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 Rv0333/-

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

	Rv1155/-	Rv0333/-
Fe_supp_jason_reseq	-0.442	0.118
low_pH_jason_reseq	-0.524	-1.261
NO_jason_reseq	-0.074	-0.389
B6_jason_reseq	0.665	1.124
MHCII_jason_reseq	0.712	0.143
Isoniazid02	0.263	1.398
Rifampicin4	0.057	-0.853
Ethambutol3	0.863	1.0
Meropenem3	0.93	4.998
Vancomycin16	0.592	-0.048
Rv2680_day32	-0.708	0.23
H37Rv_KO_MarP	0.042	-0.896
hypoxia_3wks	0.128	-0.203
hypoxia_6wks	-0.15	0.282
glycerol	-0.294	-0.622
cholesterol	0.302	0.222
AJ	0.124	-0.419
Bibs02	0.666	1.237
Bibs02c	0.582	-0.105
BL6	0.348	0.642
BL6a	0.291	-0.313
BXD01	-0.28	-1.937
BXD010	-0.077	-2.664
BXD011	0.064	-0.342
BXD03	-0.261	-1.814
BXD04	0.295	-0.905
BXD05	-0.259	-0.167
BXD06	0.473	-0.678
BXD07	0.079	-0.613
BXD08	0.591	0.204
BXD09	0.347	-1.128
CAST	0.257	-0.746
CCcont	-0.229	-0.891
DS01	-0.284	0.121
DS02	0.039	-0.269
DS04	1.583	0.842
DS0c	0.039	-0.49
GP01	-0.756	-0.205
GP02	-0.04	0.563
GP0c	0.019	-0.613
NOD	0.854	-0.249
NZO	0.325	0.426
PWK	0.25	0.776
H37Rv_KO_CtpC	-0.357	0.201
H37Rv_KO_CtpD	-0.392	-2.441
H37Rv_KO_Rv1272	-1.145	-1.764
H37Rv_KO_SugABC	0.734	0.934
H37Rv_KO_MbtN	0.228	-2.144
Trans05	0.028	-0.917
macrophage_unactivated	0.376	0.186
IL1	-0.05	0.905
Rapamycin	-0.313	1.01
Tcell	-0.081	-0.951
GMCSF	0.372	0.673
IFNab	0.218	0.2
IFNg	0.377	0.492
IFNg_GMCSF1	0.572	-0.047
Rv1432_day32	0.16	2.117
Rv1565c_day32	0.43	0.006
secA2_input	-0.504	0.485
delta_Rv3594	-0.024	-2.109
delta_Rv3717	-0.32	-1.453
delta_Rv3811	0.556	-0.995
delta_Rv0954	0.079	-1.093
PonA1	-0.15	-0.723
EccD1_KO	0.217	0.569
EspI_KO	0.143	1.554
PE35_KO	0.216	-0.359
PPE68_KO	0.109	0.797
glycerol2	0.129	-0.59
lignocerate	-0.413	-0.022
oleate	-1.049	0.051
phosphatidylcholine	-0.585	0.148
acetate	0.705	1.303
glucAc	0.7	-0.314
Rv0950ko	0.262	0.181
Rv1096ko	0.745	0.884
Rv3684ko	-0.599	0.842
delta_otsA_trehalose	-1.441	-1.479