TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv1155/-:

update plot	correlation	link to info on gene
Rv0435c/-	(cc=0.4411)	info on Rv0435c/-
Rv3649/-	(cc=0.4171)	info on Rv3649/-
Rv1251c/-	(cc=0.4156)	info on Rv1251c/-
Rv0333/-	(cc=0.3964)	info on Rv0333/-
Rv3700c/-	(cc=0.3835)	info on Rv3700c/-
Rv2326c/-	(cc=0.3808)	info on Rv2326c/-
Rv2585c/-	(cc=0.3741)	info on Rv2585c/-
Rv1031/kdpC	(cc=0.354)	info on Rv1031/kdpC
Rv0063/-	(cc=0.3532)	info on Rv0063/-
Rv0532/PE_PGRS6	(cc=0.3515)	info on Rv0532/PE_PGRS6

Correlation of Rv1155/- with Rv3700c/-

Normalized LFCs for Rv1155/-:
(description and provenance of datasets)

	Rv1155/-	Rv3700c/-
Fe_supp_jason_reseq	-0.442	-0.95
low_pH_jason_reseq	-0.524	-0.574
NO_jason_reseq	-0.074	0.045
B6_jason_reseq	0.665	0.073
MHCII_jason_reseq	0.712	0.782
Isoniazid02	0.263	0.557
Rifampicin4	0.057	1.565
Ethambutol3	0.863	1.165
Meropenem3	0.93	0.97
Vancomycin16	0.592	0.931
Rv2680_day32	-0.708	-0.64
H37Rv_KO_MarP	0.042	0.395
hypoxia_3wks	0.128	0.794
hypoxia_6wks	-0.15	0.136
glycerol	-0.294	0.48
cholesterol	0.302	-0.226
AJ	0.124	0.592
Bibs02	0.666	1.016
Bibs02c	0.582	0.262
BL6	0.348	0.181
BL6a	0.291	-0.61
BXD01	-0.28	0.483
BXD010	-0.077	0.315
BXD011	0.064	0.069
BXD03	-0.261	-0.565
BXD04	0.295	-1.041
BXD05	-0.259	-1.167
BXD06	0.473	-0.58
BXD07	0.079	-0.674
BXD08	0.591	-0.061
BXD09	0.347	-0.684
CAST	0.257	0.289
CCcont	-0.229	-0.6
DS01	-0.284	1.153
DS02	0.039	-0.339
DS04	1.583	0.374
DS0c	0.039	0.437
GP01	-0.756	-1.409
GP02	-0.04	-0.482
GP0c	0.019	0.542
NOD	0.854	1.538
NZO	0.325	-0.471
PWK	0.25	0.227
H37Rv_KO_CtpC	-0.357	-0.706
H37Rv_KO_CtpD	-0.392	-0.23
H37Rv_KO_Rv1272	-1.145	-1.374
H37Rv_KO_SugABC	0.734	-0.398
H37Rv_KO_MbtN	0.228	-0.161
Trans05	0.028	-0.309
macrophage_unactivated	0.376	0.079
IL1	-0.05	0.359
Rapamycin	-0.313	0.715
Tcell	-0.081	1.711
GMCSF	0.372	-0.137
IFNab	0.218	0.076
IFNg	0.377	1.307
IFNg_GMCSF1	0.572	1.185
Rv1432_day32	0.16	-0.265
Rv1565c_day32	0.43	0.644
secA2_input	-0.504	0.6
delta_Rv3594	-0.024	-0.739
delta_Rv3717	-0.32	-0.252
delta_Rv3811	0.556	-0.134
delta_Rv0954	0.079	0.454
PonA1	-0.15	0.383
EccD1_KO	0.217	0.122
EspI_KO	0.143	-0.071
PE35_KO	0.216	-0.703
PPE68_KO	0.109	-0.726
glycerol2	0.129	-0.02
lignocerate	-0.413	-0.104
oleate	-1.049	0.132
phosphatidylcholine	-0.585	0.183
acetate	0.705	-0.07
glucAc	0.7	-0.387
Rv0950ko	0.262	-0.19
Rv1096ko	0.745	1.915
Rv3684ko	-0.599	0.91
delta_otsA_trehalose	-1.441	-1.201