Nick Banovich
@NeBanovich
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Husband, Dad, Associate Professor at @TGen . Interested in functional genomics of disease. Also like trout.
Phoenix, AZ
Joined January 2014
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Last Seen Profiles
Pinned Tweet
Excited to share our study characterizing eQTL at cell type resolution in human lung tissue is now published in
@NatureGenet
.
This was a collaborative effort co led by
@HeiniMNatri
and
@cbazodi
and co supervised by myself,
@JKropski
and
@davisjmcc
1/2
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Yesterday afternoon I received the news no parent wants to hear, my 3 year old son has a tumor in his spine. He’s about to go into surgery to remove the tumor and we’ll find out if it’s malignant or benign. Any thoughts, prayers, juju, or love you want to throw out I’d appreciate
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Quick update.
1) Thank you everyone for the outpouring of support it means a lot
2) The surgery yesterday removed the tumor from his spine and went very smoothly. We have to wait a few days for path but we’re feeling good at this point and ready for him to heal up.
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@JeffFlake
your DC voicemail is full. As your constituent I am urging you to vote no on the current tax bill.
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Small piece of an airway from our first real Xenium run. Over 34M transcripts across a 1.5cm^2 region. Not a bad first shot on goal!
@10xGenomics
#spatialtranscriptomics
#spatialbiology
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This may be helpful for others doing scRNA-seq. We now QC our lib pools with a Miseq Micro (4M reads) before a NovaSeq run. With as few as 45 reads per cell (20-30 ind libs for us) we get accurate estimate of cell #, reads in cells, and mapping qualities.
@10xGenomics
@illumina
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Incredibly excited to share out latest work using single cell RNA sequencing to identify eQTLs across 38 cell types in primary human lung tissue. 1/n
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I'm incredibly excited to share our most recent work: "Image-based spatial transcriptomics identifies molecular niche dysregulation associated with distal lung remodeling in pulmonary fibrosis"
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I'm excited to share the first major project out of the lab! We use single cell RNA-sequencing to explore lung fibrosis, and gained some really unexpected insights into pathologic epithelial and mesenchymal remodeling.
#cureIPF
1/16
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What a way to start Christmas! Today I received the Notice of Award on my R01. I'm so excited to have funding for the next five years to study
#IPF
using functional genomics with my great collaborators John Kropski
@VanderbiltU
and Rajat Walia
@DignityHealth
.
#nih
#R01
@TGen
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First data off the Xenium instrument (training data from cell pellets).
Excited to get to work with this system on some real samples. Thanks to
@10xGenomics
and the great team of engineers and field support who got us up and running.
Excited to add the Xenium to
@TGen
's Center for Single Cell and Spatial Multiomics!
@10xGenomics
#Genomics
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Another update. The path came back and he has a ganglioneuroblastoma-intermixed tumor. If you’ve got to have cancer this is a good one to have. We won’t have to do chemo and after a 2nd surgery Fri we should be done w/ treatment and back to normal life. Feeling very grateful.
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Really excited to share that our latest work is out today as the cover of
@ScienceAdvances
!
This work was led by
@linhbui2811
and
@AustinGutes
from my group and Chris Habermann from
@JKropski
's group.
#cureIPF
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We have power
Excited to add the Xenium to
@TGen
's Center for Single Cell and Spatial Multiomics!
@10xGenomics
#Genomics
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Professional update! In addition to my work at
@TGen
I am truly excited to take on the role of Chief Scientist at DeepCell. Looking forward to seeing the impact this technology will have on the field!
Welcome
@NeBanovich
to the Deepcell team! Your expertise in all things single cell and multi-omics will be invaluable for bringing
#morpholomics
to the world.
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Welp... didn't even make it one week into the school year and my 5yo has COVID. He's fine and only had a fever, but man feels pretty crappy.
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Just finished wrapping up an R01 and I realized that one year ago today on Oct 3rd I had just finalized a different R01 before walking into Phoenix Children's Hospital to discover my son had a tumor in his spine. It's been a crazy year but happy to report he's doing great!
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Woke up this morning to the NOGA for our newest R01. Excited to have stable funding to extend work with
@davisjmcc
to build a new toolkit for single cell QTL studies and apply these models to studies of the lung. Per usual an extension of out close collaboration with
@JKropski
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Out of surgery and still sleeping but everything went well!
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Excited to add the Xenium to
@TGen
's Center for Single Cell and Spatial Multiomics!
@10xGenomics
#Genomics
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Pleased to announce that I have accepted a promotion to become an Assistant Professor at
@TGen
. Excited for the new opportunities ahead!
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Here's an article from the local paper in Missoula Montana about my dad. He loved to run and loved building a community around running.
“Today there’s a loss, there’s a hole in our running community, the local community, the whole of Montana,” said Anders Brooker, owner of Runners Edge in Missoula.
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Went backpacking with the family last weekend. Hiked in a mile. My 2 year old hiked out all by himself carrying a very light pack and my 5 year old hiked in and out carrying her slightly heavier but still very light pack. Really awesome to get the kids out in nature.
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The IPF cell atlas webpage is live!
Using this interactive site you can explore gene expression profiles from 2 scRNA-seq datasets of ILD and control lungs - & .
#cureIPF
#IPFcellatlas
#ASHG19
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We've posted our protocol for lung dissociation and
@10xGenomics
scRNA-seq on
@protocolsIO
. The major "advance" came from
@LGMartelotto
's snRNA-seq protocol - using a FACs to sort cells directly into the RT buffer, adding RT enzyme and placing on the chip
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Taught my daughter's Girl Scout troop about DNA this afternoon. Cool opportunity to talk about Rosalind Franklin! The kids were so excited to extract DNA and even had one little girl tell me she loves science and her favorite show is Emily's Wonder Lab
@TheSpaceGal
!
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Exciting day today at
@TGen
! I'm so excited to finally have the MERSCOPE onsite. We're ready to kick our spatial Genomics work into high gear!
@vizgen_inc
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Quarantine just got a little better. We'd already bought this pup before COVID and just got to take him home today. Silver lining of working from home for at least the next month is we get to spend a ton of time with Copper here.
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Here we go. Hopefully the last surgery we'll need. Please send whatever kind of thogyths/prayers/vibes you have our way for a smooth and successful surgery today.
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One of the many ways Yoav was a great mentor for me during grad school. I had my daughter in the second year of my PhD and for the most part was able to work within normal hours. Did I work some 60 hour weeks? Yes, but I also worked some 20 hour weeks to offset.
I am a full professor. I have two young girls. I am a section chief and a chair of a graduate program. I teach one quarter a year. I come to work at 8:30am; I leave at 4pm. I don't work on weekends. It's possible if one is organized.
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Science can be a slog. It is not always fun and it is not always magic. For me as a PI it is often grants, manuscripts, budgets, & fear you are going to blow it somehow.
But every now and then you get some data that you just look at in wonder. Tonight is one of those nights!
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I'm so excited to have this paper out now in
@eLife
! Check out our work using iPSC-derived cardiomyocytes to model eQTLs in the context of hypoxia and reoxygenation!
@michelle_c_ward
@Y_Gilad
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When you find out that your DOD Grant was funded while overlooking the city of Melbourne. Not a bad morning.
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Excited to share our most recent work now up on
@biorxivpreprint
. We dig into the genetic architecture of gene regulation in Indonesia.
Below is a brief 🧵 of the main results.
1/
@HeiniMNatri
@ee_reh_neh
@paikusuma
@eijkman_inst
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At
#ATS22
@sucre_jen
and I sat down in the "collaboration zone", laughed at the silly name, then completely reworked an R01 she was putting together. Well at 12:01am on the first official day of
#ATS23
she received the NOGA. Here's to the collaboration zone.
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My son: At Disneyland I'm only going to ride rides with mom
Me: Why buddy
Son: I love Mom more than you dad. So that's who I'll ride rides with
Me: Oh okay cool bud no problem
😭😭😭😭💔💔💔
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Me and my kids (3yo and 6yo) did a 3.6 mile hike today! They both walked the whole way and carried their packs with snacks and water.
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This decade has been wild. Got married, had kids, got a PhD, started my own lab. 2019 has been one of the most personality challenging years of this decade, culminating w/ finding & removing my son's tumor and the 2 week hospital stay. Here's hoping for smoother sailing in 2020!
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Had my first postdoc candidate accept a position in my lab. Excited for her to start January 2019!
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After two hours of surgery he's in recovery and the neurosurgeon thinks the surgery went well.
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Lab Mario Kart tournament pre holiday. I'm not saying everyone is fired if I loose but I'm not not saying it either.
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The little man is back in surgery. Probably another 4 hrs until he’s out. All the double checks to make sure the cancer hadn’t spread have come back negative so after this we recover and go home!
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And just like it you can't even tell he had surgery less than a week ago
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Well my week started with a Not Discussed and ended with a grant I'm a significant Co-I on scoring a 3 percent!!!
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@lpachter
If anybody is looking for lung sc data all of ours from recent preprint is public:
As is code to analyze:
Also
@KaminskiMed
has made the data from our group and other available on a web app for easy query:
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DONT. BE. THIS. GUY.
#ASHG18
With
#ASHG18
ending, I want to share an unpleasant experience. After sharing my research with a “poster neighbour” and hearing about his in return, I was pleased that not only had I shared my own work, but I also learned something about a different area of genetics. 1/5
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Final update. We made it back home today. Before we left we had to get one final MRI as a baseline scan for follow ups. Everything coming full circle as we were in the same room where they gave us the news about the tumor and had the same nurses. Hardest 11 days of my life.
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One year ago today my dad passed away unexpectedly. Hold the people you love. Miss you pops.
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Note I left in my daughter's lunch yesterday and her response 🥰
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That's my son ringing the bell!
On Friday morning, CEO
@LanceKawaguchi
rang the bell to open trading on the
@NasdaqExchange
to highlight the importance of global collaboration & the establishment of a U.S. affiliate to widely increase the impact.
#CureBrainCancer
📷: Nasdaq, Inc. / Vanja Savic / Sight & Sound
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We are hiring 🧵
I'm looking to bring at least one new postdoctoral researcher onto our team. We've some really exciting projects happening in the lab. The unifying thread of our work is understanding how gene regulation contributes to complex disease
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Really excited to give a sneak peak into some of our work using Xenium to profile lungs from individuals with PF!
Better understanding heterogeneity in healthy or diseased tissues requires precision mapping of regional gene expression. Hear
@NeBanovich
discuss data generated on his lab’s Xenium Analyzer to profile disease-associated dysregulation in spatial niches:
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Pretty bummed to be missing
#ASHG19
but my son is recovering from his surgeries last week and my family needs me at home. The good news is four of my lab members are presenting their work! Check out posters 3084 (W), 3358 (Th), 886 (Th), 3083 (F)
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Preprint of my most recent work: Impact of regulatory variation across iPSCs and differentiated cells
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Excited the new products and reagents coming down the line from
@10xGenomics
- particularly around using fixed single cell suspensions, integrated multiplexing, and advances in spatial!
#Xperience10x
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This is not how we wanted to start this year. It's been a long few years of difficult family deaths and health issues. I'm hoping this will be the end of this particular saga at the very least.
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When your grant admin tells you that your biosketch contains the phrase "non-coding POTION of the genome" rather than "non-coding PORTION of the genome", but you've used that biosketch on like 8 grants already.
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Our work developing and characterizing regulatory variation in a panel of iPSCs and iPSC derived cardiomyocytes is out now in
@genomeresearch
@yang_i_li
@Y_Gilad
@jkpritch
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For the first time since March of last year both kids have been in school for the past two weeks. They're still not doing any after school care - so they come home at 3pm - but it's amazing how quickly my stress level dropped not trying to parent and work at the same time
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Spending a few days at Lake Arrowhead in California for the
@cityofhope
RSO advance symposium. Had a nice walk around the lake with the rest of the
@TGen
contingent.
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Prepping to go to my daughters preschool/kindergarten class Friday and talk about DNA. Doing strawberry DNA extractions with 31 three to six year olds should be fun!
#scicomm
#sciencekids
#DNA
#STEM
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Really exciting changes coming to
@eLife
. I'm really honored to be a part of the board of reviewing editors. Can't wait to see what comes next!
We are pleased to announce the next advancement in our mission to transform science publishing. From today, we take the next steps towards exclusively reviewing preprints. Learn more about these changes in an Editorial from Editor-in-Chief Mike Eisen
▸
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Had the lab holiday party today. We met in person and outside. It's the first time I've seen the lab in person since March, and the first time I've met two of my lab staff in person! the party had a surprise pigeon rescue at the end!
@HeiniMNatri
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Good to see the lab in person today for only the second time since the pandemic!
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My daughter has been coming into work to have lunch with me after space camp at the
@azsciencecenter
. Today she drew me this sweet picture of DNA!
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I forgot to mention on Friday that all of the scRNA-seq data and code to reproduce analyses from this paper are available. It's my first time putting all analyses for a paper out there. Please reach out if you have any questions!
#openscience
#cureIPF
I'm excited to share the first major project out of the lab! We use single cell RNA-sequencing to explore lung fibrosis, and gained some really unexpected insights into pathologic epithelial and mesenchymal remodeling.
#cureIPF
1/16
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Our work looking at genome-wide gene expression and DNA methylation levels in Indonesia is out now in
@PLOSGenetics
!
Below is the link to a thread describing our results when we posted the preprint
@paikusuma
@ee_reh_neh
@eijkman_inst
@HeiniMNatri
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31
Today I have been running my own lab for one year. Honestly, it's been a pretty surreal year with both expected and unexpected challenges. One of the most shocking aspects of my position is the enjoyment I've found in the grant writing process.
#NewPI
1/n
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First R01 with me as a PI submitted! Now I'll just crawl into a hole and sleep for 3 days.
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Guys. I don't want you to freak out, but apparently I'm a pretty major influencer in the cell therapy space.
Top
#GeneTherapy
&
#CellTherapy
Influencers on Twitter, as per our
#socialmedia
analysis.
@celltherapy
@Vjsapps
@PatelOncology
@aurmanARK
@Lymphoma_Doc
@bwoodmd
@MerlinCrossley
@ingridmarchal
@rickilewis
@NeBanovich
#crispr
#healthcare
#biotech
#GeneEditing
#GeneticEngineering
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Sunday was my birthday. Today during lab meeting my group gave me this cake. I think I've effectively communicated my favorite hobby...
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Prepping for strawberry DNA extractions at my two kids classrooms!
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I don’t usually work on weekends and I pride myself on having a good work life balance. Yet I’ve been traveling a ton and we are heading to Disneyland for my daughter’s B-day - I’m going to be out Mon-We’d of next week. So trying knock out this R01 in style while en route!
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And just got back my second test and I'm positive
Welp... didn't even make it one week into the school year and my 5yo has COVID. He's fine and only had a fever, but man feels pretty crappy.
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Received official confirmation that our
@cziscience
@humancellatlas
pilot project proposal was funded!!
@PedalheadPHX
@TGen
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Left the meeting a little early yesterday to get in some fishing at the Ocean Beach pier. Arrived right at sunset and fished for a few hours. It was
@rogerpique
's first time fishing ever and he managed to catch the only fish of the evening.
#ASHG18
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Nothing quite says Father's day like hosing the vomit out of your kids car seat after an 11 hour drive.
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The last picture I have of my pops. This is from my daughter's surprise birthday party a few weeks ago.
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The 2 undergraduates who've been doing research with me both graduated from
@asu
last week.
@AustinTheGutes
is staying on as an informatition & Bianca is heading to
@UUtah
to pursue her PhD. Excited for the next phase of their careers, & a bit sad to see Bianca go
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I love those little moments you get as a parent. Like when you're putting the 2yo down and he asks you to lay with him "just for 1 minute". He snuggles right up next to you then lets go a huge sneeze straight up in the air and you feel a light mist gently land all over your face
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This years
#BoG20
fishing trip is less productive than last years.
#fishmafia
@JacobFDegner
@rogerpique
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