John Murray
@jisaacmurray
Followers
503
Following
3K
Media
53
Statuses
572
Father, husband, student of genome divination.
Philadelphia
Joined May 2013
Asking for an extension to your NIH grant ESI status is easy in eRA commons. Look into it! Lots of eligible reasons to extend, including having kids.
Extended my ESI status for 24 months since I’ve had 2 kids during my eligibility. 🤰🤰Phew. Not that I don’t have total faith in this R01 revision due next week lol 😝 For anyone wondering, it’s very easy to request in era commons
0
2
2
New https://t.co/dctBqTWJjc chapter! With Nuria @flames66140 and @rich_j_p we wrote Neurogenesis in C. elegans, now in Genetics: https://t.co/w7CMk5rLL8 We discuss neuron development specifically, but do have a look if you think about acquisition of cell identity more generally
academic.oup.com
Abstract. Animals rely on their nervous systems to process sensory inputs, integrate these with internal signals, and produce behavioral outputs. This is e
1
17
73
Same cell type, same trans environment, same sequence—different expression pattern. Locking in of stochastic differences into epigenetic memory. I just think this is so cool!
Through generation of resistant colonies from a clonal population of cells containing this dual reporter construct, we found that this memory encoding occurs in cis. (6/9)
7
17
94
Penn's Department of Genetics has several new tenure-track assistant professor openings. Please help spread the word! https://t.co/I4Ljo9WYu2
2
90
100
Excited to launch our cloud-based image analysis platform today at https://t.co/sXb3CPV5B4! Analyze and interact with your data, all in the browser. Follow sign-up instructions to request an account.
11
141
641
Drives me nuts that @peacock cuts away from the middle half of the 800 and 1500 free for commercials on their Olympic trials coverage - that is actually the part of the race where the race is often won or lost. It’s not that long, show us the whole race!
0
0
2
Are you a C. elegans researcher wishing to learn cutting-edge techniques or a non C. elegans researcher wishing to get introduced in the system? Join us! Less than 10 days to register for the EMBO C. elegans course at
embl.org
Excited to co-organize the 2nd C. elegans EMBO course @EMBOevents @EMBLEvents @embl with great faculty @wormbuilder @ShahLabUCLA @m_barkoulas , @eboyden3 , @SenguptaLab, @DCheerambathur, & many others! Apply at
0
6
10
#TAGC24 kicking off with some truly inspiring awardees including the worm community’s own Paul Sternberg receiving the Thomas Hunt Morgan medal. Looking forward to 4 days of great science with old and new friends!
5
1
12
1/ Happy to share that our work with @arjunrajlab is finally out: https://t.co/e3JzB2DkXE! We use clone barcoding to identify intrinsic factors predicting successful reprogramming to pluripotency. The original thread is below, but we also wanted to highlight some new findings.
cell.com
Only rare somatic cells can successfully reprogram into iPSCs. We identified a molecular state marking this rare subset in human fibroblasts. This state persists across several divisions but can...
1/ Excited (and relieved) to share our new work with @arjunrajlab on identifying intrinsic factors marking rare somatic cells “primed” to become pluripotent stem cells before reprogramming even starts @CAMBUpenn, @PennGenetics, @PennEpiInst, @pennbioeng. https://t.co/0NOqi9zfKm
5
13
47
13/13 The data are available in VisCello format for visualization or further analysis to anyone who is interested https://t.co/UwIygzkEm1. We hope they provide a useful resource for the community in dissecting mechanisms of evolutionary change in expression patterns.
0
0
3
12/13 While this post has highlighted broad trends, the dataset identifies many examples of genes with interesting patterns of divergence, including in expression timing (heterochrony) and differential usage of paralogous genes in the two species.
2
0
4
11/13 The modest number of shared progenitor markers are highly enriched for known lineage-specifying TFs. Most of these have nearly identical expression in the two species, suggesting that the conserved lineage largely results from conserved regulatory networks.
2
0
4
10/13 This trend is especially striking in progenitors; the earliest progenitors tend to have many non-1:1 orthologous markers and relatively few shared markers, with non-1:1 markers decreasing and shared markers increasing over developmental time.
1
0
3
9/13 Turning to genes that are not 1:1 orthologs, several interesting patterns emerged. First, a subset of cell types, especially sensory neurons and the somatic gonad precursors, have many more specific markers in both species with complex orthology relationships.
1
0
3
8/13 On average, progenitor cell states appear more divergent at early stages and most similar around the 200-cell stage. However this average masks a high degree of variability in expression conservation over time in different developmental trajectories.
1
0
3
7/13 Comparing cell types, we found the highest conservation of expression in the germline, followed by intestine, muscle and skin, while expression of neurons, glia and rectal cells were more variable.
1
1
2
6/13 Genes with conserved expression were enriched for functions associated with development or core cell functions, such as transcription factors, cell cycle genes, and muscle function, while genes involved in neuronal perception and signaling were often more variable.
1
0
3
5/13 Focusing first on ~12,000 1:1 orthologous genes, we found that both breadth and pattern of expression were highly conserved between the species for a large proportion of highly-expressed genes. However genes with weaker expression were less conserved.
1
1
3