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some synthetic phenotypes #3498

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ValWood opened this issue May 3, 2023 · 4 comments
Open

some synthetic phenotypes #3498

ValWood opened this issue May 3, 2023 · 4 comments
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ValWood commented May 3, 2023 •
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PMID:12966087 epistasis with Rhp51
PMID:12966087 epistasis with Rhp51
PMID:11027263 same as hsk1-1312 alone
PMID:20799962 same as rid1-1 alone
PMID:20799962 same as rid2-1 alone
PMID:31833215 same as maf1delta alone
PMID:22140232 same as ssp2delta alone
PMID:22140232 same as ssp2delta alone
PMID:22140232 same as ssp2delta alone
PMID:22140232 same as ssp2delta alone
PMID:22140232 same as ssp2delta alone
PMID:22140232 same as ssp2delta alone

PMID:11226171 same sensitivity as rhp54delta alone
PMID:11226171 same sensitivity as rhp54delta alone

PMID:12196391 same as either single mutant
PMID:12196391 same as either single mutant
PMID:12196391 same as rad3delta alone
PMID:12196391 same as rad3delta alone
PMID:12196391 same as rad3delta alone
PMID:12196391 same as rad3delta alone
PMID:12196391 same as rad26delta alone

PMID:31131414 Southern blot; same as rap1-7A single mutant
PMID:8187760 same as cdc25-22 alone
PMID:8187760 same as cdc2-33 alone

PMID:22279046 same as hsk1-89 alone
PMID:22279046 same as hsk1-89 alone
PMID:22279046 same as hsk1-89 alone
PMID:22279046 same as hsk1-89 alone
PMID:22279046 same as hsk1-89 alone
PMID:22279046 same as hsk1-89 alone
PMID:22279046 same as hsk1-89 alone
PMID:22279046 same as hsk1-89 alone
PMID:22279046 same as hsk1-89 alone

PMID:11676924 qualifier=same_pathway

PMID:12411492 same as plo1-ts35 alone

PMID:10430583 same as rad51delta alone
PMID:10430583 same as rad51delta alone

PMID:25965521 same as brc1delta alone; brc1 epistatic
PMID:25965521 same as brc1delta alone; brc1 epistatic
PMID:25965521 same as brc1delta alone; brc1 epistatic
PMID:25965521 same as brc1delta alone; brc1 epistatic
PMID:25965521 same as brc1delta alone; brc1 epistatic
PMID:25965521 same as mus81delta alone; mus81 epistatic
PMID:25965521 same as mus81delta alone; mus81 epistatic
PMID:25965521 same as mus81delta alone; mus81 epistatic
PMID:25965521 same as mus81delta alone; mus81 epistatic
PMID:25965521 same as mus81delta alone; mus81 epistatic
PMID:25965521 same as mus81delta alone; mus81 epistatic
PMID:25965521 same as mus81delta alone; mus81 epistatic
PMID:25965521 same as mus81delta alone; mus81 epistatic
PMID:25965521 same as mus81delta alone; mus81 epistatic
PMID:25965521 same as mus81delta alone; mus81 epistatic
PMID:25965521 same as mus81delta alone; mus81 epistatic
PMID:25965521 same as mus81delta alone; mus81 epistatic
PMID:25965521 same as mus81delta alone; mus81 epistatic
PMID:25965521 same as mus81delta alone; mus81 epistatic
PMID:25965521 same as mus81delta alone; mus81 epistatic
PMID:25965521 same as mus81delta alone; mus81 epistatic
PMID:25965521 same as either single mutant
PMID:25965521 same as either single mutant
PMID:25965521 same as brc1delta alone; brc1 epistatic
PMID:25965521 same as brc1delta alone; brc1 epistatic
PMID:25965521 same as brc1delta alone; brc1 epistatic
PMID:25965521 same as brc1delta alone; brc1 epistatic
PMID:10805744 same as cdc2delta alone
PMID:2245912 Table 5 no genetic interaction with stf1-1
PMID:2245912 Table 5 no genetic interaction with stf1-1
PMID:11884512 same as rad17 single mutant, epistatic

PMID:29898918 Epistatic genetic interaction (same as mus81delta alone)
PMID:29898918 Epistatic genetic interaction (same as eme1delta alone)
PMID:29898918 Epistatic genetic interaction (same as mus81delta alone)
PMID:29898918 Epistatic genetic interaction (same as mus81delta alone)
PMID:29898918 Epistatic genetic interaction (same as eme1delta alone)

PMID:29898918 Epistatic genetic interaction (same as mus81delta alone)

PMID:28674280 same as snf22delta alone
PMID:28674280 same as snf22delta alone
PMID:28674280 same as snf22delta alone

PMID:9153313 same as rad3delta alone
PMID:9153313 same as rad26delta alone
PMID:9153313 same as crb2delta alone

PMID:27098497 same as without htb1-K119R
PMID:27098497 same as without csn1delta
PMID:27098497 same as without csn5delta
PMID:27098497 same as rhp6delta alone
PMID:27098497 same as rhp6delta alone
PMID:27098497 same as without exo1delta
PMID:27098497 same as without exo1delta
PMID:27098497 same as without exo1+ overexpression

PMID:9372936 same as rae1-167 single mutant
PMID:9372936 same as rae1-167 single mutant

PMID:23211746 same as chk1delta alone
PMID:23211746 same as chk1delta alone
PMID:23211746 same as exo1delta alone
PMID:23211746 same as exo1delta alone
PMID:23211746 same as rad2delta alone
PMID:23211746 same as rad2delta alone

PMID:14654689 same as rad50delta alone
PMID:14654689 same as rad11-D223Y alone
PMID:14654689 same as rad11-D223Y alone

PMID:16252005 same as csn1delta alone
PMID:16252005 same as cdt2delta alone
PMID:16252005 same as ddb1delta alone
PMID:16252005 same as cdt2delta alone
PMID:16252005 same as ddb1delta alone
PMID:16252005 same as pcu4delta alone
PMID:16252005 same as pcu4delta alone
PMID:15485922 same as taz1delta alone
PMID:15485922 same as taz1delta alone

PMID:30451685 Figures 2C, 2D, and Figure 2—figure supplement 2; same as either single mutant
PMID:30451685 Figures 2C, 2D, and Figure 2—figure supplement 2; same as either single mutant
PMID:30451685 Figures 2C, 2D, and Figure 2—figure supplement 2; same as either single mutant

PMID:21099360 same as hsk1-89 alone
PMID:21099360 same as hsk1-89 alone
PMID:21099360 same as hsk1-89 alone
PMID:21099360 30 degrees; same as hsk1-89 alone
PMID:21099360 25 degrees, same as hsk1-89 alone
PMID:21099360 30 degrees; restrictive for hsk1-89 alone
PMID:21099360 30 degrees; same as hsk1-89 alone
PMID:21099360 25 degrees, same as hsk1-89 alone
PMID:21099360 30 degrees; same as hsk1-89 alone
PMID:21099360 25 degrees, same as hsk1-89 alone
PMID:21099360 30 degrees; same as hsk1-89 alone
PMID:21099360 25 degrees, same as hsk1-89 alone

PMID:20140190 same as nbs1-c60-delta alone
PMID:20140190 same as nbs1-c60-delta alone

PMID:19139281 spore viability and DSB clipping in mre11-D65N rad50delta both same as in rad50delta alone

PMID:33788833 same as vps35delta alone
PMID:33788833 same as vps35delta alone

PMID:33788833 same as fsv1delta alone

PMID:33159083 FISH; same as nup132delta alone

PMID:33225241 same as mas5delta alone
PMID:33225241 same as mas5delta alone

PMID:18514516 same as either single mutant
PMID:18514516 same as either single mutant
PMID:18514516 same as either single mutant
PMID:18514516 same as either single mutant
PMID:18514516 same as either single mutant
PMID:18615848 same as swi7-H4 alone, i.e. it's dominant?

PMID:28481910 same as cdc20-M10 alone

PMID:1934126 same as cdc25-22 single mutant
PMID:1934126 same as cdc25-22 single mutant
PMID:1934126 same as cdc25-22 single mutant
PMID:1934126 same as cdc25-22 single mutant

PMID:12861005 same as rad51d alone
PMID:12861005 same as taz1d alone
PMID:12861005 same as taz1d alone
PMID:12861005 same as taz1d alone
PMID:12861005 same as taz1d alone
PMID:12861005 same as taz1d alone
PMID:12861005 same as taz1d alone
PMID:12861005 same as taz1d alone

PMID:17339332 same pathway
PMID:30992049 same as swi1delta alone

PMID:30992049 25 degrees; same as mst1-L344S alone
PMID:30992049 same as nmt81-vid21 alone

PMID:19250904 same as either single mutant
PMID:19250904 same as either single mutant
PMID:19250904 same as either single mutant
PMID:19250904 same as either single mutant
PMID:19250904 same as either single mutant
PMID:19250904 same as either single mutant
PMID:19250904 same as either single mutant
PMID:19250904 same as either single mutant
PMID:19250904 same as either single mutant
PMID:19250904 same as either single mutant

PMID:15155581 Fig 3; same as either single mutant

PMID:33419777 Fig3A-F same result in wild type background
PMID:33419777 Fig 3A-F same result in Wild type background
PMID:33419777 Fig3H same in wild type background
PMID:33419777 Fig 3I same in wild type background

PMID:23260662 same as lsd1-E918 single mutant
PMID:23260662 same as lsd1-E918 single mutant
PMID:23260662 same as lsd1-E918 single mutant
PMID:23260662 same as lsd1-E918 single mutant

PMID:12589755 same as crb2delta alone
PMID:17936710 same as either single mutant
PMID:17936710 same as either single mutant

PMID:18378696 same as rad51delta alone
PMID:18378696 same as either single mutant
PMID:18378696 same as either single mutant
PMID:18378696 same as either single mutant
PMID:18378696 same as nbs1delta alone
PMID:18378696 same as nbs1delta alone
PMID:18378696 same as nbs1delta alone
PMID:18378696 same as nbs1delta alone

PMID:16738311 32 °C; same as without cid12delta

PMID:25015293 same as spt20delta alone
PMID:25015293 same as spt20delta alone
PMID:25015293 same as spt20delta alone

PMID:23671279 same as either single mutant
PMID:23671279 same as cpc2delta alone
PMID:23671279 same as cpc2delta alone
PMID:23671279 same as gcn2delta alone

PMID:9636183 same severity as wee1-50 alone

PMID:8522609 same as cdc2-33 alone
PMID:8522609 same as orb3-167 alone
PMID:8522609 same as orb3-167 alone
PMID:8522609 same as orb3-167 alone
PMID:8522609 same as orb2-34 alone
PMID:8522609 same as orb2-34 alone

PMID:12023299 same as rad51delta alone
PMID:12023299 same as rad51delta alone
PMID:12023299 same as rad51delta alone
PMID:12023299 same as rad51delta alone
PMID:12023299 same as rad51delta alone
PMID:12023299 same as rad51delta alone
PMID:12023299 same as rqh1delta alone

PMID:12023299 same as rad51delta alone
PMID:12023299 same as rad51delta alone
PMID:12023299 slighly more severe than rad50delta alone

PMID:24316795 same as cdr2-S755A-758A alone
PMID:24316795 same as cdr2-S755A-758A alone

PMID:17307401 same as mus81delta alone
PMID:17307401 same as mus81delta alone
PMID:17307401 same as mus81delta alone
PMID:17307401 same as mus81delta alone

PMID:15177031 Fig 2 same phenotype as tea2delta and tip1delta single mutants
PMID:15177031 Fig 2 same phenotype as tea2delta and tip1delta single mutants
PMID:15177031 Fig 2 same phenotype as tea2delta and tip1delta single mutants

PMID:15177031 Fig 2 same phenotype as tea2delta and tip1delta single mutants

PMID:15731009 same as orb3-167 alone
PMID:15731009 same as orb3-167 alone

PMID:25795664 same as in csn1delta alone

PMID:25795664 same as brc1delta alone
PMID:25795664 same as brc1delta alone
PMID:25795664 same as brc1delta alone

PMID:7957098 same as cdc10-129 alone
PMID:7957098 same as cdc2-33 alone
PMID:7957098 same as cdc13-117 alone
PMID:7957098 same as rad4 cut5 allele alone
PMID:7957098 same as rad4 cut5 allele alone
PMID:7957098 same as rad4 cut5 allele alone
PMID:7957098 same as cdc25-22 alone
PMID:7957098 same as rad4 cut5 allele alone
PMID:7957098 same as rad4 cut5 allele alone
PMID:7957098 same as rad4 cut5 allele alone
PMID:7957098 same as rad4 cut5 allele alone
PMID:7957098 same as rad4 cut5 allele alone
PMID:7957098 same as rad4 cut5 allele alone

PMID:33925026 same as alp14delta alone
PMID:33925026 same as alp14delta alone
PMID:33925026 same as alp14delta alone
PMID:33925026 same as alp14delta alone
PMID:33925026 same as alp14delta alone
PMID:33925026 same as klp6delta alone
PMID:33925026 same as klp6delta alone

PMID:12456722 cell size phenotype same as wee1 alone
PMID:12456722 cell size phenotype same as wee1 alone

PMID:10757807 same as rqh1delta alone
PMID:10757807 same as cds1delta alone
PMID:10757807 same as cdc27-P11 alone

PMID:8521469 same as cdc18+ oe alone
PMID:8521469 same as cdc18+ oe alone

PMID:29215009 same as either single mutant
PMID:29215009 same as exo1delta alone

PMID:8292390 same as cps8-185 alone

PMID:28218250 ChIP-seq; same severity as spt16-1 alone

PMID:7983142 33 degrees (may be standard for them); morphology same as ppe1delta alone

PMID:20805322 same as cdc3-124 alone

PMID:23677513 same as hus1delta alone
PMID:23677513 same as rad9delta alone
PMID:23677513 same as hus1delta alone
PMID:23677513 same as rad9delta alone
PMID:23677513 same as hus1delta alone
PMID:23677513 same as rad9delta alone
PMID:23677513 same as hus1delta alone
PMID:23677513 same as rad9delta alone
PMID:29774234 same as stn1-226 alone

PMID:11027263 same as hsk1-1312 alone

PMID:29514920 figure 2D Epistatic to cdr2delta
PMID:29514920 figure 2D Epistatic to cdr2delta
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manulera commented Sep 1, 2023

@kimrutherford, maybe it would be possible to parse those phenotypes and assign them a "Synthetic phenotype" genetic interaction.

@manulera manulera assigned ValWood and unassigned manulera Sep 1, 2023
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ValWood commented Sep 1, 2023

yep:
https://curation.pombase.org/dumps/latest_build/logs/log.2023-08-31-21-42-13.annotation_comments.tsv

@manulera manulera mentioned this issue Sep 25, 2023
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@kimrutherford kimrutherford mentioned this issue Sep 30, 2023
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maybe it would be possible to parse those phenotypes and assign them a "Synthetic phenotype" genetic interaction.

I made a separate issue about that:

@ValWood
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ValWood commented Oct 2, 2023

This is a longer term plan becasue we don't have a way to curate, store or display at the moment. I think there are other tickets about this. I'll have a poke around

@ValWood ValWood added the future label Oct 2, 2023
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