Yale Biorepository Information Session - August 22, 2023

Transcript

• 00:07Yeah, we'll give people one
• 00:08more minute before we start.
• 00:48I think we just go ahead to get started.
• 00:51And first of all,
• 00:53welcome you all for this YSM,
• 00:56YSM file repository open session.
• 01:00If the separation will be coordinated by me,
• 01:05my name is Chen Liu,
• 01:06so I'm the director for the power
• 01:09repository and the doctor with the
• 01:12source and who is the associate
• 01:14director for the power repository.
• 01:16I think that the the session is is recorded.
• 01:19I think we will post it on the website.
• 01:22You know, for people who miss it,
• 01:24you still can, you know, look at it,
• 01:26look at the presentation.
• 01:28So we just do a kind of kind of a
• 01:31quick presentation and mainly to
• 01:33really to answer questions from you
• 01:36and just tell you what's the the
• 01:38update from the power repository
• 01:40and hopefully this you know,
• 01:42you will know the the existence existence
• 01:46of this power repository and how to
• 01:49approach this repository and then
• 01:51to really support your research program.
• 01:54So now I'm going to share my screen.
• 02:03OK,
• 02:07yeah OK, you wait to use you see
• 02:09the the screen OK good. So this.
• 02:11So this is a really the the the lead
• 02:15the first slide first of all the scope
• 02:19of the work in the YSM bio repository.
• 02:21Now can we can summarize into like A5 parts.
• 02:25The one is supporting general biospecimen
• 02:29the intake acquisition, processing,
• 02:31storage and distribution and we also
• 02:35supported the investigator initiated
• 02:37or program initiated tissue banking.
• 02:40So this is actually it constitute a
• 02:43large part of what our service and
• 02:46we support a clinical IC validation.
• 02:49We we support the biospecimen components
• 02:53of clinical trial and we also support
• 02:58existing bio banks in on campus.
• 03:01And we know there are number of existing
• 03:04tissue banks and we actually wanted to
• 03:07work with you to see how we can provide
• 03:10support in terms of standard standard
• 03:12procedure and also some regulatory issue.
• 03:16And then eventually this bank would
• 03:19want will will be you know a CAP of
• 03:24college American pathologies accredited.
• 03:26So this is basically our goal to have this
• 03:30bank to become a credit the tissue bank.
• 03:32So what in the bank,
• 03:34you know we call it the power of positive
• 03:37products and we will have the capacity
• 03:40and technology to any annotate and
• 03:44process archive and the fresh samples.
• 03:47And one other aspect,
• 03:48you know from this bank protect we would
• 03:51be able to provide the paired samples
• 03:54that means liquid or blood and the
• 03:57solid tissue paired tissue specimen.
• 03:59And we also provide a live tissue for
• 04:02organized cultures. And the PDX mice.
• 04:05You know for whatever the usage you
• 04:07would like to have for live tissue
• 04:09and the potential to help people
• 04:11to develop cell lines and DNA,
• 04:14RNA protein extractions and the mono
• 04:17nuclear cell isolations from blast samples.
• 04:19Those are the examples of this power
• 04:22repository will be able to provide.
• 04:24And of course if you have some special need,
• 04:27special request we are more than happy
• 04:30to work with you to find to understand
• 04:33what your need and try to support it.
• 04:38So this,
• 04:40this is sort of a timeline,
• 04:41the preliminary operation because the
• 04:44debate really back to 2020 is under
• 04:47weight with the source directorship.
• 04:50And then the this current bank is actually
• 04:53officially starting November 2022.
• 04:55And so so far the bank has been
• 04:58supported more than 20 clinical
• 05:00laboratory projects and research studies.
• 05:03And right now this is the current
• 05:05structure of the YSM Bauer repository
• 05:07is I directed the bank and Wade is
• 05:11the social director and we the two
• 05:13managers one from you know is work
• 05:16closely under Wade with his name is
• 05:19David Ferguson and then other is the
• 05:22King fan who is closely work with me.
• 05:27So the bank also kind of tries to
• 05:29support you for your grant application.
• 05:32For example,
• 05:33the bank will provide the letters
• 05:35of support and help you to do the
• 05:38budget justification in terms of
• 05:40cost for biospecimen acquisition,
• 05:43storage and utilization.
• 05:46And it really provided this boiler place
• 05:48for you to for you know for any granted
• 05:51application you're going to have a
• 05:53resources facilitating the equipment page
• 05:55and this is just to give you an example,
• 05:58while the bank can actually provide it to
• 06:01your to you know to your grant applications.
• 06:06So right now this is a temporary space
• 06:09and well one is located at LMP 2017, 2077.
• 06:16So this is smaller live module,
• 06:18this is the diagram.
• 06:19And then the other live space is and it's
• 06:23it's in the space of live term medicine
• 06:25you can see where just so the one at
• 06:27LMP 2077 is really the primarily it's
• 06:32tissue samples and the one the space
• 06:36in the underlying medicine is mainly
• 06:39blood or other liquid about specimen.
• 06:47So how this bank is financially supported.
• 06:49So the bank is right now is the institutional
• 06:54support mainly and it's from Dean's office,
• 06:56it runs as a university service
• 07:00provider basically called USP cards.
• 07:02You are familiar with the and then then
• 07:05the others is really the true charge back.
• 07:07So the charge back of specimen,
• 07:09the usage will be determined on an
• 07:12annually basis just like any other US
• 07:15you know USP car within the university.
• 07:18And certainly this is also our future goal
• 07:20is to see if the bank would collaborate
• 07:24with investigators or even industry
• 07:26partners and to see if we can get some
• 07:28of support you know through either
• 07:31grants or some other service agreement.
• 07:34And of course there's one other
• 07:36area you know venue to support the
• 07:38bank will be fair philanthropy.
• 07:40But right now I just you know the
• 07:42bank is predominantly subsidized by
• 07:44the Dean's office and then we have
• 07:47the charge back fees which you know
• 07:51which are posted online, right.
• 07:52You can see the fees and online and
• 07:55certainly when we meet you and we'll
• 07:56discuss this with you and it will
• 07:58find out what's your need and then you
• 08:01you are get much clear information.
• 08:03So this is the current available specimen.
• 08:06We have blast samples and the like.
• 08:07Medicine is we have 275,000 eloquent,
• 08:11we have archived tissues within
• 08:14pathology and then because of the
• 08:16COVID and over the past two,
• 08:19two or three years we have accumulate
• 08:21accumulate the significant number of the
• 08:23COVID specimen and 80 from autopsies,
• 08:26MP swaps,
• 08:27Saliva's and also some blast samples.
• 08:31So this is also a summary.
• 08:32So right now for example this is the
• 08:36tissue inventories we have you know
• 08:38with basically we want to we will build
• 08:40a collection of normal tissues from
• 08:42all different parts of our organs and
• 08:45then you will be able to see it as
• 08:47through online access and that this is
• 08:50just to give you a snapshot on what
• 08:52are the you know information looks like.
• 08:55And then eventually we want to make sure
• 08:58the bank website will be more user friendly,
• 09:01more interactive,
• 09:02you will be getting more information from
• 09:05the you know from the from the bank.
• 09:08Right now we are building this portal
• 09:10and the step by step you will have
• 09:13more information you know you can
• 09:16get from the website. All right.
• 09:18So any questions so far?
• 09:22Because I can now see you probably
• 09:24just on mute and speak out,
• 09:26speak out, please. All right.
• 09:29That way I'll turn to Wade and
• 09:31who is going to give you more
• 09:33for the introduction about the
• 09:36current blood sample collection
• 09:38and about specimen support.
• 09:40And wait, yeah,
• 09:42sounds great. So yeah,
• 09:43but as Doctor New mentioned,
• 09:45we had initially started operations for a
• 09:48liquid specific biorepository back in 2020,
• 09:51primarily focused on the collection
• 09:54and distribution of COVID-19
• 09:56specimens both for clinical use,
• 09:58population health and
• 09:59epidemiologic surveillance as
• 10:01well as a few research contracts.
• 10:04And now I have merged that into the
• 10:07YSM biorepository so that we actually
• 10:09have a a single biorepository.
• 10:11It is not managed by a anatomic
• 10:14path or lab medicine.
• 10:16Many of the people are
• 10:17from those departments,
• 10:17but it is actually the YSM biorepository.
• 10:21Next slide.
• 10:23And really what we wanted to, you know,
• 10:25highlight as part of this effort
• 10:27is that we aren't just a biobank.
• 10:29So the goal for us is not just to take
• 10:32specimens and put them in a freezer,
• 10:34but rather provide biospecimen management.
• 10:36So we have a number of projects where we
• 10:39actually acquire biospecimens and we'll
• 10:41ship them directly to study sponsors.
• 10:43We'll move them immediately to one of the
• 10:46research labs or clinical trial groups.
• 10:48In cases where we do need to store them,
• 10:50we can put them in a freezer and
• 10:52bank them for future use as well.
• 10:54But really wanted to move beyond just
• 10:56banking and really have this more
• 10:58service organization that can provide
• 11:00a number of different functions for
• 11:02investigators who need to access
• 11:04tissue or liquid biospecimens.
• 11:06Another aspect of that is that we
• 11:09can actually capture biospecimens
• 11:10in real time or near real time.
• 11:13We can do that both for consented
• 11:16patients where specimens come in
• 11:18specifically for a research study we can
• 11:20do consented but excess specimen collection.
• 11:23So somebody consented,
• 11:24but we're taking excess from a clinical
• 11:26collection or with appropriate IRB
• 11:28approval and de identification can
• 11:30actually use de identified excess
• 11:32specimens based off of clinical criteria.
• 11:35And we've done that for a number of
• 11:37different disease states or conditions,
• 11:39lupus, COVID,
• 11:40some hematologic malignancy as
• 11:42well as within the clinical lab.
• 11:45We've done this for a number of
• 11:47different assay validations as well.
• 11:48So something that's quite powerful
• 11:50especially for labile analytes where
• 11:52we don't have to worry about how
• 11:54long is the spend in the freezer,
• 11:55but we can get it soon after the time
• 11:57that the specimen was collected or
• 12:00completed for a clinical testing.
• 12:01Next slide.
• 12:07And so I've already talked
• 12:08through both of these.
• 12:09So those two pathways again are
• 12:11either the excess clinical samples
• 12:13which can either be consented
• 12:14or deidentified specimens as
• 12:16well as new sample collection.
• 12:17We've done collections for Sera plasma,
• 12:21whole blood, we've done PBMC
• 12:23isolation saliva and P swab.
• 12:25So really a quite broad set of
• 12:27specimens that we can collect.
• 12:30We've also done a couple of specimen
• 12:32types for CSF as well as urine.
• 12:34So as long as we have a standardized
• 12:37collection containers for those biospecimens,
• 12:39it's something that we can
• 12:41pretty rapidly get.
• 12:42And if there are nonstandard collection,
• 12:44we can set that up on a more
• 12:46site per site basis.
• 12:48We also have done collections at other
• 12:51DN's as well as other care sites.
• 12:52So we've done a number of biospecimen
• 12:54collections from like the North Haven
• 12:56Smylo Center as well as others across
• 12:59the Yale New Haven Health Network.
• 13:00Next slide,
• 13:05some of the different services that
• 13:06we offer and like Doctor Lu mentioned,
• 13:08the full list of these as well as the
• 13:10prices are all on our biorepository website,
• 13:12which will pull up here at the
• 13:14end for more complex studies.
• 13:16There is a study setup charge and then we
• 13:19have services as basic as just receiving
• 13:21and DE identifying A specimen and then
• 13:23handing that to the investigator.
• 13:25We can also do basic
• 13:27processing and aliquoting.
• 13:28We can do aliquoting into our
• 13:30bio banking tubes which already
• 13:31have barcodes printed on them,
• 13:33both a 1D bar code on the side
• 13:35and a 2D bar code on the bottom.
• 13:37Or if there are custom tubes that
• 13:39somebody needs, we can do that as well.
• 13:41We do have storage capacity
• 13:43for four degrees -20,
• 13:45negative 80 and liquid nitrogen is an option,
• 13:49but we have not had anybody
• 13:50have that stored with us yet.
• 13:52There is a retrieval charge,
• 13:53so specimens are being
• 13:55stored with us long term.
• 13:56There is a cost to pull those.
• 13:58If it is something where
• 13:59it's for a specific study,
• 14:00we're collecting it for a couple of
• 14:02months and then just pulling that plate,
• 14:03then that's just part of the study.
• 14:05Cost rather than retrieval
• 14:07specifically DNA&RNA preparation
• 14:09are things that we can do.
• 14:10PBMC preparation,
• 14:11as I mentioned,
• 14:12we've done a number of projects on and
• 14:14then we also have some study support
• 14:17options for doing informatics support,
• 14:19shipping manifest development to support
• 14:22really primarily the sponsored trials
• 14:25where we might be packaging it up,
• 14:27filling out custom manifests
• 14:28and then set it sending that
• 14:30to a study sponsor directly.
• 14:32In a couple of unique cases,
• 14:33we can also do research,
• 14:34testing within the clinical labs.
• 14:36So we've done a couple of projects
• 14:38where people needed COVID antibody
• 14:39results and we were able to work
• 14:41with the clinical labs to do
• 14:43that testing directly and supply
• 14:44those as research results as well
• 14:46as a few other assays as well.
• 14:49Next slide
• 14:52for the informatics driven
• 14:53biorepository aspect of this,
• 14:55one thing I had mentioned was that
• 14:57we can capture these specimens
• 14:58in real time or near real time.
• 15:00And the way we do that is with some
• 15:01of the infrastructure that we've
• 15:03developed within the School of Medicine
• 15:04as well as the health system that
• 15:06allows us to monitor patient data in
• 15:08both an identified and deidentified
• 15:10fashion in in near real time.
• 15:13So within seconds to minutes or
• 15:15hours of a test being completed,
• 15:17we can see those results and
• 15:20actually then flag biospecimens for
• 15:22collection and the identification
• 15:24and then downstream use or use cases.
• 15:27We've done this for some studies looking
• 15:29at babesio where we flagged on as
• 15:30soon as we had a babesio quantification,
• 15:32if it was over 10%,
• 15:34those cases were flagged and we
• 15:36would go get the tube of blood,
• 15:37prepare another spear and then set
• 15:39that aside for the researcher.
• 15:41We've done it for some clinical lab
• 15:43validations looking at some play bile
• 15:45analytes in urine as well as blood.
• 15:47We've also done this for a number of
• 15:50COVID studies where after patients had
• 15:52a COVID infection pulling subsequent
• 15:54sera specimens from the same individuals.
• 15:57So something that's very powerful
• 15:58and that we can develop.
• 16:00The amount of time to develop
• 16:02those those signatures or alerts
• 16:03varies depending on how complex
• 16:05the the phenotype or signature is.
• 16:07So looking for adults with diabetes
• 16:10is easier than looking for an adult
• 16:13admitted to the ICU and put on the
• 16:14ventilator in the last four hours.
• 16:16So depending on that complexity,
• 16:18all things we can potentially work with,
• 16:19but have a different cost depending on
• 16:21how long it takes to actually develop.
• 16:23Next slide,
• 16:27the current infrastructure,
• 16:28these are again shared
• 16:29within the biorepository,
• 16:31but these this is equipment that
• 16:33we have over in 55 Park St.
• 16:34the lab building.
• 16:35We do have some automation
• 16:37to help with aliquotting and
• 16:39processing of our biospecimens.
• 16:41So the Hamilton star over on
• 16:43the right hand side that's
• 16:44hooked up to an automated capper
• 16:46decapper that goes into our low
• 16:48format biorepository plates.
• 16:49So for individuals that can
• 16:51work with our freezer tubes,
• 16:53either the half mill or the one mill tubes,
• 16:55something that we can do in a pretty
• 16:57automated fashion for both the
• 16:59aliquotting as well as manifest generation,
• 17:01we have an additional three
• 17:02negative 80 degree freezers,
• 17:03a -20 degree freezer refrigerator.
• 17:06We have refrigerated and room
• 17:09temperature centrifuges,
• 17:10the plate scanners.
• 17:11We also have a cell counter
• 17:13to assist with a pre and post
• 17:15processing cell counts for PDMC's.
• 17:16And so all of that's already in place
• 17:18which means that for new projects
• 17:20that use our existing services,
• 17:22something that we can usually get
• 17:23set up and start pretty quickly.
• 17:25Next slide
• 17:28that integration then we are pretty
• 17:30well integrated with the J dot team.
• 17:31So once we do get biospecimens,
• 17:33we are able to return through
• 17:36the biorepository some limited
• 17:37information demographics,
• 17:39certain laboratory test results,
• 17:40things that are directly related
• 17:42to your patient population
• 17:44or your phenotype definition.
• 17:45If we are pulling those specimens
• 17:47in real time for larger or
• 17:49more complex data requests,
• 17:50we can help work with Jada to
• 17:52supply them the deidentified
• 17:54list of biospecimens which we can
• 17:56then link back to the rest of
• 17:58the clinical data within EPIC and
• 18:00the electronic health records.
• 18:01So allows us to do this when you do
• 18:04have say an exemption from the IRB
• 18:06to get this clinical excess specimens
• 18:08where we can do that deidentified
• 18:10with a a waiver of consent,
• 18:12but still supply clinical data on the
• 18:14back end of that without needing to
• 18:16do additional IRB approvals or work there.
• 18:19So something that we've done again
• 18:21for a number projects and is a pretty
• 18:24fluent process depending primarily on
• 18:25the complexity of the data request
• 18:27and how busy JDOT is at any given time,
• 18:30but something that we can augment
• 18:32internally at least for key
• 18:34variables that investigators may
• 18:35need for their research or studies.
• 18:37Next slide,
• 18:40specimens process today to get these
• 18:42were primarily COVID initially.
• 18:44We've now done somewhere around 50,000,
• 18:46maybe 75,000 non COVID aliquots as well.
• 18:50From those we processed 400,000 have about
• 18:54275,000 in storage and one of the exciting
• 18:56things for me is that we've actually
• 18:59touched about 80% of those specimens.
• 19:01So not necessarily every Aliquot,
• 19:03but we have had follow up or use
• 19:05of about 80% of those specimens
• 19:07in actual research projects,
• 19:09many of which have already
• 19:10had publications go out.
• 19:11So something where these aren't
• 19:13just specimens going to live in
• 19:14the freezer for the next decade,
• 19:16but something that is really integrated
• 19:18into those research pipelines and
• 19:20generating research activities on the
• 19:22other end and in a pretty rapid timeline.
• 19:25Next slide,
• 19:27some of the examples of that for some
• 19:29of our clinical assay validations.
• 19:30One of those actually included a
• 19:32manuscript as well for validating
• 19:34our COVID antibody assays earlier
• 19:36on in the pandemic.
• 19:37Some of the others that we've done with
• 19:39the chemistry lab included identification
• 19:41of urine interferences for urine PCP
• 19:43testing as well as looking at that
• 19:45amlodipine stability and plasma,
• 19:47which is one of those where we
• 19:48really had to be able to get those
• 19:50specimens quickly because of the
• 19:52possible ability of that analyte.
• 19:53And then the last one was using many
• 19:55of our COVID NP swabs to validate
• 19:58in house COVID-19 sequencing,
• 20:00primarily within lab medicine,
• 20:01but also supplying specimens for
• 20:03Nate Kruba in epidemiology as
• 20:05well as anatomic pathology for
• 20:07some of those state contracts.
• 20:09Next slide.
• 20:11More,
• 20:11this is a little bit more on
• 20:13that EIP program for Nate Kruba.
• 20:15So this is where we've been ongoing
• 20:17providing specimens for SARS Co V2
• 20:20sequencing that continues today.
• 20:22In addition to that epidemiologic
• 20:24surveillance that's now I think up
• 20:26to seven manuscripts published in
• 20:27another three or four in preprints
• 20:29or something that's had a a lot
• 20:31of academic productivity from
• 20:32being able to get those specimens,
• 20:34supply the associated clinical data
• 20:37then with a really a lot of great work
• 20:38by Nate's lab to do the the basic
• 20:40science and public Health Science
• 20:42on on top of those biospecimens.
• 20:43Afterwards,
• 20:45next slide in terms of requesting access,
• 20:48so there is a Red Cap site where
• 20:50you can submit a project request.
• 20:53That link to Red Cap is also
• 20:55on our biorepository website.
• 20:57The link for that's down on the bottom.
• 20:59So the bottom link has the link to
• 21:01the request form all of our services,
• 21:03our pricing and contact information.
• 21:05The general flow of this starts
• 21:07in the top left.
• 21:08So you submit the request on
• 21:10Red Cap within a week at most.
• 21:12David or Keen will then reach
• 21:14out to you to see if there's
• 21:16additional information that we need,
• 21:17if there's an IRB in place,
• 21:19at which point we will then work
• 21:21through what does the specimen
• 21:23acquisition SOP look like.
• 21:24So as we get specimens either from
• 21:27excess specimens or consented patients,
• 21:29what do we need to do in
• 21:31the biorepository for
• 21:32processing stability storage.
• 21:34Once we know that we can generate an
• 21:36estimate given our current pricing and
• 21:37then agree to a project initiation time.
• 21:39And we've done this successfully
• 21:41now for over probably over 25
• 21:44projects at this point over the last
• 21:46since just November of last year.
• 21:48So something that we can get
• 21:49started usually pretty quickly
• 21:51and scale up as needed. Next line
• 21:55and that is it.
• 21:57So yeah, happy to take any questions
• 21:59or Dr. Lu, if you had any other
• 22:02comments to start with. OK,
• 22:03thanks Wait. So now both of me
• 22:05and Wade are here And really
• 22:07to answer a question from you,
• 22:12if you have just unmute and ask the question,
• 22:19are you gonna make the slides available?
• 22:21Yes, it will be posted on, on our website.
• 22:26Yep, the slides as well as a
• 22:28recording of the presentation. Great.
• 22:31Thank you both for the information.
• 22:32This is really helpful.
• 22:33I have a question for you
• 22:35about collecting specimens,
• 22:36specimens from patients in clinic
• 22:40like at different clinic sites rather
• 22:42than say the OR from pathology,
• 22:45archival tissue.
• 22:45Is there experience with that
• 22:47or how does that normally go?
• 22:49Yeah, absolutely.
• 22:49And so it depends on where the clinic
• 22:52is at primarily depending on how
• 22:53quickly you need them processed.
• 22:55We do, we are,
• 22:56we are able to use our existing
• 22:58Courier services across the New Haven.
• 23:00So if a clinic is has a Courier that
• 23:03is bringing samples to the main lab,
• 23:05we can piggyback off of that.
• 23:07And as long as there isn't a stability issue,
• 23:09there's no extra cost.
• 23:11As long as those go routine
• 23:12for other clinic sites,
• 23:14we can set up dedicated careers if necessary.
• 23:16That actually ended up being far cheaper
• 23:18than I thought it was going to be.
• 23:19So the price varies depending
• 23:22on how far they're going and on
• 23:25whether it's a scheduled or a stat,
• 23:28but something that we can set
• 23:30up for dedicated careers and we
• 23:33have done that as well for even a
• 23:35couple of sites over by Greenwich
• 23:38in terms of the collection for
• 23:40that there is we actually have a
• 23:42dedicated research order within EPIC.
• 23:44And so if that's something
• 23:46that you're interested in,
• 23:48just fill out the project request and
• 23:51David or Keen can work with you to go
• 23:53through the details of what's the IRB.
• 23:56How can this get ordered when those
• 23:58research labels get applied to the
• 23:59tube and brought to the main lab,
• 24:01those moved directly to the
• 24:04biorepository from accessioning and
• 24:05you have to type in your HIC number.
• 24:07So that's how we then say this
• 24:09specimen belongs to your study
• 24:11versus somebody else and then
• 24:12we follow the appropriate SFP
• 24:14based off of that designation.
• 24:17Yeah. Thanks Diane for Diane has
• 24:20you know put a you know chat
• 24:23a message on the chat.
• 24:24Yes, the how to access the site,
• 24:26you know so we just did that and actually
• 24:30if you just search under Google,
• 24:32is that why I sent by repository,
• 24:34it will show up.
• 24:35It would link you to the site.
• 24:37It is under school, year, school.
• 24:38I wasn't asking about the site.
• 24:40I was asking about the recording.
• 24:42Yeah. So the we'll we'll put a link
• 24:43to the recording and the presentation
• 24:45on on that website for you.
• 24:47Thank you. And by repository
• 24:49website. Thank you
• 24:50exactly. Yeah. It'll be a new link
• 24:53that they'll add on hopefully by
• 24:55my guess would be by Thursday.
• 24:57They're usually pretty quick.
• 24:58Understood. Thanks. Yep,
• 25:03other question, sorry. I have
• 25:05one more more question for you
• 25:08regarding archival tissue
• 25:10that's already been collected.
• 25:12Is there a mechanism by which we
• 25:14can request specific like a specific
• 25:17patient or a specific sort of
• 25:20specific pathology that we kind of
• 25:23point out from from clinical sort of
• 25:26record review or is this more like
• 25:28of a broad kind of a broad platform
• 25:30like saying oh you know we want a
• 25:32liver tumor or something like this.
• 25:35Yes, I mean I can take this question.
• 25:38I think wait will tell you,
• 25:39you know if you want,
• 25:41yes in the way there is a way to do
• 25:45that because we just want to need
• 25:47to know what exactly what's your
• 25:50you know what is your need right.
• 25:52Because we want to know is you are certain,
• 25:55you know you as you mentioned the
• 25:56minus then is like you want to search
• 25:59a certain specific patients material
• 26:00and then we can just work with you and
• 26:02then identify those tissue and the
• 26:04specimen assume and you know you have
• 26:07the IRB cover that because otherwise
• 26:09you know we won't be able to go to
• 26:12specific patient without adequate IRP.
• 26:15We can give you a generous stuff we cannot
• 26:17right to give you a specific patient.
• 26:19But If however if you have your IRP,
• 26:22so that's why you know when
• 26:23we to show the flow chart,
• 26:24we know we have an IRP and then we
• 26:26can help you to identify those tissue
• 26:28specimen and then certainly we'll see
• 26:30what's available and then you can get access.
• 26:32So I advice the way to do it,
• 26:34it costs you nothing is you just go
• 26:36to the website, there is a request.
• 26:38The Red Cap site is very,
• 26:40you know, very straightforward.
• 26:42You click that give you,
• 26:44you know give us your contact
• 26:46information and one of you know
• 26:48either King or David will talk,
• 26:49will will actually contact you
• 26:51and then you can explain to them
• 26:54the details what you want.
• 26:56So wait, did you have anything to add?
• 26:59Yeah. So yeah, I agree with all of that.
• 27:01And so whether you have an existing list
• 27:04of patients or a clinic or a disease type,
• 27:06all of those are potentially
• 27:08options by which we can look at
• 27:11archive tissue and find matches.
• 27:12If it is something that is more
• 27:14prospective of you need fresh tissue
• 27:16moving forward based off of a disease
• 27:18or a clinic or specific patients,
• 27:20then we just have to work
• 27:22through those workflow pieces of
• 27:24IRB who's doing consenting.
• 27:25We can sometimes support some of
• 27:28the consent aspect depending on
• 27:30the the scope and the timelines.
• 27:32But in general,
• 27:33all of them are options and for the
• 27:35specific use case like Doctor Lu mentioned,
• 27:37fill out the request form and
• 27:38we can get a better idea of your
• 27:41project specifically and what the
• 27:43best approach would ultimately be.
• 27:45All right, Thank you.
• 27:47I appreciate it.
• 27:48And then somebody else had a question
• 27:50about PBMC's from healthy donors.
• 27:52So we do not currently bank routinely
• 27:54like a healthy donor pool of blood or PBMC's.
• 27:59It's something that we are looking at doing,
• 28:01the challenge being that healthy donor.
• 28:03The definition varies a little
• 28:04bit sometimes based on the study.
• 28:06But if that is a need to get PBMC's from
• 28:09your definition of healthy individuals,
• 28:12that is something that we can also
• 28:14work through and figure out what would
• 28:15a process look like and how could we
• 28:17acquire those specimens for a specific study.
• 28:25I'm Sandri, I have a question,
• 28:27I'm from data at research department.
• 28:30So a lot of times we get question
• 28:34on like you know who can we get a
• 28:38list of people who have provided
• 28:40who are from the biobank and then
• 28:42like you know data related to them.
• 28:44So is there like you know do you
• 28:48provide access to JDAD so we can
• 28:51know like you know who are because
• 28:54often what happens is like you
• 28:56know we have a requester who is
• 28:58looking for their patients with some
• 29:00condition and then not everybody has
• 29:03some you know in the biobank has a
• 29:07specimen or anything in the biobank.
• 29:08So they are looking for specifically
• 29:11for patients who have some specimens
• 29:13in the biobank and there is
• 29:15more data associated with that.
• 29:17So does JDAT,
• 29:18can JDAT have access to any table
• 29:21at least like you know where we can
• 29:25directly refer and know that you know,
• 29:27OK these are the patients who have
• 29:30some specimens and you know whatever
• 29:33specimen it is like some top level
• 29:36table like you know I'm not going
• 29:38into very detailed you know data, but
• 29:42yeah, so so it's it, it, it's complicated.
• 29:45So technically yes and Rich and a few
• 29:48others already actually have access.
• 29:50All of this is done in our
• 29:52computational health platform that
• 29:54I comanage with Charlie Tory over
• 29:56on the young New Haven health side.
• 29:58So the the information is
• 30:00is there and available.
• 30:02The thing that we are currently
• 30:04doing is that we have the overall
• 30:06biorepository within that some specimens
• 30:09are specifically for individual
• 30:10investigator studies where they pay us
• 30:13to acquire and store those samples.
• 30:15And in those cases,
• 30:16it's up to the investigator whether
• 30:19others can access those specimens or not.
• 30:21And so the way that we've interacted
• 30:24with your team in the past for
• 30:26those is that usually we already
• 30:27know the list and so we'll supply
• 30:29the list and say here are the other
• 30:32clinical data metadata that are
• 30:33needed for this list of specimens or
• 30:36individuals either through the data
• 30:38architect group or through Jada.
• 30:40As we continue to add on more
• 30:43publicly banked specimens,
• 30:44the goal is that you will be able to
• 30:46do what you're describing just that
• 30:48our number of publicly accessible
• 30:50already in inventory specimens is
• 30:53somewhat low with the exception
• 30:55of the archive ethology tissues
• 30:57and those do not typically have
• 31:00structured data around them.
• 31:02So those have to be searched
• 31:04through via the path,
• 31:05the pathology portal.
• 31:07But longer term,
• 31:07that is the plan that we will be
• 31:09having more publicly available
• 31:11specimens and by public,
• 31:12I mean Yale accessible specimens and
• 31:15more direct access for you guys to
• 31:17be able to query and see what those are.
• 31:19Okay. Thank you.
• 31:22There's a chatted question from Denise
• 31:26whether some already banked or can we do
• 31:29the prospective collection of samples.
• 31:32I think both question, yes,
• 31:34but it's really, we don't know how
• 31:36to bank every tissue, but I think
• 31:38there's limited collection we have.
• 31:40So that's why I showed you on the slides.
• 31:42You will have some amateur on
• 31:44the tissue side.
• 31:45I think for weight,
• 31:46you know he has a large collection of
• 31:49the existing plasma serum out there
• 31:51and really all you need you know
• 31:55let us know if you make a request
• 31:57from the website and then tell us
• 31:59exactly what you are looking for.
• 32:01We can certainly search the
• 32:03existing collection to see if
• 32:05they can be available for you.
• 32:07And now for the perspectives collection,
• 32:10actually we will sit down to work
• 32:12with you and to build a project in
• 32:14the forward perspective collection.
• 32:17Thank you Doctor Lu, I'm a nephrologist.
• 32:19I'm mostly interested in urine.
• 32:21I'm guessing that's not bang.
• 32:23So we'll probably have to work with
• 32:24you guys because that you know that
• 32:26that's sort of the we would like to
• 32:28collect your and at the time a specific
• 32:30time point in a hospitalization.
• 32:32But I guess that'll require a
• 32:34prospective collection, I guess,
• 32:35right, absolutely.
• 32:37So we we, we do have you know somewhere
• 32:39around 100 urines but they aren't,
• 32:40they were specifically collected for like the
• 32:43amlodipine studies and a couple of others.
• 32:45There is excess.
• 32:45So if they fit your
• 32:46criteria you can use them,
• 32:47but it would be a small number.
• 32:49But yeah,
• 32:50for what you're describing something
• 32:51that we could set up due to perspective
• 32:53we could still do depending on
• 32:55how tight your time window is,
• 32:58you know if it's within 6 to 24
• 33:00hours or something like that versus
• 33:02at 8 hours post hospitalization.
• 33:04That's something where we still might
• 33:05be able to work off of de identified
• 33:08clinical excess specimens with an
• 33:09IRB exemption versus needing to go
• 33:12get a dedicated research specimen
• 33:14with consent at a specific time.
• 33:16So you know again I think there if
• 33:19you submit a request we can talk
• 33:21through what might make the most sense
• 33:23and whether that's something that
• 33:25we could support as excess versus
• 33:27needing a dedicated collection.
• 33:29Thank you.
• 33:30Thank you. You know if you just kind
• 33:33of talk to us and then contact us
• 33:35and we'll find more detail from you
• 33:41and then fed for your comment,
• 33:43you know the the clinical data.
• 33:46So we from the biorepository will typically
• 33:49only supply some of the basic demographics.
• 33:52You know what time was the specimen,
• 33:54how old was the patient sex,
• 33:57race, ethnicity.
• 33:59And then if we triggered that on
• 34:01specific criteria like you said,
• 34:03we want you to find patients with
• 34:06a B&C and get the specimen.
• 34:08We would tell you,
• 34:09you know if that was triggering
• 34:11on a creatinine over the one,
• 34:13then we would give you be able
• 34:14to give you the creatinine back
• 34:15more expansive data requests.
• 34:16Those are what we would refer to
• 34:19jade abs and then we would supply
• 34:20them with the list and that's only
• 34:22limited by you know what data are
• 34:25available in epic and figuring out,
• 34:27you know how do you summarize those data.
• 34:29So if you want their creatinine
• 34:31from the hospitalization,
• 34:32do you want their first or the
• 34:34average of their creatinines
• 34:35in the first six hours or every
• 34:37creatinine from the hospitalization.
• 34:39But something where we would have
• 34:40you submit a then a J dot request
• 34:42and we would work with them to
• 34:44pair the clinical data to the
• 34:46biospecimens but get that more
• 34:47detailed information from their team.
• 34:49Got it. And do people normally do
• 34:51that via like submitting a red,
• 34:52like a red cap or like some like, you know,
• 34:55a list of variables, something like this.
• 34:57Yeah. Yep.
• 34:58It's a Helix submission or some area.
• 35:00I'm not sure if you've got the,
• 35:01it might have changed names,
• 35:02but there's a if you submit it to us, we've.
• 35:05Yeah, Helix's request.
• 35:06So if you submit it to us and
• 35:08tell us you need that data,
• 35:09we can help you with getting
• 35:11that other request subsequently
• 35:12submitted to the JDAT group.
• 35:14Got it, got it.
• 35:15Thank you.
• 35:17Another chatted question from Dr.
• 35:19Kai, I I think we have some lung
• 35:25normal healthy lung tissue can.
• 35:27OK can can you answer the question or.
• 35:31OK, so now I got the answer you
• 35:33know King's text me we have a more
• 35:36than 30 normal lung tissue and more
• 35:38than 60 Co with a lung tissue.
• 35:41So Dr. Kai, did I answer a question?
• 35:45Thank you.
• 35:46OK. So
• 35:56any other questions, comments.
• 36:07Well thank you all very much.
• 36:08We can Doctor Lu and I can stick
• 36:10around for a few more minutes
• 36:11if anybody thinks of anything.
• 36:12I do want to since Andreas is on,
• 36:14do you want to highlight some of his
• 36:16work early on in this project for
• 36:18helping with some of the initial setup
• 36:20of the biorepository data feeds and
• 36:23tracking especially during the COVID
• 36:25times as well as Keen for all of her
• 36:27help on the on the projects as well.
• 36:29The red cap form is probably the
• 36:31best way to contact us just to make
• 36:33sure that no requests get dropped.
• 36:35Dave and Keen usually check the
• 36:37new requests a couple of times per
• 36:40week and so at most it would be,
• 36:42you know days to a week maximum before
• 36:44you should be hearing back from us.
• 36:46And if there's anything you we can
• 36:48help out with, just let us know.
• 36:50Yeah, I'm sorry. I could just that
• 36:53you know David just you know wait
• 36:56that I could just what the wait just
• 36:59said we are here to help you and
• 37:01even the things we haven't mentioned
• 37:03doesn't mean we cannot support you.
• 37:06Basically you just come contact us
• 37:09and our goal is really to provide us
• 37:12support for for your human tissue,
• 37:16human samples, you know like both
• 37:19liquid or solid tissue related research.
• 37:22OK we're here to help you.
• 37:24I think you can really just type of
• 37:28e-mail you know through the website
• 37:30and then we'll can we can have the
• 37:32conversation and see how we can support
• 37:34you Anything potentially is possible, right.
• 37:39All right.
• 37:39Just we said we'll be here for a
• 37:42few minutes if you know I hope
• 37:44you know thanks for your coming.
• 37:46So we looking forward to working with you.
• 37:48Sorry,
• 37:50I guess if you have a few minutes,
• 37:50I have one more question
• 37:54for you know, prospective sample
• 37:56collections. Are you able
• 37:57to aliquot and freeze them,
• 37:59you know, in case the team
• 38:00can't show up within seconds?
• 38:01Like can you hold them in your
• 38:03freezer for like 1214 hours?
• 38:04Yeah, Yep. And and we don't charge
• 38:06the extra pull fee for those.
• 38:08And we've also done somewhere,
• 38:09you know, over 2 weeks,
• 38:11we collected a series of patients and
• 38:12we just stick them in a rack in the
• 38:14freezer and then you just come pick them up.
• 38:16And the that fee to pull
• 38:18specimens out is really of okay.
• 38:20We've been storing these over six months
• 38:22and you're not taking all of them.
• 38:23You're taking one from that plate and two
• 38:25from that plate and three from this plate.
• 38:27That's when we charge that extra fee.
• 38:29Otherwise,
• 38:29if it's a temporary storage of a,
• 38:31you know, couple of days to even a month,
• 38:36especially if it's just pulling the bulk,
• 38:38here is the whole plate of
• 38:39specimens that belong to you.
• 38:41We've absolutely got that capacity and
• 38:42something that we do very frequently
• 38:45and and to set that
• 38:46up is sort of through the red cap form.
• 38:48If you wanted to set up a collection like
• 38:49that with aliquotting and freezing and
• 38:51stuff like that obviously would pay for it.
• 38:53But Yep. And all the service charges for
• 38:55that are on the site and we can give you
• 38:58depending on the SOPA more specific quote.
• 39:00So like the the current Aliquot
• 39:02charges to get a parent tube and
• 39:04put it in three Aliquot tubes.
• 39:07If you say, hey,
• 39:08I just want that in a single aliquot tube,
• 39:11then it's 1/3 of a unit.
• 39:12So we wouldn't charge you the whole price
• 39:14if it goes into six tubes or two into five,
• 39:17but those kind of shift or adjust based off
• 39:19of those units that we charge it off of,
• 39:21same with the storage fee.
• 39:23So for long term storage that's based
• 39:25off of one of our units over five years.
• 39:28If you're doing it for you know
• 39:31over that month they're doing the
• 39:33individuals kind of spread out and
• 39:34you only want to do it for a year,
• 39:35it's going to be part of that
• 39:36fee rather than that whole cost.
• 39:38So that those are all based off of
• 39:39the unit and we can get you more
• 39:41details on that based off of the
• 39:42SOP we would ultimately write up.
• 39:45Thank you.
• 39:46Yeah,
• 39:57great. Doctor Lu, once you hear back on
• 40:00the link for the recording, just let.
• 40:03Me and I guess probably keen know
• 40:04and then we can work with the the
• 40:06web people to get it uploaded.
• 40:08We've also got the updated combined price
• 40:10list to update on the site too now.
• 40:12So we'll get that done at the same time.
• 40:14Good. Thank you.
• 40:15And Renee is here actually retake
• 40:16the taking care of all this
• 40:18recording and upload everything.
• 40:20All right. That's great.
• 40:22Yeah. All right. Thanks Wade.
• 40:24And you know, thanks everyone
• 40:26for coming and you know,
• 40:28I think we can handle the session.
• 40:33Alright. Thank you. Thank you. Bye, bye.