type. This was used for properly matching patients who were preparing for tissue transplantation or for determining graft HLA bleed-through, in a joint project between QIAGEN and Generation Biotech. The project included the in-silico design of approximately 12.5 million probes which have thermodynamic and other characteristics stored in several MySQL databases.I also developed and validated all protocols in the West Chester sequencing pipeline for our ABI3130 Genetic analyzer, including several standardized, multi-level SeqScape projects that are used for research or quality control. My current duties extend beyond monitoring the flow of sequencing, I also evaluate new research technologies and act as customer support liaison.

Actually, I wore many hats in our office. Bioinformatics Scientist, Lab Manager, Quality Control Manager, Technical Writer, Information Technology and Network Support Specialist. Plus, I'm the thoughtful guy who fills the water cooler and paper towel dispensers when they're empty...

Over the past 15 years I've trained as a wet bench scientist. Upon my hiring at The Children's Hospital of Philadelphia in 2000, I realized that scientists in the post-genomic workforce need to thoroughly understand information technology and data warehousing to succeed. This need prompted me to pursue a Masters degree in Bioinformatics and certifications in Oracle and Java technologies.

Previously I worked was employed as a Research Technician III in Dr. Terri Young’s lab at The Children’s Hospital of Philadelphia in the Joseph Stokes Jr. Research Institute. Our laboratory focused on eye disorders which are still of interest to me today.

1. High Myopia (severe nearsightedness) affects approximately 11 of every 1000 people in the USA. Normal myopia affects approximately 25 percent of the population (75 million Americans). We characterized several loci for Autosomal Dominant High Myopia, which have been named MYP2, MYP3, and a new locus, MYP5.

2.Retinopathy of Prematurity

Peer Reviewed Publications

Scavello GS, Paluru PC, Zhou J, White PS, Rappaport EF, Young TL. Genomic structure and organization of the high grade Myopia-2 locus (MYP2) critical region: mutation screening of 9 positional candidate genes. Mol Vis. 2005 Feb 2;11:97-110. PMID: 15723005

Paluru PC, Scavello GS, Ganter WR, Young TL. Exclusion of lumican and fibromodulin as candidate genes in MYP3 linked high grade myopia. Mol Vis. 2004 Nov 30;10:917-22. PMID: 15592176

Scavello GS, Paluru PC, Ganter WR, Young TL. Sequence variants in the transforming growth beta-induced factor (TGIF) gene are not associated with high myopia. Invest Ophthalmol Vis Sci. 2004 Jul;45(7):2091-7. PMID: 15223781

Young TL, Deeb SS, Ronan SM, Dewan AT, Alvear AB, Scavello GS, Paluru PC, Brott MS, Hayashi T, Holleschau AM, Benegas N, Schwartz M, Atwood LD, Oetting WS, Rosenberg T, Motulsky AG, King RA. X-linked high myopia associated with cone dysfunction. Arch Ophthalmol. 2004 Jun;122(6):897-908. PMID: 15197065

Young TL, Scavello GS, Paluru PC, Choi JD, Rappaport EF, Rada JA. Microarray analysis of gene expression in human donor sclera. Mol Vis. 2004 Mar 22;10:163-76. PMID: 15041956

Paluru P, Ronan SM, Heon E, Devoto M, Wildenberg SC, Scavello G, Holleschau A, Makitie O, Cole WG, King RA, Young TL. New locus for autosomal dominant high myopia maps to the long arm of chromosome 17. Invest Ophthalmol Vis Sci. 2003 May;44(5):1830-6. PMID: 12714612

My Bioinformatics Links

Download a copy of my CV (Resume) here

Poster Presentations 2003 ARVO

2003 ASHG

2004 ARVO

2004 ASHG

2005 ASHG

2006 ASHG

2006 AMP

*ASHG = American Society of Human Genetics

*AMP = Association for Molecular Pathology

*ARVO = Association for Research in Vision and Ophthalmology

My work Computers

My Computers at Home (They're better used as doorstops, so we won't post them..



Betty and Nick's

Fishing Report

Academic interests

Bioinformatics, Genomics, Systems Biology, Molecular Genetics and Virology.

Personal interests
Hiking and fishing with my kids...  Always an interesting outing - See some pictures


Flyfishing

Cooking – Authentic Italian, Japanese, occasionally Malaysian and Indian

Outdoors activities... Canoeing, camping, hiking, fishing, mountain biking and gardening
(Well, actually I just like picking the fresh fruits and veggies to cook, Jennifer likes to garden).

Pocket Billiards…  You can see my collection of pool cues here

And of course I'm a computer geek... Linux and building my own cluster from computers destined to become doorstops

Steamboat Springs, CO

WebCam

Pine Creek Outfitters

PA Rail to Trails Guide


E-mail: genaro@scavello.net (personal)