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 Rv2636/-:

update plot	correlation	link to info on gene
Rv3354/-	(cc=0.6983)	info on Rv3354/-
Rv1180/pks3	(cc=0.6564)	info on Rv1180/pks3
Rv3295/-	(cc=0.6491)	info on Rv3295/-
Rv1181/pks4	(cc=0.6488)	info on Rv1181/pks4
Rv2032/acg	(cc=0.6246)	info on Rv2032/acg
Rv1999c/-	(cc=0.6215)	info on Rv1999c/-
Rv2687c/-	(cc=0.6201)	info on Rv2687c/-
Rv1974/-	(cc=0.6183)	info on Rv1974/-
Rv1834/lipZ	(cc=0.6178)	info on Rv1834/lipZ
Rv0136/cyp138	(cc=0.6164)	info on Rv0136/cyp138

Correlation of Rv2636/- with Rv3295/-

Normalized LFCs for Rv2636/-:
(description and provenance of datasets)

	Rv2636/-	Rv3295/-
Fe_supp_jason_reseq	-0.073	-0.311
low_pH_jason_reseq	-0.942	-1.467
NO_jason_reseq	0.071	0.399
B6_jason_reseq	1.243	1.709
MHCII_jason_reseq	1.783	2.745
Isoniazid02	-0.55	-0.08
Rifampicin4	0.162	-0.736
Ethambutol3	0.417	-0.766
Meropenem3	-1.06	1.594
Vancomycin16	-0.642	-2.144
Rv2680_day32	1.092	-0.028
H37Rv_KO_MarP	0.013	0.872
hypoxia_3wks	0.056	0.04
hypoxia_6wks	-0.186	0.069
glycerol	0.263	-1.066
cholesterol	0.048	-0.911
AJ	0.345	-0.094
Bibs02	0.177	-0.197
Bibs02c	0.358	-0.488
BL6	-0.987	-1.617
BL6a	-0.442	-1.21
BXD01	-1.222	-2.04
BXD010	-0.989	-1.261
BXD011	-1.507	-1.45
BXD03	-1.037	-1.975
BXD04	-1.588	-1.206
BXD05	-0.968	-1.799
BXD06	-1.495	-1.84
BXD07	-1.077	-1.907
BXD08	-0.781	-2.202
BXD09	-1.87	-1.692
CAST	0.174	-0.377
CCcont	-1.767	-2.55
DS01	0.399	-0.573
DS02	0.578	-0.243
DS04	-0.409	-1.214
DS0c	0.083	-0.159
GP01	-0.456	-0.495
GP02	-0.744	-1.862
GP0c	-0.677	-3.192
NOD	0.574	0.265
NZO	0.126	0.438
PWK	-0.057	-0.034
H37Rv_KO_CtpC	-1.77	-1.189
H37Rv_KO_CtpD	-0.581	-0.309
H37Rv_KO_Rv1272	-1.089	-0.822
H37Rv_KO_SugABC	-1.719	-1.536
H37Rv_KO_MbtN	-0.848	-2.764
Trans05	-0.088	-1.09
macrophage_unactivated	-0.653	-3.033
IL1	-0.445	-2.637
Rapamycin	-0.546	-2.998
Tcell	-0.867	-2.77
GMCSF	-0.446	-2.389
IFNab	-1.155	-4.099
IFNg	-0.136	-1.86
IFNg_GMCSF1	-0.079	-1.555
Rv1432_day32	-0.16	0.528
Rv1565c_day32	0.062	1.414
secA2_input	1.133	0.819
delta_Rv3594	-0.601	-0.159
delta_Rv3717	-0.271	-0.35
delta_Rv3811	-0.458	-0.437
delta_Rv0954	0.151	-0.012
PonA1	-0.324	0.697
EccD1_KO	-0.151	-0.536
EspI_KO	0.271	-0.442
PE35_KO	-0.079	-0.096
PPE68_KO	-0.266	0.067
glycerol2	0.534	2.42
lignocerate	0.498	1.125
oleate	0.303	-0.113
phosphatidylcholine	0.709	2.459
acetate	0.156	0.436
glucAc	0.155	0.323
Rv0950ko	-0.027	1.019
Rv1096ko	-0.25	0.338
Rv3684ko	-0.662	0.907
delta_otsA_trehalose	0.719	0.261