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 Rv0743c/-

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

	Rv1431/-	Rv0743c/-
Fe_supp_jason_reseq	1.705	-0.605
low_pH_jason_reseq	-0.413	-0.734
NO_jason_reseq	0.646	-0.102
B6_jason_reseq	1.166	-0.357
MHCII_jason_reseq	0.675	-0.135
Isoniazid02	0.195	-2.117
Rifampicin4	0.257	-0.512
Ethambutol3	0.311	-0.535
Meropenem3	-0.086	0.467
Vancomycin16	0.584	-1.409
Rv2680_day32	-0.045	-0.269
H37Rv_KO_MarP	-0.394	0.182
hypoxia_3wks	0.526	0.12
hypoxia_6wks	0.844	0.123
glycerol	-0.015	0.521
cholesterol	-1.049	-0.153
AJ	-0.052	0.363
Bibs02	0.264	0.736
Bibs02c	1.147	0.144
BL6	-0.009	-0.468
BL6a	0.829	0.161
BXD01	0.323	-0.184
BXD010	0.368	-0.298
BXD011	0.366	-0.076
BXD03	-0.168	-0.195
BXD04	0.17	-0.355
BXD05	-0.225	0.261
BXD06	-0.212	-0.076
BXD07	0.444	-0.106
BXD08	0.029	-0.014
BXD09	-0.118	-0.083
CAST	0.132	0.302
CCcont	0.176	-0.382
DS01	0.086	0.11
DS02	-0.254	0.09
DS04	-0.593	0.756
DS0c	0.031	-0.069
GP01	-0.2	1.725
GP02	-1.039	-0.447
GP0c	-0.797	0.347
NOD	0.081	1.53
NZO	-0.201	0.406
PWK	0.257	0.49
H37Rv_KO_CtpC	0.127	0.663
H37Rv_KO_CtpD	0.174	1.198
H37Rv_KO_Rv1272	0.583	0.271
H37Rv_KO_SugABC	0.036	-0.875
H37Rv_KO_MbtN	0.446	0.491
Trans05	-0.521	0.608
macrophage_unactivated	0.095	0.527
IL1	-0.377	0.077
Rapamycin	-0.856	0.068
Tcell	-0.238	-0.362
GMCSF	-0.164	0.702
IFNab	-0.284	0.112
IFNg	-0.251	-0.04
IFNg_GMCSF1	-0.471	0.047
Rv1432_day32	5.473	4.237
Rv1565c_day32	0.087	0.434
secA2_input	0.219	0.07
delta_Rv3594	0.676	-0.028
delta_Rv3717	0.653	0.303
delta_Rv3811	0.88	-0.065
delta_Rv0954	0.308	0.041
PonA1	0.12	0.095
EccD1_KO	0.654	0.431
EspI_KO	0.867	1.075
PE35_KO	1.21	-0.064
PPE68_KO	1.414	0.058
glycerol2	-0.279	0.852
lignocerate	-0.077	0.632
oleate	0.037	1.034
phosphatidylcholine	0.403	0.908
acetate	-0.105	0.138
glucAc	1.56	0.108
Rv0950ko	0.241	0.344
Rv1096ko	-0.169	-0.018
Rv3684ko	0.134	-0.059
delta_otsA_trehalose	-0.105	1.259