Sarah Teichmann — Transcript
Full transcript
- 0:00my um great pleasure to introduce our
- 0:02second speaker um Dr. Sarah um Techman.
- 0:06So Sarah did her PhD at the MRC
- 0:09laboratory of molecular biology in
- 0:11Cambridge, UK and he uh she was a belt
- 0:15memorial fellow at University College
- 0:17London. In 2001, she started her own
- 0:20research group in MRC laboratory of
- 0:23molecular biology and moved to the
- 0:25Walcon genome campus in 2013.
- 0:29And in 2016, she was appointed head of
- 0:32the cellular genetics program, Ali
- 0:34Sanger. And in 2024, she then took
- 0:38another leadership role as a chair in
- 0:40Stanell medicine at the University of
- 0:42Cambridge. She's co-founder and also
- 0:44co-leader of the international human
- 0:47cell atlas consortium which aims to
- 0:49create reference maps for cells across
- 0:52all human tissues and has grown to
- 0:54include over 3,000 members across the
- 0:56world. Her laboratory develops as well
- 0:59as um applies cell atlas techniques to
- 1:02understand human tissue architecture
- 1:05with a particular focus on how cellular
- 1:07diversity is generated in the immune
- 1:10system and also throughout development.
- 1:12Her work has been recognized by numerous
- 1:15award including the amble gold medal
- 1:17genetic society Mary lines award among
- 1:20many many other awards and today um it's
- 1:24our great pleasure to have her
- 1:26presenting about multiomic Atlas of
- 1:28human skeleton development. Welcome
- 1:31Sarah. Thank you so much Sky for that
- 1:33kind introduction and it's a pleasure to
- 1:36to present this work um which we
- 1:38published at the end of last year um and
- 1:42it's slightly different from the title
- 1:44that I indicated but I want to kind of
- 1:46dig into this work because it had a um a
- 1:50a a component of of the epiggenome
- 1:54which we leveraged for gene regulatory
- 1:56network inference and genetics. I want
- 1:58to just sort of give a a very quick
- 2:00introduction into the the technologies
- 2:02that we use in the human cellless
- 2:04community and in projects like this and
- 2:06they're obviously single cell and
- 2:08spatial genomics and you know you're all
- 2:10aware of this resolution revolution that
- 2:12we've lived through for the past 15 plus
- 2:15years um where we are we are now able to
- 2:20map the nucleic acid content and um
- 2:24multimodal
- 2:26um features of individual cells and
- 2:29nuclei. And of course, combining that
- 2:32with spatial transcrytoics, with highly
- 2:35multiplex spatial mapping methods and
- 2:36tissue sections is a really powerful way
- 2:40to map human cells. And I'm really
- 2:42delighted that Ishtak who who preceded
- 2:45this talk kind of was also talking about
- 2:47human developmental samples, which is
- 2:49exactly what I'll be speaking about too.
- 2:52Um, and and these methods really sort of
- 2:54open up our ability to understand the
- 2:57molecular and cellular composition of
- 3:00human tissues in ways that weren't
- 3:03possible previously um because of the
- 3:06the limitations of of um you know
- 3:09modulating genetics and and manipulating
- 3:12human tissues. And it's really these
- 3:14technologies together with the data
- 3:16science that stitches them together that
- 3:18buoyed the launch of the human cell
- 3:20atlas almost 10 years ago now. And of
- 3:22course, this is
- 3:24our community grassrootsled project um
- 3:28that that that's an open project where
- 3:30we invite any anyone interested in this
- 3:33this this endeavor to join and the link
- 3:36is down at the bottom where our aim is
- 3:38to create a reference map of ourselves
- 3:42kind of from a basic understanding
- 3:44and discovery science point of view. And
- 3:48of course studying the human there's
- 3:50also immediately a diagnostics and and
- 3:53treatment implication and sort of
- 3:56translational relevance and and just to
- 3:59sort of um say this is a slide that's
- 4:01out of date but we're now at over 4,000
- 4:04members from over 100 countries around
- 4:06the world and you see sort of Europe and
- 4:09and North America and also um Latin
- 4:12America, Africa, Asia and so on has
- 4:15increasing kind of members and repres
- 4:17representation that uh contributing to
- 4:20the project. [snorts] The phase that
- 4:22we're in right now is really important
- 4:24and I want to highlight this this draft
- 4:27atlas assembly phase. And what this
- 4:30means is that we are integrating data
- 4:32sets and releasing reference data
- 4:34objects at data.humansellatlas.org
- 4:36the human cellless data portal. And so
- 4:39these are uh objects that are put
- 4:41together by the 12 postocs that are
- 4:43funded by the trans Zuckerberg
- 4:44initiative to integrate these data sets
- 4:47and work with the bio networks. We have
- 4:5018 biological networks that have PIs
- 4:53that are experts in the different organs
- 4:55and systems and curate do a careful
- 4:57curation of cell states. And so I want
- 5:00to emphasize that and encourage people
- 5:01to go and look there are now more
- 5:04approved atlases that we released. And
- 5:06this morning we approved the pancreas
- 5:07and the uh the the oral cranial facial
- 5:11atlas, the m the oral cavity basically.
- 5:14Uh and so that you know this is a really
- 5:15exciting time. We're obviously kind of
- 5:18still actively extending the human cell.
- 5:20This is far from complete with
- 5:22multimodal data with spatial data with
- 5:24more tissues pushing towards a more
- 5:27comprehensive mapping. We we we do have
- 5:31um on the data portal over 100 million
- 5:33cells from the 18 different biological
- 5:36networks and you can see the organs and
- 5:37systems sort of indicated around here.
- 5:40My story today is going to be related to
- 5:43muscularkeeletal
- 5:45network as well as
- 5:49human development embryionic [snorts]
- 5:51and and fetal development kind of along
- 5:53the lines that that Ishtak mentioned.
- 5:56And and so what I'll be what I'll be
- 5:58presenting is um human skeletal
- 6:01development where we set out to
- 6:03characterize osteogenesis and
- 6:05condrogenesis and gain insights into
- 6:07bone and joint conditions. And we have
- 6:08already worked on limb development
- 6:11previously and published um kind of
- 6:15insights into
- 6:17the the the condraittes. So the
- 6:18cartilage um that makes our tendons and
- 6:21and ligaments as well as osteoccytes
- 6:24that contribute to bone. And in terms of
- 6:27um oh just a sec
- 6:31need to change the pointer to to show
- 6:35these videos. So in in first trimester
- 6:40um embryionic osteogenesis the the bones
- 6:43and cartilage develop. And here what we
- 6:46have is a light sheet imaging from um
- 6:49Rafa Blan Alan Shadow's lab in Paris
- 6:52marking a collagen that's a marker of
- 6:55condrogenesis and a transcription factor
- 6:57SB7 that's a marker of osteoggenesis.
- 6:59So these are two lineages cartilage and
- 7:02bone that develop from the same meenal
- 7:05progenitors and there are two different
- 7:07processes um uh intra intromemebranous
- 7:10oification that makes our skull cap the
- 7:13the the top of our head and um
- 7:17endocchondrial oification that
- 7:18contributes to the other bones in the
- 7:20body and the the skull base. And you can
- 7:23see this sort of development kind of in
- 7:26a
- 7:28in this translucent um you know
- 7:30stunningly beautiful image of of the
- 7:32embryo here where [snorts]
- 7:34Raphael and allow then zooming in
- 7:36showing the skull cap has a different
- 7:38developmental origin to the skull base.
- 7:41[snorts] So, as I said, the SP7
- 7:44transcription factor is marking the
- 7:45skull cap and the
- 7:47specific collagen is marking the skull
- 7:49base because they're they're obviously a
- 7:51single sort of anatomical structure
- 7:53together, but have different origins and
- 7:56different
- 7:58mechanisms for making the bones. And if
- 8:00we look a couple of weeks later in in in
- 8:02pregnancy and in human development, we
- 8:04see these [snorts]
- 8:07um kind of more mature um
- 8:12um ex more extensive
- 8:15uh coverage of of the skull cap and the
- 8:17skull base through these um these two
- 8:21different processes.
- 8:22Intramebran intramebranous ocification
- 8:25and endocchondrial ocification.
- 8:29um in in the skull cap the introme
- 8:32intramebranous ocification is the main
- 8:34mechanism. So here again just to um
- 8:37emphasize that
- 8:40the the different um plates effectively
- 8:44that that um contribute to our skull are
- 8:49uh anterior regions of the skull cap and
- 8:51skull base. And you have these uh
- 8:53sutures and um [snorts] um the coronal
- 8:58suture and sagittal sutures that uh are
- 9:01at the the interfaces between the the
- 9:03the the plates. Um there's ocification
- 9:07across regions during development and
- 9:09the the skull cap is formed by
- 9:12intramebranous ocification and Ken toe
- 9:15who was an incredibly talented um
- 9:18clinical PhD student traininee in the
- 9:20lab and has now gone back to surgical
- 9:23training dissected these regions
- 9:25extremely carefully for then paired
- 9:28single nuclear and single single nuclear
- 9:31RNA and attack sequencing. So multi ohm
- 9:33analysis of the nuclei which you can
- 9:37it's the tissue soft enough that you can
- 9:38extract it basically from this first
- 9:40trimester samples and um and then also
- 9:45analyze uh the sections by vizium
- 9:49spatial transcrytoics and this is shown
- 9:51here um [snorts] uh sort of indicating
- 9:55the skull the the skull cap the skull
- 9:57base and then also the appendicular
- 9:59skeleton joints in the shoulder the hip
- 10:01and the knee
- 10:03um that were dissected at different time
- 10:05points in in first trimester development
- 10:08year 5 6 7 8 9 10 11 12 postconception
- 10:11weeks and then analyzed by um
- 10:15multi ohm so RNA plus attack sequencing
- 10:18at these different time points for the
- 10:19different um bone and joints and then um
- 10:23also by vizium and incite 155th fiveplex
- 10:27incitu sequencing which we carried out
- 10:28with with Kenny White um in in Omar
- 10:32Batra's lab um and the the the process
- 10:38of um intramebranous oification sort of
- 10:42takes place throughout where the onset
- 10:45of oification is kicked off in the skull
- 10:47cap throughout this period. Whereas in
- 10:50the other um bone and and joint regions
- 10:54there's this misenal condensation
- 10:56interzone formation and then formation
- 10:59of of cartilage primordia and
- 11:01paricchondrium and and then finally
- 11:04oification through endocchondrial
- 11:06oification which is sort of a different
- 11:08developmental process.
- 11:11If we kind of look at the the cell
- 11:13states of these 300,000 um nuclei that
- 11:17we profiled by Multium, the meseno
- 11:20states are shown on the right hand side
- 11:21and you can see a lot of different um uh
- 11:24progenitor and um
- 11:28developmental states kind of um all
- 11:32projected together from from the
- 11:34different regions. Over on the right
- 11:35hand side here, um
- 11:39you've got condondraite progenitors of
- 11:41different at different stages. Um
- 11:44hypertrophic condraittes
- 11:46uh and and articular condondraittes. If
- 11:49we focus on the the the the the skull
- 11:52cap and craniogenesis,
- 11:54we describe these previously unreported
- 11:56human cell states of the cranium misim,
- 11:59the suture misenheime, and then a
- 12:02pre-ostoblast progenitor prior to the
- 12:04osteoblast and osteoccy differentiation.
- 12:06And because we have um [snorts] we we
- 12:10can sort of plot this in in this pseudo
- 12:13time um developmental cell cell pseudo
- 12:17time here um and and and plot the
- 12:20markers that are differentially the
- 12:22genes that are differentially expressed
- 12:24along this this trajectory.
- 12:27And then what I'd like to um you know
- 12:29what's really beautiful is that this
- 12:31also maps kind of onto onto um
- 12:37different locations in in space in the
- 12:40skull cap. And just to orient ourselves
- 12:43this is 50 micron vizium spatial
- 12:45transcripttoics where each voxil you
- 12:47know is a group of cells. We can
- 12:49deconvolute the cells with
- 12:50celltolocation which is a probabistic
- 12:53model um that gives us the individual
- 12:56states in the voxels and um the suture
- 12:59the coronal
- 13:01sutures basically along along in this
- 13:04region you've got der the dermal layer
- 13:06the skin on the top and then mining
- 13:10um along the bottom then then the brain
- 13:12basically below that and
- 13:16um in fact the the different uh the the
- 13:20different cell types that I just
- 13:21mentioned are organized in um in a
- 13:26zonated way basically along the skull
- 13:28cap and we can use our organ access um
- 13:32modeling framework that's on GitHub that
- 13:35we published as part of a a whole thymus
- 13:38cell atlas model um in order to
- 13:40calculate kind of the different uh the
- 13:43different zones in a progressive way
- 13:46that represent the different cell uh
- 13:48cell states or the different sort of
- 13:51tissue niches if you like kind of um
- 13:55along the um along the skull cap. So
- 13:58you've got suture zones and then
- 14:01different osteogenic zones um sort of in
- 14:04a progressive way and the the the the
- 14:08[snorts] osteoccytes are are basically
- 14:10enriched in the um
- 14:13in the osteogenic zones and and the
- 14:15progenitors basically earlier on
- 14:19um because this is multi ohm data so we
- 14:22don't have the the the beautiful histone
- 14:23modifications that you saw in Ishtiaak's
- 14:25talk what we have is is open versus
- 14:27closed chromatin And so we can define
- 14:30um combinations of of enhancers and and
- 14:33and actively transcribed genes using the
- 14:36scenic plus um gene reguy network
- 14:39inference pipeline and and [snorts]
- 14:41calculate these enhancer
- 14:44gene transcription factor active gene
- 14:47sort of modules and that's what you see
- 14:49over here on the right hand side where
- 14:51we quantify the activity of these
- 14:52different transcription factors in the
- 14:55different um in [snorts] the different
- 14:57cell compon compartments, the different
- 14:58cell lineages. And you so you can see a
- 15:01set of transcription factors that's um
- 15:05um sort of more active in the in the
- 15:08earlier cell compartments and and and
- 15:11then this SP7 transcription factor that
- 15:13I meant that I mentioned marking the
- 15:16intromebrinous oification and the
- 15:18osteoblast and osteoccytes is coming up
- 15:20here in these more mature compartments
- 15:23and we can you know represent these
- 15:25regulons
- 15:26with their their dominant transcription
- 15:29factor. factor basically in and and
- 15:32correlate different modules kind of
- 15:34together within cells. And so there's
- 15:37sort of [snorts] modules that are
- 15:39essentially activating or pushing
- 15:41forwards osteogenesis versus modules
- 15:44that are kind of inhibiting osteogenesis
- 15:48if you like and and they're shown here
- 15:49in the red and the blue.
- 15:52Um so so using that sort of um network
- 15:56approach
- 15:58um we we can
- 16:01essentially [snorts]
- 16:03um calculate a a hierarchy of
- 16:05transcription factors that are
- 16:07maintaining the progenitor pool and um
- 16:10versus ones that are activating
- 16:13um activating uh the osteogenic
- 16:17phenotype essentially in in both
- 16:20intramebranous and in um um
- 16:24endocchondrial
- 16:25uh ocification.
- 16:30and and and then if we if we again sort
- 16:33of zoom in and map uh the locations of
- 16:36the transcription factors and their
- 16:38activity onto the the skull cap in space
- 16:41in the spatial transcripttoics, what we
- 16:44can see is the um
- 16:47um transcription factors that are kind
- 16:50of poisoning for osteogenesis in the
- 16:52sutra misanky versus transcription
- 16:55factors that are that are um maintaining
- 16:57patency like twist one and lmx1b.
- 17:00And then also um you know correlate how
- 17:05these transcription factors how these
- 17:07key transcription factors link to
- 17:09genetic conditions like cranioinostosis
- 17:12where you have fusion of the sutures.
- 17:15And so this um you know twist one is
- 17:18expressed in this region maintaining the
- 17:21the the separation of the the the skull
- 17:25plates. Um and if there if that's
- 17:28mutated then then there's fusion
- 17:30cranioinistosis of the the skull plates
- 17:32which is a bad thing. Um in similarly uh
- 17:36when we look at um
- 17:39[snorts] at at other um other other
- 17:43signaling or factors or receptors or
- 17:46transcription factors involved in in for
- 17:48instance um digit you know the the
- 17:51development of the bones and the digits.
- 17:53We can plot basically where these genes
- 17:57are active or penetrating during first
- 18:00trimester development in the the not
- 18:03only the skull cap but also the other um
- 18:06you know the other parts of other bones
- 18:08for instance in digit development and
- 18:09relate essentially the the the phenotype
- 18:13from proximal digit only distal digit
- 18:15only and so on to the the location where
- 18:18the genes are acting during development.
- 18:21And so this is um you know it's it's
- 18:24giving us a very high resolution fine
- 18:26grained insight into the
- 18:29>> [snorts]
- 18:29>> um the mechanisms of these genetic
- 18:31conditions
- 18:33and you know including the sort of
- 18:35cranioacial cleft which is enriched in
- 18:37cranial bone
- 18:39pytorranial disostois enriched in
- 18:42cranial bone and limb paricchondrium and
- 18:44so on.
- 18:46um we collaborated with the Zen group in
- 18:48also linking um expression of of G-W was
- 18:53fine mapping of of G-W was signals so
- 18:56where you've got a genetic association
- 18:58with with adult diseases such as
- 19:00osteoarthritis and rheumatoid arthritis
- 19:04into the the developmental cell states
- 19:06and you know we were discussing this in
- 19:08my lab this morning uh whether this
- 19:10makes sense and you know I would I would
- 19:13argue there are two there are two well
- 19:16not only did the the reviewers kind of
- 19:19accept this but you know beyond that I
- 19:22would argue that it it is likely and
- 19:26there is evidence that that some of the
- 19:28conditions that we experience as adults
- 19:30and that are late onset are actually
- 19:32sort of already poised um in in terms of
- 19:37uh you know subtle variations during
- 19:39pregnancy in in our embryionic and fetal
- 19:41developmental stages and and So, you
- 19:44know, understanding the genetic variants
- 19:47that increase our risk of various adult
- 19:50diseases during development,
- 19:53I would argue is is relevant and is of
- 19:56interest. And obviously, you know, if we
- 19:58find map variants and then understand
- 20:00how they're modulating binding of
- 20:03transcription factors and influencing
- 20:05changes in gene expression in cells
- 20:07during development, that can give us
- 20:10mechanistic insights. And so this
- 20:12exercise, you know, this is this is one
- 20:14example
- 20:15um uh where we're relating adult risk
- 20:19genetic risk factors that are mostly
- 20:21non-coding by the way into um you know
- 20:24they're they're acting through distal
- 20:26enhancers and repressors and so on into
- 20:29um the the developmental data is is is
- 20:32is kind of you know one example. And um
- 20:37the way we went about this was using a
- 20:40new method called snip to cell which we
- 20:41published in this in this paper um that
- 20:44was led by Ken toe with Lee Jang Feay
- 20:46and Patrick Pet uh who who worked
- 20:49together to develop this method. And the
- 20:51the the principle is that you take the
- 20:53G-W was summary statistics, map them
- 20:55into the um the multi ohm data uh into
- 20:58the the enhancers and the gene regulator
- 21:00network and look for enrichment of
- 21:03modules of of genetic variance in cell
- 21:06types through as they sort of percolate
- 21:10through the gene reguary network that's
- 21:12calculated from um from the scenic plus
- 21:16data. And so you can kind of propagate
- 21:18variance through uh modules and
- 21:20calculate subn networks that are that
- 21:22are affected. And and indeed when we do
- 21:25this this this when we use this snip to
- 21:29cell pipeline that uses fine mapping of
- 21:31GW was and FGW was uh package with the
- 21:35single single nuclear multiom data. We
- 21:37can identify enrichment of osteogenic
- 21:40cell types uh in in HIP.
- 21:44um but um
- 21:47condondrogenic cell types in in knee
- 21:51osteoarthritis. And so what it's what
- 21:53it's suggesting is that knee
- 21:54osteoarthritis is more um you know
- 21:57associated with cartilage and and cart
- 22:00and and sort of poised through cartilage
- 22:02development and hip osteoarthritis is
- 22:04more connected to osteogenic bone cell
- 22:07types in in in the hip. [snorts] Um
- 22:14so basically that sort of takes me to
- 22:16the end of this story and um just to
- 22:20summarize what we've um discovered are
- 22:23are cell types and tissue niches in in
- 22:26skeletal development that were
- 22:28previously unappreciated
- 22:30in in in mammals. So not just in humans.
- 22:34Um
- 22:36that uh uh uh also we use scenic plus to
- 22:41uh identify gene regu network triads
- 22:44using the multiome data and and define
- 22:46transcription factors, regulatory
- 22:48regions and genes that are linked
- 22:50basically in in in these uh different
- 22:54cartilage and bone developmental
- 22:57processes that occur in the different
- 22:58regions of our skeleton and then connect
- 23:01to rare disease and common disease
- 23:03genetics.
- 23:04and and gain more detailed insights into
- 23:06the mechanisms of these genetic
- 23:08conditions.
- 23:10Basically, by mapping the rare disease
- 23:12genes in terms of their locations and
- 23:13where they're penetrating during
- 23:15pregnancy and then also gaining insight
- 23:17into where adult onset disease uh risk
- 23:22factors may be acting during
- 23:24development.
- 23:26So I've mentioned Ken who um
- 23:30worked closely with Lee Shang and
- 23:32Patrick who are two incredibly talented
- 23:34um uh computational [snorts]
- 23:37data science and AI postocs in the
- 23:39group. Patrick has now gone to uh
- 23:42relation a biotech company. Our
- 23:44collaborators um were Mosh Hanifa, Roger
- 23:47Barker and I've also mentioned Omar
- 23:49Bactctor already and also Alan Shadowal
- 23:52for the beautiful light sheet imaging
- 23:54and Chris Buckley who co-supervised Ken
- 23:56for his PhD and is an an expert
- 23:59rheumatologist in Oxford and this is a
- 24:01picture of our lab and um these are my
- 24:05disclosures.
- 24:07Thank you for your attention and I'd
- 24:08[clears throat] be delighted to take
- 24:09questions.
- 24:12Thank you Sarah for the uh wonderful
- 24:14presentations. Um if you have any
- 24:16questions you can raise your hand or you
- 24:18can type your questions um in the Q&A
- 24:21box so that um Sarah can answer it
- 24:24directly.
- 24:29Let me just make sure
- 24:43So the first question is um
- 24:47[clears throat and laughter]
- 24:48[gasps]
- 24:48um it's a praise.
- 24:59How easy is it um to collect a lot of
- 25:02samples for your like this single cell
- 25:06experiment?
- 25:14Sorry, I'm just answering the question.
- 25:16Um so, so sample access is a crucial
- 25:19point and thank you so much for that
- 25:21question which I kind of skipped over.
- 25:24um you know all this data was enabled by
- 25:26the the generosity of the women who are
- 25:28donating their tissue um in a a social
- 25:32termination.
- 25:33So similar to what Ishtak said and in
- 25:36the UK we have a wonderful tissue bank
- 25:38called the human developmental uh
- 25:40biology repository www.hdbr.org
- 25:45and um that that repository is based at
- 25:49um London and Newcastle and provides
- 25:52tissues uh on a bio bank basis uh to to
- 25:56scientists in the UK and also uh to
- 25:59scientists in other countries if you can
- 26:03uh work with them uh to show that you
- 26:05have the the appropriate ethics from
- 26:07your institution the ethical approval
- 26:10>> um the these samples were also uh
- 26:14collected under a separate ethics held
- 26:16by Roger Barker in Cambridge uh he's one
- 26:19of the PIs that I acknowledge on the
- 26:21last slide and Roger has run a um a
- 26:25research program for over 20 years on um
- 26:29um dopamineergic neurons in the
- 26:31developing brain in order to uh better
- 26:34understand and treat Parkinson's disease
- 26:36and and and [clears throat] we worked
- 26:38with him. I'm a co-PI on that research
- 26:41ethics project where we also collect
- 26:44samples locally from the uh tertiary
- 26:47teaching hospital in in the Cambridge
- 26:49University Clinical School.
- 26:52Nice. I think Jackson has a question
- 26:54that um he's going to ask himself.
- 27:00>> Got that closing camera. Yeah. Uh that
- 27:03was really fascinating, Sarah. And I'm
- 27:06wondering um how much information you
- 27:09can kind of glean or infer from these uh
- 27:12networks about like the
- 27:16origin of all of these different cell
- 27:18types in the skeletal system. um like
- 27:22from like the transcription factors that
- 27:24you're pulling out or anything else
- 27:26about the chromatin accessibility, can
- 27:28you identify subsets of cells that might
- 27:31be like neural crest derived versus the
- 27:34cells that come from other ectoermal
- 27:36lineages? Yeah. So the this is all
- 27:39mezeno lineage and um sorry let me just
- 27:43go back.
- 27:46Um
- 27:53yeah so these lineages are derived from
- 27:55different condensates essentially in the
- 27:59um in the developing embryo that are
- 28:02meenal
- 28:03um meenal derived. um there are the the
- 28:08anterior part so the anterior plates
- 28:12are are are neural crest derived and
- 28:16have
- 28:17um so I didn't I didn't kind of go into
- 28:21this actually here
- 28:23um
- 28:26yeah so so it's a great question so
- 28:28basically these parts are are neural
- 28:30crest derived and these parts are mezenl
- 28:33derived and the neural crest test
- 28:35derived
- 28:36um
- 28:38do have a kind of um
- 28:42scar or like remnants of transcription
- 28:45factors that give us the clue that
- 28:46they're neuro crest arrived in um
- 28:51and and and
- 28:52the um the dissection also
- 28:57um kind of has a you know there the
- 29:00dissection is is um is kind of
- 29:04platebased and we can also um trace that
- 29:08basically from the spatial
- 29:09transcripttoics
- 29:12in terms of
- 29:15non-coding kind of regatory elements
- 29:19you know and epigenetics there should
- 29:21also be kind of a scar or like a a
- 29:24memory but I I can't remember exactly
- 29:27whether we dug into that but you know
- 29:29the I I should say that the data you
- 29:31know all of this data is publicly
- 29:32available for deeper
- 29:34or reanalysis,
- 29:36further analysis, reuse and so on so
- 29:38forth and um both on the human cell data
- 29:43portal and also from our own
- 29:44supplementary website.
- 29:50>> Yeah, that's thanks so much. Looks
- 29:52[clears throat] like there is another
- 29:52question in the Q&A.
- 29:56Um
- 29:57>> okay, let's see. Um sorry,
- 30:01>> two more questions now. Yeah, two more
- 30:03questions. You suggested that the embryo
- 30:06marks adult disease. How did you uh in
- 30:10amber lease mark being activated in the
- 30:13adult?
- 30:17Yeah. So, so the way I'm thinking about
- 30:19this and and this is kind of, you know,
- 30:22I sort of welcome critical feedback and
- 30:25input and kind of conversation around
- 30:27this, but the way I think about this is
- 30:29that, you know, our DNA is kind of the
- 30:31blueprint
- 30:32um of of ourselves. And remember, a lot
- 30:35of these variants that are risk factors
- 30:37for adult onset diseases are in
- 30:39non-coding regions. And so that that
- 30:42molecular variant [snorts] that you know
- 30:45is different in different people is
- 30:47going to have you know a mechanistic
- 30:50impact on transcription factor binding
- 30:52affinity on gene expression levels
- 30:55whether it's in [snorts] you know
- 30:57whether it's it's it's active I'll say
- 31:00in in development in in a certain
- 31:03context and certain cell compartment
- 31:07equally as in adult if it becomes comes
- 31:11sort [snorts] of unleashed if you like
- 31:12in disease
- 31:15and but the the specific
- 31:18like the the the the specific cell type
- 31:20or location in the body may not be
- 31:22identical.
- 31:25So
- 31:27my feeling is basically that that it's
- 31:29you know from a it's worth tracing the
- 31:33impact of these variants that we know
- 31:35from G-W was associations
- 31:38are risk factors for disease. It's worth
- 31:40understanding also how they are
- 31:42influencing you know or whether they're
- 31:45they're
- 31:47they're active
- 31:50in influencing subtle changes in in
- 31:52human development.
- 31:54So that that's how I think about it. And
- 31:56I don't know if that makes sense to
- 31:58everyone, but I'
- 32:00um [snorts] you know that's that's
- 32:02basically
- 32:04um why I think it's useful to actually
- 32:07do this this analysis.
- 32:14>> The second question is how about
- 32:16sinosis? Anything special with regards
- 32:19to the rest of the skull?
- 32:22>> Sinuses. Okay.
- 32:26Um,
- 32:28yeah, they cause a lot of pain kind of
- 32:30when you've got a an infection. Um,
- 32:35so I'm not sure when
- 32:39Yeah, I'm just going back to the the
- 32:42video. Um,
- 32:46so we didn't
- 32:49dissect the sinuses specifically. So we
- 32:51didn't sort of we didn't although you
- 32:54can see the the the regions that we that
- 32:57we focused on as I said were sort of
- 32:59skull cup skull base and then you know
- 33:01the knee
- 33:03um [snorts]
- 33:05um um the the shoulder the hip and the
- 33:07knee
- 33:10the dissections what what I should
- 33:12emphasize is that the surge the surgical
- 33:15trainee who did this can tow you know
- 33:18this is really like micro micro surgery
- 33:21and dissection or dissection.
- 33:25I think it would be super interesting to
- 33:27look at the different the you know the
- 33:29other the sort of oral cranial facial
- 33:33anatomical components
- 33:36um and and and maybe the way to tackle
- 33:39that is not by dissection but by you
- 33:42know getting the right sections for
- 33:44spatial transcrytoics
- 33:47and and sort of serial sectioning to
- 33:49kind of reconstruct in three dimensions.
- 33:52Um,
- 33:55so I think, you know, things like the
- 33:56sinuses, the inner ear,
- 33:59even the dental kind of development are
- 34:02super interesting, but we didn't we
- 34:04didn't tackle that part kind of in this
- 34:06study, but [snorts] it would be it would
- 34:08be a really interesting project for the
- 34:10future.
- 34:14>> Right, I think um that's pretty much all
- 34:17the questions we have for your talk and
- 34:18it's a lot of questions and thank you
- 34:20for answering. Um we are actually right
- 34:22on time. Thank you again um for both
- 34:24speakers for the wonderful presentations
- 34:26and also for everyone for participating.
- 34:29Yeah, with that we are going to end this
- 34:31um seminar.
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