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 Rv2819c/-:

update plot	correlation	link to info on gene
Rv2648/-	(cc=0.5434)	info on Rv2648/-
Rv2267c/-	(cc=0.5401)	info on Rv2267c/-
Rv2512c/-	(cc=0.5268)	info on Rv2512c/-
Rv1948c/-	(cc=0.5251)	info on Rv1948c/-
Rv1199c/-	(cc=0.5245)	info on Rv1199c/-
Rv2276/cyp121	(cc=0.5088)	info on Rv2276/cyp121
Rv1498c/-	(cc=0.4979)	info on Rv1498c/-
Rv3784/-	(cc=0.4932)	info on Rv3784/-
Rv3490/otsA	(cc=0.4922)	info on Rv3490/otsA
Rv2809/-	(cc=0.4922)	info on Rv2809/-

Correlation of Rv2819c/- with Rv3784/-

Normalized LFCs for Rv2819c/-:
(description and provenance of datasets)

	Rv2819c/-	Rv3784/-
Fe_supp_jason_reseq	0.257	0.006
low_pH_jason_reseq	-0.032	-0.898
NO_jason_reseq	0.05	-0.21
B6_jason_reseq	0.083	0.092
MHCII_jason_reseq	0.392	0.297
Isoniazid02	-0.18	0.688
Rifampicin4	0.406	-0.138
Ethambutol3	1.216	1.0
Meropenem3	-0.2	0.948
Vancomycin16	0.255	0.066
Rv2680_day32	0.526	0.337
H37Rv_KO_MarP	-0.255	0.03
hypoxia_3wks	-0.506	-0.04
hypoxia_6wks	-0.196	0.092
glycerol	0.149	0.522
cholesterol	0.49	0.186
AJ	1.397	0.546
Bibs02	0.449	0.0
Bibs02c	1.205	0.588
BL6	0.652	0.22
BL6a	1.124	0.455
BXD01	0.761	0.05
BXD010	0.543	0.168
BXD011	0.591	0.112
BXD03	0.755	-0.091
BXD04	0.498	0.291
BXD05	0.611	-0.244
BXD06	0.757	0.22
BXD07	0.642	-0.032
BXD08	0.294	0.132
BXD09	0.652	0.236
CAST	0.48	0.506
CCcont	0.938	0.043
DS01	1.025	0.185
DS02	0.312	0.495
DS04	-0.122	-0.07
DS0c	1.152	0.176
GP01	0.958	0.273
GP02	1.04	0.114
GP0c	0.714	-0.022
NOD	0.858	1.71
NZO	0.653	0.363
PWK	2.593	0.482
H37Rv_KO_CtpC	0.992	0.437
H37Rv_KO_CtpD	-0.144	0.656
H37Rv_KO_Rv1272	0.774	0.346
H37Rv_KO_SugABC	0.194	0.607
H37Rv_KO_MbtN	1.627	0.892
Trans05	1.227	0.842
macrophage_unactivated	-0.205	0.413
IL1	-0.193	-0.51
Rapamycin	0.374	0.077
Tcell	0.202	-0.222
GMCSF	0.164	-0.235
IFNab	0.0	-0.187
IFNg	-0.219	0.094
IFNg_GMCSF1	0.148	0.248
Rv1432_day32	0.87	0.623
Rv1565c_day32	-0.935	-0.316
secA2_input	-1.116	-0.726
delta_Rv3594	0.0	-0.494
delta_Rv3717	-0.292	-0.488
delta_Rv3811	0.085	-0.175
delta_Rv0954	-1.056	-0.552
PonA1	-0.464	-0.545
EccD1_KO	0.378	-0.135
EspI_KO	0.516	0.225
PE35_KO	2.106	-0.152
PPE68_KO	1.769	-0.33
glycerol2	1.002	0.737
lignocerate	1.189	0.811
oleate	0.438	0.777
phosphatidylcholine	1.028	0.817
acetate	1.107	0.243
glucAc	0.709	0.267
Rv0950ko	-1.013	0.166
Rv1096ko	-0.805	-0.621
Rv3684ko	-1.336	-0.606
delta_otsA_trehalose	-0.851	-0.267