Monday, February 27, 2017

Let's Talk About It -- Week 3

In the SLG lab we continued our quest for genes that could affect dyslexia (dsx) or speech impairment (si).

After searching two articles (“Genome-Wide Analyses of Working Memory Ability: a review” and “Understanding Language from a Genomic Perspective”), my lab partner Karishma and I highlighted any genes mentioned in the papers. Once we’d compiled a list, we checked the mentioned genes against our own data, flagging where patients with dsx or si showed deletions of duplication in these mentioned genes.

Despite our (>15000!!) lines in the spreadsheet mapping the chromosomal regions of the tested patients, we only discovered three genes with direct overlaps: COMT, SCN1, BCAS3. Six genes with nearly overlapped the mentioned regions, just close enough to still factor into our study.

As the head of the lab, Dr. Peter, left for Seattle on Wednesday, Karshima and I couldn’t begin searching for point mutations because neither of us had any clue what we were doing. With Dr. Peter back on Tuesday, we will begin investigating the data more deeply – especially data from dsx and si patients – for possible occurrences of point mutations in DNA. But due to

Dr. Peter’s absence, most of my work in week 3 occurred in the CHILLL lab.

On Tuesday I continued playing the POWWER computer game and finally learned what POWWER – the name of the computer game and our current study – stands for.

Profiles
Of
Working memory and
Word learning for
Educational
Research

Which makes sense, as the game is meant to test not only a child’s working memory, but also their language learning skills and reaction times.

After Tuesday, I’d learned enough of the POWWER game to begin testing myself without an RA present. I spent all day Thursday playing the game alone as both student and administrator. Being alone allowed me to take more pictures! So here’s me set up like a student would be to play the game:




In order to complete the trials, students press the touchscreen, record their responses in the microphone, or hit specific buttons on the key board. In order to accurately measure reaction time, students must return their hand to the green circle between each answer. In addition, two pieces of fishing wire attached to the touchscreen allow a consistent measurement of how far the green circle and the student are from the screen. All these added steps ensure higher accuracy when measuring results. 

Because I’ve now completed each of the tasks several times, I have a good idea as to how exactly the game functions.

Working memory tasks are fairly straightforward. Children hear a series of letters or numbers, or perhaps see a string of atypical polygons, and must repeat the information back. While these tasks aren’t simple, how they work and what they’re meant to test is easy to understand.


Most fascinating to me are the word learning exercises. On Sea Monster Island, for example, I was faced with four different “monsters,” each looking something like:

To ensure the students were truly learning the information and not just recalling facts, each monster was given a mashup of sounds as a name. Students had to be able to say the monster names, recognize the names when said, and match each name with each monster. As if this wasn't hard enough, the trials on the island also included recreating what each monster looks like!

I chose from four categories of details in an attempt to recreate the monster's exact features. After one or two rounds, the tasks became much easier.
Thanks to my now thorough understanding of the POWWER game, on Friday, I accompanied graduate student Melissa Sacchetta to a charter school in Chandler, where one sixth grade student had signed up to participate in the study. Melissa and I spent an hour in the schools only empty room - a robotics laboratory - assessing the participant's vision and hearing, as well as administering three separate kinds of intelligence tests. 

The first of these tests asked the student to form a sentence given a word and a picture to include. One such example was a picture of two children standing in front of a closed toy store in which the student was instructed to form a sentence with the word "until." Melissa and I wrote down each sentence and separately scored them, a "2" for a perfect sentence, "1" for a flawed but permissible sentence, and "0" for a lack of attempt, sentence that didn't make sense, or sentence without referencing the picture. Later we compared our scores in a process called "double scoring" to ensure neither of us made a mistake in our grading of the sentences. 

The next test assessed the students ability to solve word puzzles. When presented with a questions such as "what has a tail and barks?" students must answer "dog." While these puzzles appeared easy at first, the riddles became progressively more difficult to the point where I was impressed at the sixth grader's ability to answer! 

The final test was one I remember from elementary school in which the student read a series of unrelated words as quickly as possible, attempting to fit as many in to 45 seconds as he could. 

We perform all these tests to ensure each participant will fall within the first standard deviation of "intelligence" for children of this age before they begin the POWWER game. Now with this experience under my belt, I'm ready to travel and prepare more students for our research in the CHILLL lab!

Thursday, February 23, 2017

Let's Talk About It -- Week 2

To begin week 2, we received data on our patients from a group working with the SLG lab. This group tested each patient’s working memory and assigned each a score – or working memory class – from 1 to 4, 4 being high performance and “good” working memory and 1 being the opposite end of the spectrum. However, we received this data only as the patient’s identification number and the working memory class they were assigned. My job was to fill in our master sheet with the data, adding the working memory class to the rest of the genome information for each patient. As could be expected, most of the typically developing children scores 3s and 4s while the patients with dyslexia, speech disorders, or both typically scored 1s and 2s.

Last week, we marked all the chromosomal regions our patients displayed against regions known in previously published studies to cause speech problems. Not that we have this data, week 2 consisted of analyzing our data for chromosomal regions not specifically mentioned in other cases in search of a genetic region that could be linked to speech disorders. To do this, I created a blank spreadsheet and copied over any regions in which there was an overlap between at least two affected individuals, giving us a long list of chromosomal regions that could possibly cause or worsen speech impairments.

The CHILL lab too began to get exciting. On Friday, I began playing the pirate themed computer game meant to test working memory. Even though these assessments were made for 6th graders, I found them difficult. The tasks I completed focused on two different types of memory. In the first and hardest trial, I was presented with atypical polygons paired with names made from random combinations of syllables, for example, a shape like this:



combined with the name: buvdape. After flashing six pairs of polygons and names across the screen, I would hear the name of a polygon and have to pick the correct shape from a lineup of the polygons I'd seen. 

This task was so difficult I had to repeat the introduction several times. 

However on other islands - as the game centers around a pirate moving from place to place and completing assessments for treasure - I performed more preferably. I best remember strings of  numbers and can repeat them back out loud, write them down, or even remember them for significant periods of time after initially hearing them. 

These tests in the CHILL lab proved interesting, and I hadn't even finished half of them. Hopefully next week I will be able to continue analysis of the genes thought to cause dyslexia and speech impairments in the SLG lab, and complete the rest of the islands in the CHILL lab. But first, I have hours of club volleyball to watch at the festival fiesta tournament!

Until next week :)


Friday, February 10, 2017

Let's Talk About It -- Week 1

The first official week has been hectic.

I've attended meetings in the CHILLL lab for several weeks, but now we're ready to start our data collection. This means an awful lot of folding, labeling, and sealing to get hundreds of information packets out to potential participants. Throughout the week I have helped compile, file, and style so we can get the most interest in our research project. Week 1 was slow, but thanks to the packets we made, the following weeks will become more exciting.

Beginning next week, an ASU grad student and I will lug around the 50 pound computers to various libraries. After teaching kids to play the computer games, we will assess their working memories. I have yet to get my introduction to the software, but hopefully I'll be able to play the game too!

My first few days in the SLG lab gave me a taste of the tedium behind research. A fellow student and I searched through an excel document of over 15,000 lines, examining the strings of digits denoting specific regions of chromosomes and searching for overlap between the tested regions and regions that other studies have concluded present speech and language impairments. Despite the repetitive nature of this work, finding a match proved extremely exciting, even when we only discovered four or five overlaps in one hundred regions.

However, after only half an hour, we noticed an error in the data. According to the spreadsheet, one of the minimal regions had a higher number than the maximal region. After reexamining all the data, we realized the program from which the data was translated into excel deleted every zero that followed a comma. This discovery rendered our current data invalid, so we spent the rest of the day manually reentering all the data with the correct number of zeros.

My first week afforded me experience with real research. Before my internship, I would never have considered the difficult process behind participant recruitment or even data analysis. In the upcoming weeks, we will begin data collection in the CHILLL lab and continue analyzing previously collected data in the SLG lab. I can't wait to start in earnest!

Let's Talk About It

Let's Talk About it: Understanding the Science Behind Speech and Language.

My name is Julia Guido, and instead of attending classes in the last ten weeks of my high school career, I plan to spend the last trimester of the year participating in BASIS Peoria's Senior project. I've always been fascinated with the brain and the process of research, and this independent project will allow me to explore these areas and conduct experiments outside of a high school setting. I will answer two questions:

What is the relationships between working memory and language acquisition? and What are the genetic causes of language abnormalities?

In order to learn about speech and language from as many angles as possible, I will intern in two labs. Thanks to Dr. Shelley Gray and Dr. Beate Peter for allowing me to work in their respective laboratories, the Child Language and Literacy Laboratory (CHILLL), and the Speech/Language Genetics Lab (SLG). These labs will give me experience in administering scientific tests and analyzing speech from a genetic perspective. In addition, thank to my advisor at BASIS, Mrs. Hagerman, and my college counselor Mrs. Estes.

SO

In the CHILLL lab, I will work with other students administering computerized tests to sixth graders meant to assess their working memory. We will analyze the development of language in 12 year olds via the results of these tests.

In the SLG lab, I will analyze genetic markers of language abnormalities, adding a more biological component to my project.

The goal of my project is to understand how working memory relates to language acquisition, and its implications are broad. With this research, schools will be able to tailor their programs more accurately to the minds of children, teachers will be able to create projects that capitalize on the abilities of the students, and even standardized tests will be able to reform around the abilities of the brain.

For the next ten weeks, I will share my learning and experience through this blog, starting now.