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 Rv1431/-:

update plot	correlation	link to info on gene
Rv1522c/mmpL12	(cc=0.5518)	info on Rv1522c/mmpL12
Rv1671/-	(cc=0.5125)	info on Rv1671/-
Rv3186/-	(cc=0.488)	info on Rv3186/-
Rv1132/-	(cc=0.4547)	info on Rv1132/-
Rv0402c/mmpL1	(cc=0.4235)	info on Rv0402c/mmpL1
Rv3478/PPE60	(cc=0.4126)	info on Rv3478/PPE60
Rv0546c/-	(cc=0.409)	info on Rv0546c/-
Rv3479/-	(cc=0.4053)	info on Rv3479/-
Rv0743c/-	(cc=0.4037)	info on Rv0743c/-
Rv1965/yrbE3B	(cc=0.3997)	info on Rv1965/yrbE3B

Correlation of Rv1431/- with Rv1132/-

Normalized LFCs for Rv1431/-:
(description and provenance of datasets)

	Rv1431/-	Rv1132/-
Fe_supp_jason_reseq	1.705	-0.077
low_pH_jason_reseq	-0.413	-0.579
NO_jason_reseq	0.646	0.517
B6_jason_reseq	1.166	0.368
MHCII_jason_reseq	0.675	-0.653
Isoniazid02	0.195	0.185
Rifampicin4	0.257	0.06
Ethambutol3	0.311	-0.027
Meropenem3	-0.086	1.06
Vancomycin16	0.584	0.393
Rv2680_day32	-0.045	1.473
H37Rv_KO_MarP	-0.394	0.868
hypoxia_3wks	0.526	-0.056
hypoxia_6wks	0.844	0.219
glycerol	-0.015	0.158
cholesterol	-1.049	-0.998
AJ	-0.052	0.35
Bibs02	0.264	-0.265
Bibs02c	1.147	0.634
BL6	-0.009	-0.422
BL6a	0.829	0.755
BXD01	0.323	-0.229
BXD010	0.368	0.37
BXD011	0.366	0.428
BXD03	-0.168	-0.012
BXD04	0.17	0.314
BXD05	-0.225	-0.181
BXD06	-0.212	0.431
BXD07	0.444	0.545
BXD08	0.029	0.2
BXD09	-0.118	-0.189
CAST	0.132	0.292
CCcont	0.176	-0.041
DS01	0.086	-0.176
DS02	-0.254	-0.707
DS04	-0.593	0.246
DS0c	0.031	0.31
GP01	-0.2	0.442
GP02	-1.039	-0.559
GP0c	-0.797	-0.648
NOD	0.081	0.267
NZO	-0.201	-0.092
PWK	0.257	0.053
H37Rv_KO_CtpC	0.127	-0.153
H37Rv_KO_CtpD	0.174	0.409
H37Rv_KO_Rv1272	0.583	0.234
H37Rv_KO_SugABC	0.036	0.704
H37Rv_KO_MbtN	0.446	-0.658
Trans05	-0.521	-0.67
macrophage_unactivated	0.095	-0.789
IL1	-0.377	0.875
Rapamycin	-0.856	0.565
Tcell	-0.238	-0.218
GMCSF	-0.164	-0.209
IFNab	-0.284	-0.345
IFNg	-0.251	0.668
IFNg_GMCSF1	-0.471	-0.471
Rv1432_day32	5.473	2.059
Rv1565c_day32	0.087	-0.368
secA2_input	0.219	-0.867
delta_Rv3594	0.676	1.557
delta_Rv3717	0.653	1.165
delta_Rv3811	0.88	1.405
delta_Rv0954	0.308	1.043
PonA1	0.12	0.908
EccD1_KO	0.654	0.125
EspI_KO	0.867	0.108
PE35_KO	1.21	0.0
PPE68_KO	1.414	0.182
glycerol2	-0.279	0.039
lignocerate	-0.077	0.268
oleate	0.037	-0.299
phosphatidylcholine	0.403	0.258
acetate	-0.105	0.446
glucAc	1.56	0.468
Rv0950ko	0.241	0.048
Rv1096ko	-0.169	0.048
Rv3684ko	0.134	-0.223
delta_otsA_trehalose	-0.105	-0.126