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 Rv0435c/-

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

	Rv1155/-	Rv0435c/-
Fe_supp_jason_reseq	-0.442	-0.83
low_pH_jason_reseq	-0.524	-0.957
NO_jason_reseq	-0.074	0.21
B6_jason_reseq	0.665	0.495
MHCII_jason_reseq	0.712	0.761
Isoniazid02	0.263	0.403
Rifampicin4	0.057	0.0
Ethambutol3	0.863	-0.202
Meropenem3	0.93	1.136
Vancomycin16	0.592	0.462
Rv2680_day32	-0.708	-0.621
H37Rv_KO_MarP	0.042	0.83
hypoxia_3wks	0.128	-0.271
hypoxia_6wks	-0.15	0.441
glycerol	-0.294	0.487
cholesterol	0.302	0.019
AJ	0.124	0.455
Bibs02	0.666	0.262
Bibs02c	0.582	0.061
BL6	0.348	-0.85
BL6a	0.291	-0.766
BXD01	-0.28	-0.902
BXD010	-0.077	-0.442
BXD011	0.064	-0.499
BXD03	-0.261	-1.209
BXD04	0.295	-0.34
BXD05	-0.259	-0.689
BXD06	0.473	-0.677
BXD07	0.079	-0.785
BXD08	0.591	-0.937
BXD09	0.347	-0.766
CAST	0.257	-0.195
CCcont	-0.229	-1.324
DS01	-0.284	0.305
DS02	0.039	0.014
DS04	1.583	0.129
DS0c	0.039	0.171
GP01	-0.756	-0.875
GP02	-0.04	-0.472
GP0c	0.019	-0.782
NOD	0.854	-0.264
NZO	0.325	-0.013
PWK	0.25	-0.058
H37Rv_KO_CtpC	-0.357	-1.134
H37Rv_KO_CtpD	-0.392	-0.139
H37Rv_KO_Rv1272	-1.145	-1.317
H37Rv_KO_SugABC	0.734	-0.203
H37Rv_KO_MbtN	0.228	-1.563
Trans05	0.028	-1.139
macrophage_unactivated	0.376	-0.461
IL1	-0.05	0.086
Rapamycin	-0.313	-0.424
Tcell	-0.081	-0.244
GMCSF	0.372	0.224
IFNab	0.218	-0.877
IFNg	0.377	-0.118
IFNg_GMCSF1	0.572	0.374
Rv1432_day32	0.16	-0.086
Rv1565c_day32	0.43	0.78
secA2_input	-0.504	0.016
delta_Rv3594	-0.024	-1.08
delta_Rv3717	-0.32	-0.56
delta_Rv3811	0.556	-0.739
delta_Rv0954	0.079	-0.386
PonA1	-0.15	-0.159
EccD1_KO	0.217	0.178
EspI_KO	0.143	-0.328
PE35_KO	0.216	-0.648
PPE68_KO	0.109	-0.509
glycerol2	0.129	-0.967
lignocerate	-0.413	-0.647
oleate	-1.049	-1.133
phosphatidylcholine	-0.585	-0.73
acetate	0.705	-1.237
glucAc	0.7	-0.567
Rv0950ko	0.262	0.199
Rv1096ko	0.745	0.89
Rv3684ko	-0.599	0.478
delta_otsA_trehalose	-1.441	-2.069