Gene List and Mouse Production Coordination · Planning production Tracking production Everything...
Transcript of Gene List and Mouse Production Coordination · Planning production Tracking production Everything...
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Gene List and Mouse Production Coordination
VivekIyer, WTSI
IKMC kickoff
29 Sept 2011
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Who are we
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Who are we Our software
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Who are we Our software
IMPC
participants
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Who are we Our software
IMPC
participants
Planning production
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Who are we Our software
IMPC
participants
Planning production
Tracking production
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Who are we Our software
IMPC
participants
Planning production
Tracking production
Everything else
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Our software
ts
Everything
Who are we
IMPC
participan
Tracking production else
Planning production
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Who are we Our software
IMPC
participants
Planning production
Tracking production
Everything else
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ARE WE
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MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
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MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
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MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
Relevant Experience:
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MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
Relevant Experience:IKMC ES Cell reporting
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MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
Experience:EUCOMM Mouse production tracking
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MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
Experience:
Remit inside KOMP2:
Production tracking and coordination
Statuses and dates
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MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
Experience:
Remit inside KOMP2:
Production tracking and coordination
Statuses and dates
Extension in the context of the IMPC
Assist initial mouse production planning
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MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
Our software
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MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
Software is planned and built around:
iMits – production planning / tracking
DCCDB – phenotype data central / analysis
Phenotype staging area (QC)
Data Viewing and Analysis Uis
IMPC Portal – entry-point mouse integration
EBI integration into everything (Human)
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MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
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MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
Everything following: accessible via iMits
Web pages, computer,
IMPC portal (via biomarts) where suitable
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MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
Everything following: accessible via iMits
Web pages, computer,
IMPC portal (via biomarts) where suitable
Currently:
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MPI2 - KOMP2 data coord - EBI, Harwell, WTSI iMits production planning / tracking Everything following: accessible via iMits
Web pages, computer, IMPC portal (via biomarts) where suitable
Currently: tracks mouse production
Imminent release: (next week) Records / reports planning for mouse production
Already running to provide interim reports!
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MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
IMPC
participants
Planning production
Tracking production
Everything else
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Planning production
Tracking production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
IMPC
participants
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MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
IMPC participants
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MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
IMPC participants
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Planning production
Tracking production
Everything else
IMPC participants
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
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Planning production
Tracking production
Everything else
IMPC participants
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
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Planning production
Tracking production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
Consortia
BaSH
DTCC
DTCC-KOMP
EUCOMM-EUMODIC
Helmholtz GMC
JAX
MARC
MGP
MGP-KOMP
Monterotondo
MRC
NorCOMM2
Phenomin
RIKEN BRC
Centres
APN
BCM (BaSH)
CNB
DTCC (DTCC)
HMGU (Helmholtz GMC)
ICS (Phenomin)
JAX (JAX)
MARC (MARC)
Monterotondo (Monterotondo)
MRC – Harwell (BaSH, MRC)
Oulu
RIKEN BRC - RikenBRC
TCP (NorCOMM2)
UCD
WTSI (BaSH, MGP)
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Planning production
Tracking production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
Consortia
BaSH(KOMP2)
DTCC (KOMP2)
DTCC-KOMP
EUCOMM-EUMODIC
Helmholtz GMC
JAX (KOMP2)
MARC
MGP
MGP-KOMP
Monterotondo
MRC
NorCOMM2
Phenomin
RIKEN BRC
Centres
APN
BCM (BaSH)
CNB
DTCC (DTCC)
HMGU (Helmholtz GMC)
ICS (Phenomin)
JAX (JAX)
MARC (MARC)
Monterotondo (Monterotondo)
MRC – Harwell (BaSH, MRC)
Oulu
RIKEN BRC - RikenBRC
TCP (NorCOMM2)
UCD
WTSI (BaSH, MGP)
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Planning production
Tracking production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
Consortia
BaSH(KOMP2)
DTCC (KOMP2)
DTCC-KOMP
EUCOMM-EUMODIC
Helmholtz GMC
JAX (KOMP2)
MARC
MGP
MGP-KOMP
Monterotondo
MRC
NorCOMM2
Phenomin
RIKEN BRC
Centres
APN
BCM (BaSH)
CNB
DTCC (DTCC)
HMGU (Helmholtz GMC)
ICS (Phenomin)
JAX (JAX)
MARC (MARC)
Monterotondo (Monterotondo)
MRC – Harwell (BaSH, MRC)
Oulu
RIKEN BRC - RikenBRC
TCP (NorCOMM2)
UCD
WTSI (BaSH, MGP)
30 users …
relationship with users
from MARC and Riken?
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MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
s11 consortia
11 prod cntrs
Planning production
Tracking production
Everything else
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11 consortia
11 prod cntrs
Tracking production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
s Planning production
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11 consortia
11 production centres
Tracking production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
Planning production 1. Big gene list: IKMC (MGI)
2. Append with all known Mis / Mice
3. Add Expressions of interest from all consortia …
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11 consortia
11 production centres
Tracking production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
Planning production 1. Big gene list: IKMC (MGI)
2. Append with all known Mis / Mice
3. Add Expressions of interest from all consortia …
4. Sit back and watch the sparks fly
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iMits production planning / tracking
11 consortia
11 production centres
Tracking production
Everything else
Planning production
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI Mice Mis Gene BaSH Helm JAX Phenomin Etc …
Anapc11
Arhgap27
UCD GLT
C4bp
Aldh3b1
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iMits production planning / tracking
11 consortia
11 production centres
Tracking production
Everything else
Planning production
UCDGLT
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI Mice Mis Gene BaSH Helm JAX Phenomin Etc …
Anapc11
Arhgap27
C4bp
Aldh3b1
Consortia
Pro
du
cts,
et
c
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iMits production planning / tracking
11 consortia
11 production centres
Tracking production
Everything else
Planning production
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI Mice Mis Gene BaSH Helm JAX Phenomin Etc …
Anapc11 Interest Interest
Arhgap27 Interest Interest
UCD GLT C4bp Interest
Aldh3b1 Interest
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iMits production planning / tracking
11 consortia
11 production centres
Tracking production
Everything else
Planning production
Arhgap27 Interest Interest
LT C4bp Interest
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI Mice Mis Gene BaSH Helm JAX Phenomin Etc …
Anapc11 Interest Interest
UCD G
Aldh3b1 Interest
WAIT for xmonths Resolution time
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iMits production planning / tracking
11 consortia
11 production centres
Tracking production
Everything else
Planning production
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI Mice Mis Gene BaSH Helm JAX Phenomin Etc …
Anapc11 Conflict Conflict
Arhgap27 Conflict Conflict
UCD GLT C4bp Declind: GLT Mouse
Aldh3b1 Assignd
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iMits production planning / tracking
11 consortia
11 production centres
Tracking production
Everything else
Planning production
ct Conflict
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI Mice Mis Gene BaSH Helm JAX Phenomin Etc …
Anapc11 Conflict Conflict
Arhgap27 Confli
UCD GLT C4bp Declind: GLT Mouse
Aldh3b1 Assignd
Chat / call
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iMits production planning / tracking
11 consortia
11 production centres
Tracking production
Everything else
Planning production
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI Mice Mis Gene BaSH Helm JAX Phenomin Etc …
Anapc11 Conflict Conflict
Arhgap27 Conflict Conflict
UCD GLT C4bp
LOOK Declind: GLT Mouse
Aldh3b1 Assignd
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iMits production planning / tracking
11 consortia
11 production centres
Tracking production
Everything else
Planning production
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI Mice Mis Gene BaSH Helm JAX Phenomin Etc …
Anapc11 Conflict Conflict
Arhgap27 Conflict Conflict
UCD GLT C4bp Declind: GLT Mouse
Aldh3b1 Assignd
Go for it
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iMits production planning / tracking
11 consortia
11 production centres
Tracking production
Everything else
Planning production
Arhgap27 Conflict Conflict
C4bp Declind:GLTMouse
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI Mice Mis Gene BaSH Helm JAX Phenomin Etc …
Anapc11 Conflict Conflict
UCD GLT
Aldh3b1 Assignd
Mechanics of conflict resolution are being developed
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11 consortia
11 production centres
Tracking production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
Planning production
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11 consortia
11 production centres
Tracking production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
Planning production
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11 consortia
11 production centres
Tracking production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
Planning production
All actions / reports are inside iMits
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11 consortia
11 production centres
Tracking production
Everything else
All actions happen inside iMits
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
Planning production
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11 consortia
11 production centres
Tracking production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
Planning production
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11 consortia
11 production centres
Tracking production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
Planning production
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11 consortia
11 production centres
Tracking production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
Planning production
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MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
s11 consortia
11 prod cntrs
IMPC planned genes
1687 Total
1234 OK
51 Chat
238 Look
Tracking production
Everything else
![Page 54: Gene List and Mouse Production Coordination · Planning production Tracking production Everything else DTCC MPI2 - KOMP2 data coord - EBI, Harwell, WTSI iMits production planning](https://reader036.fdocuments.us/reader036/viewer/2022062607/6021ee7ad4f132754d1307fc/html5/thumbnails/54.jpg)
11 consortia
11 prod cntrs
Planning production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
s Tracking production
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11 consortia
11 prod cntrs
Planning production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
s Tracking production
Mouse Line
STATUS
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11 consortia
11 prod cntrs
Planning production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
s Tracking production
We store nuggets of data on the mouse line
We infer the status and change date
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11 consortia
11 prod cntrs
Planning production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
s Tracking production
EPD Mi date
Male Chimeras
tm1a QC test1 QC test2 …
Cre crosses
Tm1b QC test1 QC test1
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11 consortia
11 prod cntrs
Planning production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
s Tracking production
EPD Mi date
Male Chimeras
tm1a QC test1 QC test2 …
Cre crosses
Tm1b QC test1 QC test1
11-Dec-2011 MI Plan Assigned
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11 consortia
11 prod cntrs
Planning production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
s Tracking production
EPD Mi date
EPD123 11 Jan 2012
Male Chimeras
tm1a QC test1 QC test2 …
Cre crosses
Tm1b QC test1 QC test1
11-Jan-2012 MI In progress
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11 consortia
11 prod cntrs
Planning production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
s Tracking production
EPD Mi date
EPD123 11 Jan 2012
Male Chimera
4
tm1a QC test1 QC test2 …
Cre crosses
Tm1b QC test1 QC test1
12-Mar-2012 Chimeras obtnd
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11 consortia
11 prod cntrs
Planning production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
s Tracking production
EPD Mi date
EPD123 11 Jan 2012
Male Chimera
4
Tm1a Test1 pass Test2 pass …
Cre crosses
Tm1b QC test1 QC test1
12-Apr-2012 Genotype Cfmd
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11 consortia
11 prod cntrs
Planning production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
s Tracking production
EPD Mi date
EPD123 11 Jan 2012
Male Chimera
4
Tm1a Test1 pass Test2 pass …
Cre crosses
5
Tm1b QC test1 QC test1
12-May-2012Creexc starts
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11 consortia
11 prod cntrs
Planning production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
s Tracking production
EPD Mi date
EPD123 11 Jan 2012
Male Chimera
4
Tm1a Test1 pass Test2 pass …
Cre crosses
5
Tm1b Test1 pass Test1 pass
12-Jun-2012 Mod allele confd
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11 consortia
11 prod cntrs
Planning production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
s Tracking production
EPD Mi date
EPD123 11 Jan 2012
Male Chimera
4
Tm1a Test1 pass Test2 pass …
Cre crosses
5
Tm1b Test1 pass Test1 pass
12-Jul-2012 Mod allele confd
…
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11 consortia
11 prod cntrs
Planning production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
s Tracking production
Prod centre
Colony name
To MI started
To Chimera
To tm1a Confirm
To Creexc start
To tm1b confirm
WTSI MAAH 1 mth 1mth 2 mth 1 mth 2 mth
BCM BCM-EPD123
2 mth 1 mth 1 mth 3 mth 1 mth
WTSI MBBL 1mth 6mth
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11 consortia
11 prod cntrs
Planning production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
s Tracking production
Prod centre
Colony name
To MI started
To Chimera
To tm1a Confirm
To Creexc start
To tm1b confirm
WTSI MAAH 1 mth 1mth 2 mth 1 mth 2 mth
BCM BCM-EPD123
2 mth 1 mth 1 mth 3 mth 1 mth
WTSI MBBL 1mth 6mth
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11 consortia
11 prod cntrs
Planning production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
s Tracking production
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11 consortia
11 prod cntrs
Planning production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
s Tracking production
Type at the web page OR Update directly from your own tracking systems with RESTful web services
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11 consortia
11 prod cntrs
Planning production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
s Tracking production
EUCOMM Mouse production
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11 consortia
11 prod cntrs
Planning production
Everything else
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
s Tracking production
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MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
s11 consortia
11 prod cntrs
IMPC planned genes
1687 Total
1234 OK
51 Chat
238 Look
GLT Mice (EUCOMM)
307 WTSI
92 CNR
120 MRC Harwell
114 ICS
71 HMGU
Everything else
![Page 72: Gene List and Mouse Production Coordination · Planning production Tracking production Everything else DTCC MPI2 - KOMP2 data coord - EBI, Harwell, WTSI iMits production planning](https://reader036.fdocuments.us/reader036/viewer/2022062607/6021ee7ad4f132754d1307fc/html5/thumbnails/72.jpg)
iMits production planning / tracking
s11 consortia
11 prod cntrs
IMPC planned genes
1687 Total
1234 OK
51 Chat
238 Look
GLT Mice (EUCOMM)
307 WTSI
92 CNR
120 MRC Harwell
114 ICS
71 HMGU
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
Everything else
![Page 73: Gene List and Mouse Production Coordination · Planning production Tracking production Everything else DTCC MPI2 - KOMP2 data coord - EBI, Harwell, WTSI iMits production planning](https://reader036.fdocuments.us/reader036/viewer/2022062607/6021ee7ad4f132754d1307fc/html5/thumbnails/73.jpg)
iMits production planning / tracking
s11 consortia
11 prod cntrs
IMPC planned genes
1687 Total
1234 OK
51 Chat
238 Look
GLT Mice (EUCOMM)
307 WTSI
92 CNR
120 MRC Harwell
114 ICS
71 HMGU
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
Everything else
iMits: Plans
Tracking QC
KOMP2 - IMPC
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iMits production planning / tracking
s11 consortia
11 prod cntrs
IMPC planned genes
1687 Total
1234 OK
51 Chat
238 Look
GLT Mice (EUCOMM)
307 WTSI
92 CNR
120 MRC Harwell
114 ICS
71 HMGU
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
Everything else
Targrep ES Cells
Molecular structure
QC
iMits: Plans
Tracking QC
IDCC - IKMC KOMP2 - IMPC
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iMits production planning / tracking
s11 consortia
11 prod cntrs
IMPC planned genes
1687 Total
1234 OK
51 Chat
238 Look
GLT Mice (EUCOMM)
307 WTSI
92 CNR
120 MRC Harwell
114 ICS
71 HMGU
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
Everything else
Targrep ES Cells
Molecular structure
QC
iMits: Plans
Tracking QC
KOMP2 - IMPC
Es cell ids
IDCC - IKMC
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iMits production planning / tracking
s11 consortia
11 prod cntrs
IMPC planned genes
1687 Total
1234 OK
51 Chat
238 Look
GLT Mice (EUCOMM)
307 WTSI
92 CNR
120 MRC Harwell
114 ICS
71 HMGU
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
Everything else
Targrep ES Cells
Molecular structure
QC
iMits: Plans
Tracking QC
DCCDB Phenotypes
QC Analysis
KOMP2 - IMPC
Es cell ids
IDCC - IKMC
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iMits production planning / tracking
s11 consortia
11 prod cntrs
IMPC planned genes
1687 Total
1234 OK
51 Chat
238 Look
GLT Mice (EUCOMM)
307 WTSI
92 CNR
120 MRC Harwell
114 ICS
71 HMGU
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
Everything else
Targrep ES Cells
Molecular structure
QC
iMits: Plans
Tracking QC
DCCDB Phenotypes
QC Analysis
KOMP2 - IMPC
Es cell ids Mouse
Line IDs
IDCC - IKMC
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iMits production planning / tracking
s11 consortia
11 prod cntrs
IMPC planned genes
1687 Total
1234 OK
51 Chat
238 Look
GLT Mice (EUCOMM)
307 WTSI
92 CNR
120 MRC Harwell
114 ICS
71 HMGU
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
Everything else
Targrep ES Cells
Molecular structure
QC
iMits: Plans
Tracking QC
DCCDB Phenotypes
QC Analysis
KOMP2 - IMPC
Es cell ids Mouse
Line IDs
QC integration
IDCC - IKMC
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iMits production planning / tracking
s11 consortia
11 prod cntrs
IMPC planned genes
1687 Total
1234 OK
51 Chat
238 Look
GLT Mice (EUCOMM)
307 WTSI
92 CNR
120 MRC Harwell
114 ICS
71 HMGU
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
Everything else
Targrep ES Cells
Molecular structure
QC
iMits: Plans
Tracking QC
DCCDB Phenotypes
QC Analysis
KOMP2 - IMPC
Es cell ids Mouse
Line IDs
QC integration
Reporting allele structure: IKMC project pages
IDCC - IKMC
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iMits production planning / tracking
s11 consortia
11 prod cntrs
IMPC planned genes
1687 Total
1234 OK
51 Chat
238 Look
GLT Mice (EUCOMM)
307 WTSI
92 CNR
120 MRC Harwell
114 ICS
71 HMGU
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
Everything else
Targrep ES Cells
Molecular structure
QC
iMits: Plans
Tracking QC
DCCDB Phenotypes
QC Analysis
KOMP2 - IMPC
Es cell ids Mouse
Line IDs
QC integration
IKMC Martsearch Portal
IDCC - IKMC
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iMits production planning / tracking
s11 consortia
11 prod cntrs
IMPC planned genes
1687 Total
1234 OK
51 Chat
238 Look
GLT Mice (EUCOMM)
307 WTSI
92 CNR
120 MRC Harwell
114 ICS
71 HMGU
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
Everything else
Targrep ES Cells
Molecular structure
QC
iMits: Plans
Tracking QC
DCCDB Phenotypes
QC Analysis
KOMP2 - IMPC
Es cell ids Mouse
Line IDs
IMPC Portal?
IDCC - IKMC
![Page 82: Gene List and Mouse Production Coordination · Planning production Tracking production Everything else DTCC MPI2 - KOMP2 data coord - EBI, Harwell, WTSI iMits production planning](https://reader036.fdocuments.us/reader036/viewer/2022062607/6021ee7ad4f132754d1307fc/html5/thumbnails/82.jpg)
MPI2 - KOMP2 data coord - EBI, Harwell, WTSI
iMits production planning / tracking
s11 consortia
11 prod cntrs
IMPC planned genes
1687 Total
1234 OK
51 Chat
238 Look
GLT Mice (EUCOMM)
307 WTSI
92 CNR
120 MRC Harwell
114 ICS
71 HMGU
Targrep iMits
DCCDB
![Page 83: Gene List and Mouse Production Coordination · Planning production Tracking production Everything else DTCC MPI2 - KOMP2 data coord - EBI, Harwell, WTSI iMits production planning](https://reader036.fdocuments.us/reader036/viewer/2022062607/6021ee7ad4f132754d1307fc/html5/thumbnails/83.jpg)
Acknowledgements
• KOMP2 data coord – Bill Skarnes, Paul Flicek, Helen Parkinson, Ann-Marie Mallon,
Dave Melvin
• T87 Development (EU – IDCC grant) for the IKMC – Darren Oakley – AsfandQazi
• IDCC collaborators – Martin Ringwald, Jeremy Mason – Damian Smedley (EMMA)
• External Collaborators – Jared Rapp (UCD)
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ISSUE 0
• Users – Operating at “arm’s length” from a few consortia • MARC
• Riken BRC
– We need to be put in touch with people putting data into the system. • Ex - EUCOMM partners EASY
– Action: can I get operational contacts at this meeting?
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ISSUE 1
• How to record that group has “backed off” – Clean data,
• Vs
– Record of prior interest
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ISSUE 1 Mice Mis Gene BaSH Helm JAX Phenomin Etc …
Anapc11 Conflict Conflict
Arhgap27 Conflict Conflict
UCD GLT C4bp Declind: GLT Mouse
Aldh3b1 Assignd
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ISSUE 1 Mice Mis Gene BaSH Helm
?
JAX Phenomin Etc …
Anapc11 Declind -conflict
Assignd
Arhgap27 Conflict Conflict
UCD GLT C4bp Declind: GLT Mouse
Aldh3b1 Assignd
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ISSUE 1 Mice Mis Gene BaSH Helm
?
JAX Phenomin Etc …
Anapc11 Assignd
Arhgap27 Conflict Conflict
UCD GLT C4bp Declind: GLT Mouse
Aldh3b1 Assignd
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ISSUE 1
• Very messy right now
• Data changing
• Process is being revised
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ISSUE 1
Suggestion: Take the existing gene lists / allocations as indications, subject to some change
Wait till the draft system emerges (late next week)
LOOK AROUND THE SYSTEM
Talk to us
![Page 92: Gene List and Mouse Production Coordination · Planning production Tracking production Everything else DTCC MPI2 - KOMP2 data coord - EBI, Harwell, WTSI iMits production planning](https://reader036.fdocuments.us/reader036/viewer/2022062607/6021ee7ad4f132754d1307fc/html5/thumbnails/92.jpg)
ISSUE 2
• Mouse line statuses after tm1a – Modified allele creation
– Phenotyping milestones
• Data nuggets per transition
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EPD Mi date
EPD123 11 Jan 2012
Male Chimera
4
Tm1a Test1 pass Test2 pass …
Cre crosses
5
Tm1b Test1 pass Test1 pass
12-Jul-2012 Mod allele confd
…
![Page 94: Gene List and Mouse Production Coordination · Planning production Tracking production Everything else DTCC MPI2 - KOMP2 data coord - EBI, Harwell, WTSI iMits production planning](https://reader036.fdocuments.us/reader036/viewer/2022062607/6021ee7ad4f132754d1307fc/html5/thumbnails/94.jpg)
EPD Mi date
EPD123 11 Jan 2012
Male Chimera
4
Tm1a Test1 pass Test2 pass …
Cre crosses
5
Tm1b Test1 pass Test1 pass
12-Jul-2012 Mod allele confd
…
![Page 95: Gene List and Mouse Production Coordination · Planning production Tracking production Everything else DTCC MPI2 - KOMP2 data coord - EBI, Harwell, WTSI iMits production planning](https://reader036.fdocuments.us/reader036/viewer/2022062607/6021ee7ad4f132754d1307fc/html5/thumbnails/95.jpg)
ISSUE 2
• Action
– We are preparing a list of statuses / data internally
– We will forward to each production centre shortly