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 Rv1204c/-:

update plot	correlation	link to info on gene
Rv1205/-	(cc=0.4958)	info on Rv1205/-
Rv0539/-	(cc=0.4727)	info on Rv0539/-
Rv2426c/-	(cc=0.4346)	info on Rv2426c/-
Rv1071c/echA9	(cc=0.4318)	info on Rv1071c/echA9
Rv1206/fadD6	(cc=0.4205)	info on Rv1206/fadD6
Rv3463/-	(cc=0.4158)	info on Rv3463/-
Rv1151c/-	(cc=0.3926)	info on Rv1151c/-
Rv0393/-	(cc=0.3923)	info on Rv0393/-
Rv2550c/vapB20	(cc=0.3916)	info on Rv2550c/vapB20
Rv2656c/-	(cc=0.391)	info on Rv2656c/-

Correlation of Rv1204c/- with Rv0539/-

Normalized LFCs for Rv1204c/-:
(description and provenance of datasets)

	Rv1204c/-	Rv0539/-
Fe_supp_jason_reseq	-0.838	0.09
low_pH_jason_reseq	0.438	-1.148
NO_jason_reseq	0.299	-0.375
B6_jason_reseq	0.67	-0.135
MHCII_jason_reseq	-0.108	0.572
Isoniazid02	-0.231	3.456
Rifampicin4	0.092	1.061
Ethambutol3	2.259	4.612
Meropenem3	-0.092	0.683
Vancomycin16	-0.204	0.554
Rv2680_day32	-0.836	-1.932
H37Rv_KO_MarP	-0.179	-1.15
hypoxia_3wks	-0.77	-1.001
hypoxia_6wks	0.355	0.407
glycerol	0.105	0.249
cholesterol	0.025	0.614
AJ	0.225	-0.632
Bibs02	-1.424	-1.325
Bibs02c	0.427	1.446
BL6	0.626	1.22
BL6a	0.103	0.839
BXD01	0.38	-0.355
BXD010	0.155	0.749
BXD011	0.017	-0.311
BXD03	0.593	0.807
BXD04	0.909	0.627
BXD05	-0.086	0.884
BXD06	0.113	0.19
BXD07	0.134	0.587
BXD08	0.625	0.485
BXD09	-0.063	0.2
CAST	1.405	0.908
CCcont	-0.182	1.016
DS01	0.76	0.467
DS02	0.211	1.528
DS04	0.878	-1.166
DS0c	0.13	0.756
GP01	-1.315	-1.619
GP02	-0.203	-1.281
GP0c	-0.158	-0.685
NOD	-0.05	0.096
NZO	-0.204	1.423
PWK	0.922	1.266
H37Rv_KO_CtpC	0.921	1.048
H37Rv_KO_CtpD	0.537	-1.54
H37Rv_KO_Rv1272	0.154	0.089
H37Rv_KO_SugABC	0.302	0.214
H37Rv_KO_MbtN	-0.116	-1.587
Trans05	0.458	-0.432
macrophage_unactivated	-0.679	0.136
IL1	-0.344	1.207
Rapamycin	-0.396	0.595
Tcell	0.169	0.375
GMCSF	0.016	0.058
IFNab	0.018	0.193
IFNg	-0.556	-0.957
IFNg_GMCSF1	-0.075	0.035
Rv1432_day32	-0.395	-0.348
Rv1565c_day32	-0.686	-0.218
secA2_input	0.6	1.038
delta_Rv3594	0.207	0.621
delta_Rv3717	0.52	1.042
delta_Rv3811	-0.396	0.346
delta_Rv0954	0.93	1.426
PonA1	0.394	1.816
EccD1_KO	1.414	1.556
EspI_KO	-0.177	0.573
PE35_KO	0.198	1.289
PPE68_KO	-0.141	0.333
glycerol2	0.687	-0.758
lignocerate	1.101	0.0
oleate	0.712	0.404
phosphatidylcholine	1.373	0.0
acetate	0.746	0.973
glucAc	0.247	1.102
Rv0950ko	0.353	-0.308
Rv1096ko	0.443	0.241
Rv3684ko	-0.75	-1.287
delta_otsA_trehalose	-0.159	-0.587