Outline of my thesis research 1. How does conditioned place avoidance learning alter transcription in the hippocampal circuit? 2. How does the expression of a single gene influence learning and transcription or other genes? 8 Phenotypes Transcriptomics Genetic Manipulation Genes
Outline of my thesis research 1. How does conditioned place avoidance learning alter transcription in the hippocampal circuit? 2. How does the expression of a single gene influence learning and transcription or other genes? 3. How do laboratory methods influence our ability to understand the molecular substrates of learning? 8 Harris et al. 2017 BioRxiv https://github.com/raynamharris/DissociationTest/ Phenotypes Transcriptomics Genetic Manipulation Genes
A 5 year collaboration in conjunction with the Neural Systems & Behavior Course 2013 L-R: Me, Hans Hofmann, Ain Chung, André Fenton Additional Collaborators: Juan Marcos Alarcon, Hsin-Yi (Maddy) Kao 9 2017 students and faculty
A 5 year collaboration in conjunction with the Neural Systems & Behavior Course 2013 L-R: Me, Hans Hofmann, Ain Chung, André Fenton Additional Collaborators: Juan Marcos Alarcon, Hsin-Yi (Maddy) Kao 9 2017 students and faculty
Consistently trained, conflict trained, and yoked control groups 12 Yoked and trained mice are simultaneously shocked when the trained mouse enters the shock zone
Consistently trained, conflict trained, and yoked control groups 12 Yoked and trained mice are simultaneously shocked when the trained mouse enters the shock zone Trained mice show avoidance behavior while yoked mice do not
Consistently trained, conflict trained, and yoked control groups 12 Yoked and trained mice are simultaneously shocked when the trained mouse enters the shock zone Trained mice show avoidance behavior while yoked mice do not Conflict mice have to learn a new spatial association and override an old one
Research questions 15 vs. vs. vs. vs. 1. How does avoidance learning change gene expression in the hippocampus? vs. vs. vs. vs. vs. vs. vs. vs. vs. vs. vs. s. s. vs. vs. vs.
Research questions 15 vs. vs. vs. vs. 1. How does avoidance learning change gene expression in the hippocampus? 2. Do consistent and conflict training have the same effects? vs. vs. vs. vs. vs. vs. vs. vs. vs. vs. vs. s. s. vs. vs. vs.
Research questions 15 vs. vs. vs. vs. 1. How does avoidance learning change gene expression in the hippocampus? 2. Do consistent and conflict training have the same effects? 3. Does receiving more shocks have an effect on the brain? vs. vs. vs. vs. vs. vs. vs. vs. vs. vs. vs. s. s. vs. vs. vs.
Tissue source explains the most variation across samples 17 https://github.com/raynamharris/IntegrativeProjectWT2015/ Tissue samples from all 7 experimental groups
Tissue source explains the most variation across samples 17 https://github.com/raynamharris/IntegrativeProjectWT2015/ Tissue samples from all 7 experimental groups
~100 Genes in DG are unregulated in response to consistent cognitive training 19 https://github.com/raynamharris/IntegrativeProjectWT2015/ Log Fold Change
Genes encoding transcription factors are up-regulated in DG in response to training 20 https://github.com/raynamharris/IntegrativeProjectWT2015/ Log Fold Change
Additional stressors also activate ion channel signaling and membrane transport 24 https://github.com/raynamharris/IntegrativeProjectWT2015/ Log Fold Change
Chapter 2 1. How does conditioned place avoidance learning alter transcription in the hippocampal circuit? 2. How does the expression of a single gene influence learning and transcription or other genes? 3. How do laboratory methods influence our ability to understand the molecular substrates of learning? 27 Phenotypes Transcriptomics Genetic Manipulation Genes
33 I investigated learning at the molecular, neural, and behavioral levels I created an open and reproducible analysis workflow Summary of my thesis research
33 I investigated learning at the molecular, neural, and behavioral levels I created an open and reproducible analysis workflow I found a striking pattern of transcriptional activity in DG in response to conditioned avoidance Summary of my thesis research
33 I investigated learning at the molecular, neural, and behavioral levels I created an open and reproducible analysis workflow I found a striking pattern of transcriptional activity in DG in response to conditioned avoidance Transcription in the hippocampus is both plastic and robust Summary of my thesis research
Things I’ve learned • Learning is hard to evaluate • Big, complex behavioral datasets can be summarized and interpreted • Neuromolecular responses are incredibly specific 34
Things I’ve learned • Learning is hard to evaluate • Big, complex behavioral datasets can be summarized and interpreted • Neuromolecular responses are incredibly specific • Genomic sequencing can’t provide the answer for all biological questions 34
Open and collaborative science is awesome! • Collaborators Andre Fenton, Maddy Kao, Ain Chung, Juan Marcos Alarcon at NYU & SUNY Downstate • The Neural Systems & Behavior Community • NSF, NIH, Grass Foundation, Promega, UT Grad School, Hemsley Foundation 36
Open and collaborative science is awesome! • My advisor, Hans Hofmann • Past and present Hofmann lab members (2009-2012-2017) • UT colleagues across departments and colleges • Thesis committee (Misha Matz Boris Zemelman, Laura Colgin, Andre Fenton) • Collaborators Andre Fenton, Maddy Kao, Ain Chung, Juan Marcos Alarcon at NYU & SUNY Downstate • The Neural Systems & Behavior Community • NSF, NIH, Grass Foundation, Promega, UT Grad School, Hemsley Foundation 36
Open and collaborative science is awesome! • My advisor, Hans Hofmann • Past and present Hofmann lab members (2009-2012-2017) • UT colleagues across departments and colleges • Thesis committee (Misha Matz Boris Zemelman, Laura Colgin, Andre Fenton) • Collaborators Andre Fenton, Maddy Kao, Ain Chung, Juan Marcos Alarcon at NYU & SUNY Downstate • The Neural Systems & Behavior Community • NSF, NIH, Grass Foundation, Promega, UT Grad School, Hemsley Foundation 36
Open and collaborative science is awesome! • My advisor, Hans Hofmann • Past and present Hofmann lab members (2009-2012-2017) • UT colleagues across departments and colleges • Thesis committee (Misha Matz Boris Zemelman, Laura Colgin, Andre Fenton) • Collaborators Andre Fenton, Maddy Kao, Ain Chung, Juan Marcos Alarcon at NYU & SUNY Downstate • The Neural Systems & Behavior Community • NSF, NIH, Grass Foundation, Promega, UT Grad School, Hemsley Foundation 36
Open and collaborative science is awesome! • My advisor, Hans Hofmann • Past and present Hofmann lab members (2009-2012-2017) • UT colleagues across departments and colleges • Thesis committee (Misha Matz Boris Zemelman, Laura Colgin, Andre Fenton) • Collaborators Andre Fenton, Maddy Kao, Ain Chung, Juan Marcos Alarcon at NYU & SUNY Downstate • The Neural Systems & Behavior Community • NSF, NIH, Grass Foundation, Promega, UT Grad School, Hemsley Foundation 36
Open and collaborative science is awesome! • My advisor, Hans Hofmann • Past and present Hofmann lab members (2009-2012-2017) • UT colleagues across departments and colleges • Thesis committee (Misha Matz Boris Zemelman, Laura Colgin, Andre Fenton) • Collaborators Andre Fenton, Maddy Kao, Ain Chung, Juan Marcos Alarcon at NYU & SUNY Downstate • The Neural Systems & Behavior Community • NSF, NIH, Grass Foundation, Promega, UT Grad School, Hemsley Foundation 36
Open and collaborative science is awesome! • My advisor, Hans Hofmann • Past and present Hofmann lab members (2009-2012-2017) • UT colleagues across departments and colleges • Thesis committee (Misha Matz Boris Zemelman, Laura Colgin, Andre Fenton) • Collaborators Andre Fenton, Maddy Kao, Ain Chung, Juan Marcos Alarcon at NYU & SUNY Downstate • The Neural Systems & Behavior Community • NSF, NIH, Grass Foundation, Promega, UT Grad School, Hemsley Foundation 36
Open and collaborative science is awesome! • My advisor, Hans Hofmann • Past and present Hofmann lab members (2009-2012-2017) • UT colleagues across departments and colleges • Thesis committee (Misha Matz Boris Zemelman, Laura Colgin, Andre Fenton) • Collaborators Andre Fenton, Maddy Kao, Ain Chung, Juan Marcos Alarcon at NYU & SUNY Downstate • The Neural Systems & Behavior Community • NSF, NIH, Grass Foundation, Promega, UT Grad School, Hemsley Foundation 36
Open and collaborative science is awesome! • My advisor, Hans Hofmann • Past and present Hofmann lab members (2009-2012-2017) • UT colleagues across departments and colleges • Thesis committee (Misha Matz Boris Zemelman, Laura Colgin, Andre Fenton) • Collaborators Andre Fenton, Maddy Kao, Ain Chung, Juan Marcos Alarcon at NYU & SUNY Downstate • The Neural Systems & Behavior Community • NSF, NIH, Grass Foundation, Promega, UT Grad School, Hemsley Foundation 36
Open and collaborative science is awesome! • My advisor, Hans Hofmann • Past and present Hofmann lab members (2009-2012-2017) • UT colleagues across departments and colleges • Thesis committee (Misha Matz Boris Zemelman, Laura Colgin, Andre Fenton) • Collaborators Andre Fenton, Maddy Kao, Ain Chung, Juan Marcos Alarcon at NYU & SUNY Downstate • The Neural Systems & Behavior Community • NSF, NIH, Grass Foundation, Promega, UT Grad School, Hemsley Foundation 36
Open and collaborative science is awesome! • My advisor, Hans Hofmann • Past and present Hofmann lab members (2009-2012-2017) • UT colleagues across departments and colleges • Thesis committee (Misha Matz Boris Zemelman, Laura Colgin, Andre Fenton) • Collaborators Andre Fenton, Maddy Kao, Ain Chung, Juan Marcos Alarcon at NYU & SUNY Downstate • The Neural Systems & Behavior Community • NSF, NIH, Grass Foundation, Promega, UT Grad School, Hemsley Foundation 36
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