Best Transcriptomics Podcasts (2025)

1
Episode 1: UEG Journal May spotlight 18:04

24d ago18:04

18:04

On chronic nausea & vomiting, pouchitis, variceal bleeding, gut-brain axis in obesity, & CRC surveillance in IBD GI pearls from the latest literature published in UEGJ. Article title and link European Guideline on Chronic Nausea and Vomiting—A UEG and ESNM Consensus for Clinical ManagementURL: https://onlinelibrary.wiley.com/doi/10.1002/ueg2.12711D…

1
Precision at the Point of Diagnosis: The Role of Genomic Tests in Personalized Pathology - with Jay Jhaveri 29:27

26d ago29:27

29:27

Step into the future of diagnostics with this enlightening episode of PathPulse, the Digital Diagnostic Podcast! Host James Thackeray welcomes Jay Jhaveri, Senior Director at Pacific Edge Cancer Diagnostics, to unravel the profound impact of genomic testing on personalized pathology. Jay Jhaveri brings a unique blend of extensive clinical backgroun…

1
SIPs with Standards 21:00

2M ago21:00

21:00

Stable Isotope Probing (SIP) is a powerful technique for studying microbial communities. These experiments can show which microbes are handling specific nutrients, or what they're doing with those nutrients, and even how quickly. But there's a catch: SIP labwork and analysis can be very demanding. The JGI offers SIP analysis to make these experimen…

1
From Diagnosing to Disrupting: A Pathologist’s Leap into Innovation - with Matt Leavitt 43:54

3M ago43:54

43:54

Join us on PathPulse, the Digital Diagnostic Podcast, as we delve into the groundbreaking journey of Dr. Matthew O. Leavitt, a Stanford-trained pathologist and visionary leader in digital pathology. Host James Thackeray sits down with Dr. Leavitt to uncover his relentless pursuit of leveraging digital technologies to revolutionize patient care, par…

1
From Microscope to Monitor: A Visionary’s Journey to Unprecedented Growth - with Westley Bernhardt 34:20

4M ago34:20

34:20

Join Bianca Collings on PathPulse: Pathology Innovators in Action as she speaks with Westley (Wes) J. Bernhardt, a true pioneer in digital pathology and Managing Partner of OnePath Diagnostics. Wes is an accomplished operations executive with a remarkable track record of transforming organizations and an early adopter who successfully leveraged dig…

1
Shifting Mindsets Towards Digital Pathology - with Liron Pantanowitz 29:36

5M ago29:36

29:36

Welcome to PathPulse: Pathology Innovators in Action! In this episode, James Thackeray is joined by Dr. Liron Pantanowitz, the Maud L. Menten Professor and Chair of the Department of Pathology at UPMC and the University of Pittsburgh. A globally recognized cytopathologist and a pioneer in digital and computational pathology, Dr. Pantanowitz has sig…

1
Transcriptomic dive into microscopic colitis 19:11

7M ago19:11

19:11

Ahsen Ustaoglu interviews Dr Celia Escudero-Hernandez on their transcriptomic study delving into the pathogenesis of lymphocytic colitis, where they identified two subtypes of lymphocytic colitis: channelopathic and inflammatory lymphocytic colitis,...Ahsen Ustaoglu interviews Dr Celia Escudero-Hernandez on their transcriptomic study delving into t…

1
What’s Missing from Digital Pathology: Spatial Transcriptomics, Multi-omics, and More - Margaret Flanagan 33:29

7M ago33:29

33:29

Join Jake Brown on PathPulse: Pathology Innovators in Action as he welcomes Dr. Margaret Flanagan, a distinguished neuropathologist and the Baptist Health Foundation of San Antonio's Distinguished Chair in Alzheimer and Neurodegenerative Diseases. Recognized on The Pathologist's 2024 Power List as an Idol of Innovation, Dr. Flanagan leads a multidi…

1
Non-invasive biomarkers for NAFLD: Liver special 15:38

7M ago15:38

15:38

In this episode, Ahsen Ustaoglu interviews Prof Vincent Wong on their comprehensive review of non-invasive biomarkers and imaging tools for non-alcoholic fatty liver disease which has a rapidly rising incidence worldwide. In this episode, Ahsen Ustaoglu interviews Prof Vincent Wong on their comprehensive review of non-invasive biomarkers and imagin…

1
Top Reasons to Embrace Digital Pathology - with Andy Ivie 29:38

8M ago29:38

29:38

Join James Thackeray, head of the Digital Diagnostic Summit board, on PathPulse: Pathology Innovators in Action as he interviews Andy Ivie, Chief Technology Officer at Lumea. Andy, a software expert who began his digital pathology journey in 2013, offers a unique, behind-the-scenes perspective on the evolution and future of this transformative fiel…

1
Association between pancreatic adenocarcinoma and organochlorine pesticides 18:37

8M ago18:37

18:37

Ahsen Ustaoglu interviews Dr Mathias Brugel on their targeted screening analysis of pancreatic adenocarcinoma risk with organoclorine pesticides from the PESTIPAC studyAhsen Ustaoglu interviews Dr Mathias Brugel on their targeted screening analysis of pancreatic adenocarcinoma risk with organoclorine pesticides from the PESTIPAC study…

1
Therapeutic sequencing in IBD: Determining the optimal position of vedolizumab in Crohn's Disease 16:25

8M ago16:25

16:25

In this episode, Dr. Tarik Kani interviews Dr Christian Agboton from USA about the optimal position of Vedolizumab in long-term Crohn's DiseaseIn this episode, Dr. Tarik Kani interviews Dr Christian Agboton from USA about the optimal position of Vedolizumab in long-term Crohn's DiseaseBy UEG Journal

1
Adopt-A-Genome 26:45

8M ago26:45

26:45

In this episode, undergraduates adopt genomes that the JGI sequenced, but never published in the literature. These students analyze the genomes, write reports, and publish first-author papers, making the data available for future research. Hear from Rekha Seshadri (JGI) and Matt Escobar (California State San Marcos) about how the Adopt-A-Genome pro…

1
Digital Pathology’s Potential to Resolve Access to Care Issues Globally 41:32

9M ago41:32

41:32

Welcome to PathPulse: Pathology Innovators in Action! In this episode, Jake Brown speaks with Dr. Lewis Hassell, Director of Anatomic Pathology at The University of Oklahoma Health Sciences Center and a pioneering educator in digital pathology. Board-certified in Cytopathology and Anatomic/Clinical Pathology, Dr. Hassell leads the Open Pathology Ed…

1
Key Emerging Trends in Digital Pathology - with KLAS Research 30:53

10M ago30:53

30:53

In this illuminating episode of PathPulse: Pathology Innovators in Action, host James Thackeray sits down with Eder Lagemann, Global Director of Digital Pathology, and Sidney Tate, Insights Director from KLAS Research, to explore the evolving landscape of digital pathology. KLAS Research is a global firm dedicated to improving healthcare by amplify…

1
UEGJ Best Paper Award: Work productivity in DGBIs 14:46

10M ago14:46

14:46

Join Ahsen Ustaoglu and H. Tarik Kani as they interview Dr Asa Frandemark on their study investigating work impairment in disorders of gut-brain interactions which assessed retrospective data from the Rome Foundation Global Epidemiology Study Join Ahsen Ustaoglu and H. Tarik Kani as they interview Dr Asa Frandemark on their study investigating work…

1
Gotta Catch 'Em Gall 24:31

11M ago24:31

24:31

Kasey Markel and Patrick Shih (UC Berkeley and the Joint BioEnergy Institute) are looking for new ways to engineer plants. So they’ve looked into wasps that program oak trees to grow structures called galls. In this episode, hear from Kasey and Patrick about how this project unfolded, and how they worked with the JGI's metabolomics program to find …

1
Overcoming Barriers to Digital Pathology Adoption - with Amanda Lowe 42:26

11M ago42:26

42:26

Join Bianca Collings on PathPulse: Pathology Innovators in Action as she speaks with Amanda Lowe, a digital pathology pioneer. With over two decades in the field, Amanda's extensive experience includes roles at Bacus Laboratories (first U.S. distributor of the Hamamatsu NanoZoomer) and currently as Managing Director for Visiopharm Corporation (Amer…

1
A new bowel cleansing system: A multicenter prospective study 10:24

12M ago10:24

10:24

In this episode, Dr. Tarik Kani interviews Dr Milou van Riswijk from The Netherlands about a new bowel cleansing system which was designed to overcome an important issue for endoscopists and patients.In this episode, Dr. Tarik Kani interviews Dr Milou van Riswijk from The Netherlands about a new bowel cleansing system which was designed to overcome…

1
A Redesign for Yeast’s Genome, Chromosome by Chromosome - Jef Boeke, Weimin Zhang & Leslie Mitchell 20:53

12M ago20:53

20:53

To engineer yeast to do more, and understand genomes in general, Jef Boeke, Weimin Zhang (NYU Langone Health) and Leslie Mitchell (Neochromosome) have worked to replace yeast’s native chromosomes with synthetic versions. This project has turned out to be an international collaboration, with some artistic endeavors along the way. Eventually, the goa…

1
Forest Fungi, Seagrass, and a New View of Symbiosis 26:34

1y ago26:34

26:34

Three stories of JGI-supported research, connected to nutrient cycles. Francis Martin and Lucas Auer discuss their work on communities of forest floor fungi. Allison Joy looks into seagrass meadows' carbon sequestration with insights from Adam Healey and Xiao Ma. And Karen Serrano and Benjamin Cole explain their research on the symbiotic relationsh…

1
What Happens To a Rainforest When You Dial Up Drought? - Linnea Honeker and Malak Tfaily 22:53

1y ago22:53

22:53

Rainforests store a big fraction of all the carbon on Earth, and soil microbes play a key role in pulling that carbon out of the atmosphere. This episode, researchers take a look at what happens to that storage when a rainforest hits a drought. Tag along with their experiments in a fully enclosed, human-made ecosystem: Biosphere 2. Links from this …

1
Gallstone Disease Relapse: Insights from the RELAPSTONE Study 11:15

1y ago11:15

11:15

In this episode, Ahsen Ustaoglu interviews Dr Raul Velamazan to discuss their findings from the multicentre RELAPSTONE study on recurrence patterns and risk factors for relapse after first admission of patients with symptomatic gallstone diseaseIn this episode, Ahsen Ustaoglu interviews Dr Raul Velamazan to discuss their findings from the multicent…

1
Artificial Intelligence In Digital Pathology - with Todd Randolph 31:24

1y ago31:24

31:24

Join Jake Brown on Ask a Pathologist Podcast: Innovators in Action as he speaks with Dr. Todd Randolph, a board-certified anatomic and cytopathologist with nearly three decades of experience, practicing digital pathology since 2016. Dr. Randolph offers a unique, long-term perspective on artificial intelligence (AI) and its current and future role i…

1
Toward a more precise prognostic stratification in acute decompensation of cirrhosis: The Padua model 2.0. 14:23

1+ y ago14:23

14:23

Dr. Tarik Kani interviews Dr Alberto Zanetto from Italy, on their study which they were created a new model to predict acute-on-chronic liver failure in decompensated cirrhosis.Dr. Tarik Kani interviews Dr Alberto Zanetto from Italy, on their study which they were created a new model to predict acute-on-chronic liver failure in decompensated cirrho…

1
Tips for a Pathology Fellowship & Thoughts on Digital Pathology with Jared Szymanski 25:25

1+ y ago25:25

25:25

Welcome to the Ask a Pathologist Podcast: Innovators in Action! Host James Thackeray speaks with Dr. Jared Szymanski, a board-certified pathologist and a key founder of Lumea digital pathology. As an early adopter of digital technology in clinical practice, Dr. Szymanski offers invaluable insights from his extensive experience. Transcript: https://…

1
Effect of miR-10b in regulating gut barrier dysfunction in diabetes and GI dysmotility 18:34

1+ y ago18:34

18:34

Dr Ahsen Ustaoglu interviews Dr Rajan Singh and Dr Hannah Zogg from the University of Nevada, USA, on their study which investigated the role of microRNA 10b-5p in regulating gut barrier function in an in vivo model of diabetes and gastrointestinal...Dr Ahsen Ustaoglu interviews Dr Rajan Singh and Dr Hannah Zogg from the University of Nevada, USA, …

1
Game-Changing Tools for Pathologists - with Hillel Kahane 22:29

1+ y ago22:29

22:29

In this Ask a Pathologist Podcast episode, host James Thackeray speaks with Dr. Hillel Kahane, a board-certified uropathologist with over 30 years of experience, having personally signed out more than 1 million prostate core needle biopsies. As co-founder of StarPath Inc., he leverages AI with extensive expertise. Transcript: https://lumeadigital.c…

1
Interactive Insights With Your UEG Podcast Hosts: UEGW Special 23:34

1+ y ago23:34

23:34

In this December special episode, your UEG Journal podcast hosts H. Tarik Kani and Ahsen Ustaoglu are joined by UEG Talks podcast hosts Egle Dieninyte and Pradeep Mundre in hosting very special guests at UEG Week 2023 in Copenhagen. You can expect to...In this December special episode, your UEG Journal podcast hosts H. Tarik Kani and Ahsen Ustaoglu…

1
The Megadata of Lake Mendota - Part 3: Boating Out to David Buoy 24:38

1+ y ago24:38

24:38

This is the third and final episode of our series on a giant metagenome assembly from Wisconsin’s Lake Mendota. In the last two episodes, we’ve covered the specialized software and supercomputers behind this project. But every part of this project depends on lakewater samples — so this episode is a look at how researchers get these specialized snap…

1
The Megadata of Lake Mendota - Part 2: Souped Up Computing 22:06

1+ y ago22:06

22:06

This series is the story of a giant metagenome assembly from Wisconsin’s Lake Mendota. In this episode: a look at the supercomputing that stitches together large datasets with the assembler program MetaHipMer2. Oak Ridge National Lab is home to two supercomputers — Summit and Frontier — that process terabytes of data with MetaHipMer2. And the Natio…

1
The Megadata of Lake Mendota - Part 1: Many, Many Mers 26:16

1+ y ago26:16

26:16

Lake Mendota sits right next to the University of Wisconsin, Madison. And Trina McMahon's lab has been sampling the microbes of that lake for over 20 years, to understand how the freshwater ecosystem works. So a few years ago, when they set out to analyze 500 metagenomes, it was the biggest project the JGI had ever put together. The next 3 episodes…

1
Experimenting with EcoFABs for Student Labs - Jill Bouchard & Ying Wang 22:15

1+ y ago22:15

22:15

To set up flexible, repeatable experiments on plants and microbes, Trent Northen’s group at Berkeley Lab created a fabricated ecosystem – an EcoFAB. These small plastic growth chambers let researchers around the world compare their work consistently. And EcoFABs also work well in the classroom. This episode, we visit Los Medanos College to see EcoF…

1
Best Resources for Pathologists - with Tristan Rutland 25:58

1+ y ago25:58

25:58

Welcome to our fourth episode of the Ask a Pathologist Podcast! Today, we're thrilled to host Dr. Tristan Rutland, a highly accomplished medical educator and anatomical pathologist from Australia. Dr. Rutland, based at Western Sydney University and Liverpool Hospital, specializes in gastrointestinal pathology and is recognized for his extensive tea…

1
Smoking and colorectal neoplasia in patients with inflammatory bowel disease: Dose-effect relationship 11:46

1+ y ago11:46

11:46

Dr. H. Tarik Kani talks to Dr. Anouk Wijnands (Netherlands) about her multicenter cohort study that investigated the relationship between smoking and colorectal neoplasia in patients with Inflammatory Bowel Disease with a 10-year follow-up.Dr. H. Tarik Kani talks to Dr. Anouk Wijnands (Netherlands) about her multicenter cohort study that investigat…

1
JGIota: A Surprise for Chloroflexota — The First Flagella! 8:26

1+ y ago8:26

8:26

To understand how organisms adapt to extreme environments, Marike Palmer and Brian Hedlund study organisms living in hot springs. Hear how their recent work revealed more about the history of the Chloroflexota phylum and a new way of moving: a tail-like flagella. Submit your own proposal to work with the JGI Join us at the 2023 JGI User Meeting Lin…

1
JGIota: A Tool to Find the Nomadic Genes that Help Microbes Adapt - geNomad 5:51

2y ago5:51

5:51

A quick snippet on Antonio Camargo and Simon Roux, a few of the JGI researchers behind software that finds plasmids and viruses within microbial genomes. As mobile genetic elements like viruses spread their DNA, they can affect how microbes cycle nutrients and adapt to climate change. Find all episode transcripts on our website Publication: Camargo…

1
The additive value of CA19.9 monitoring in a pancreatic cyst surveillance program 14:57

2y ago14:57

14:57

Dr Ahsen Ustaoglu interviews Dr Iris Levink on her study investigating the additive value of CA19.9 monitoring in a pancreatic cyst surveillance program, part of the PACYFIC-trial (www.pacyfic.net).Dr Ahsen Ustaoglu interviews Dr Iris Levink on her study investigating the additive value of CA19.9 monitoring in a pancreatic cyst surveillance program…

1
Ustekinumab improves health‐related quality of life in patients with moderate‐to‐severe Crohn's disease: STARDUST trial 9:07

2y ago9:07

9:07

Dr. H. Tarik Kani talks to Dr. Axel Dignass (Germany) about his recent publication about the impact of Ustekinumab on health-related quality of life in moderate-to-severe Crohn’s disease which was an open-label, multicenter, randomized study evaluated...Dr. H. Tarik Kani talks to Dr. Axel Dignass (Germany) about his recent publication about the imp…

1
Methane Makers in Yosemite's Lakes - Mike Beman and Elisabet Perez Coronel 27:16

2y ago27:16

27:16

Meet researchers who have hiked, rafted and met local wildlife (a marmot!) as they’ve sampled the microbial communities living in the mountaintop lakes of the Sierra Nevada mountains. These lakes are isolated, but varied. They’re a great way to see how climate change affects freshwater ecosystems, and how those ecosystems work. Links from this epis…

1
The Nuts and Bolts of Implementing Digital Pathology Workflows - with Staci Kearney and Ciara Martin 40:06

2y ago40:06

40:06

Welcome to Ask a Pathologist Podcast! Host Bianca Collings speaks with Staci J. Kearney and Ciara Martin from Elevation Strategic Development. Staci, a founder, and Ciara, a principal consultant, bring over a decade of experience each in driving diagnostic and medical device innovations. Transcript: https://lumeadigital.com/implementing-digital-pat…

1
A Shrubbier Version of Rubber - Andrew Nelson and Colleen McMahan 20:37

2y ago20:37

20:37

Right now, our natural rubber comes from just one tree species: Hevea brasiliensis. It’s great at producing latex that becomes rubber, but it’s vulnerable to disease and climate shifts. So researchers are looking into a desert shrub that’s native to North America: guayule. This episode was made in collaboration with our friends at the HudsonAlpha I…

1
The Busy World of Deep Sea Eruptions - Anna-Louise Reysenbach and Emily St. John 30:44

2y ago30:44

30:44

The ocean depths are vast and dark. But there are hotspots on the ocean floor — underwater volcanoes and hydrothermal vents — where lively microbial communities thrive, and even support entire ecosystems. Hear from researchers Anna-Louise Reysenbach, Emily St. John, Gilberto Flores, and Peter Girguis about sampling these communities, and understand…

1
Towards a robust and compact deep learning system for primary detection of early Barrett’s neoplasia 16:46

2y ago16:46

16:46

Ahsen Ustaoglu talks to Dr Martjin Jong (the Netherlands) on their recent paper developing an image-based deep learning system for primary detection of early Barrett's neoplasiaAhsen Ustaoglu talks to Dr Martjin Jong (the Netherlands) on their recent paper developing an image-based deep learning system for primary detection of early Barrett's neopl…

1
Crops as Tough as World Cup Turf - James Schnable and Guangchao Sun 28:16

2y ago28:16

28:16

In our warming world, we’ll need corn, sorghum and other crops to grow well in worse conditions: with more heat, less water and less fertilizer. Grasses do better in these conditions, so plant biologists James Schable, Guangchao Sun and Vladimir Torrres have looked into traits that could transfer from grasses into other crops. One grass they studie…

1
Season 4 Trailer (and sneak peek!) 3:14

2y ago3:14

3:14

On June 8th, Genome Insider is back! We've got a batch of 4 new episodes where researchers discover the expertise encoded in our environment — in the genomes of plants, fungi, bacteria, archaea, algae, and environmental viruses — to power a more sustainable future. Stick around for a snippet of the next episode. Join us at our User Meeting: jointge…

1
Play: Chimpanzees, Bonobos, Uncertainty, Sex, Animal Societies 52:26

2y ago52:26

52:26

How about play in animals? Today I have the pleasure to discuss outstanding research in ethology with Elisabetta Palagi from the University of Pisa, who has been a leader in Primatology for over 30 years, and, among several successes, was recently awarded the Animal Behavior Society Fellowship Award for her outstanding research. In this episode, we…

1
Predictors of SLN Mapping Failure with Diego Raimondo and Giulia Rovero 25:32

2y ago25:32

25:32

In this episode of the IJGC podcast, Editor-in-Chief Dr. Pedro Ramirez is joined by Drs. Diego Raimondo and Giulia Rovero. Dr. Raimondo works as medical director and assistant researcher at the Division of Gynecology and Pathophysiology of Human Reproduction, Bologna, Italy, directed by Prof. Renato Seracchioli. He received his PhD on new technolog…

1
Primary Survey - the highlights of June 2023 30:56

2y ago30:56

30:56

A summary of some of the best paper we published in the June 2023 issue of the Emergency Medicine Journal. Rick and Sarah talk through topics including home pulse oximetry, out of hospital cardiac arrest, the perils of correctly calculating respiratory rate in the ED and even cross-cultural adaptation of patient communication material.Read the high…

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