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 Rv1075c/-:

update plot	correlation	link to info on gene
Rv1291c/-	(cc=0.599)	info on Rv1291c/-
Rv3170/aofH	(cc=0.5511)	info on Rv3170/aofH
Rv2328/PE23	(cc=0.5508)	info on Rv2328/PE23
Rv2854/-	(cc=0.5395)	info on Rv2854/-
Rv1638A/-	(cc=0.5265)	info on Rv1638A/-
Rv0791c/-	(cc=0.5256)	info on Rv0791c/-
Rv0848/cysK2	(cc=0.5214)	info on Rv0848/cysK2
Rv0621/-	(cc=0.5182)	info on Rv0621/-
Rv3431c/-	(cc=0.5139)	info on Rv3431c/-
Rv2013/-	(cc=0.4982)	info on Rv2013/-

Correlation of Rv1075c/- with Rv0848/cysK2

Normalized LFCs for Rv1075c/-:
(description and provenance of datasets)

	Rv1075c/-	Rv0848/cysK2
Fe_supp_jason_reseq	0.058	0.221
low_pH_jason_reseq	-0.047	-0.214
NO_jason_reseq	0.37	1.152
B6_jason_reseq	0.761	1.176
MHCII_jason_reseq	1.053	0.917
Isoniazid02	0.223	0.469
Rifampicin4	0.655	0.46
Ethambutol3	0.72	2.419
Meropenem3	-0.019	0.053
Vancomycin16	-0.013	0.708
Rv2680_day32	0.547	1.311
H37Rv_KO_MarP	-0.272	0.772
hypoxia_3wks	0.0	0.694
hypoxia_6wks	-0.027	0.768
glycerol	0.059	-0.494
cholesterol	0.005	-0.242
AJ	0.708	-0.568
Bibs02	0.579	0.989
Bibs02c	0.621	-0.097
BL6	0.098	-0.35
BL6a	0.168	-0.462
BXD01	-0.325	-0.349
BXD010	-0.301	-0.555
BXD011	0.236	-0.958
BXD03	-0.578	-0.92
BXD04	-0.563	-0.303
BXD05	0.092	-0.314
BXD06	-0.313	-0.238
BXD07	-0.532	0.315
BXD08	-0.402	-0.153
BXD09	-0.432	-0.772
CAST	0.042	-0.511
CCcont	-0.414	-0.688
DS01	0.217	0.104
DS02	0.244	0.208
DS04	0.443	0.233
DS0c	0.475	-0.121
GP01	-1.729	-1.039
GP02	-0.263	-1.521
GP0c	-0.827	-1.053
NOD	-0.129	-1.489
NZO	-0.441	-0.558
PWK	0.166	0.087
H37Rv_KO_CtpC	-0.547	-0.638
H37Rv_KO_CtpD	-1.338	-0.775
H37Rv_KO_Rv1272	-0.365	-1.009
H37Rv_KO_SugABC	-0.751	-1.068
H37Rv_KO_MbtN	0.507	-0.351
Trans05	0.398	-1.408
macrophage_unactivated	0.455	-0.193
IL1	-0.018	0.116
Rapamycin	-0.107	0.12
Tcell	-0.316	-0.13
GMCSF	-0.016	0.203
IFNab	0.018	-0.06
IFNg	-0.259	-0.163
IFNg_GMCSF1	0.198	0.949
Rv1432_day32	-0.669	-0.398
Rv1565c_day32	-0.333	-0.449
secA2_input	0.817	0.326
delta_Rv3594	1.462	1.106
delta_Rv3717	1.354	0.2
delta_Rv3811	1.286	0.449
delta_Rv0954	1.035	1.99
PonA1	0.925	0.38
EccD1_KO	0.497	0.072
EspI_KO	-0.288	0.248
PE35_KO	-0.158	-0.134
PPE68_KO	0.275	0.0
glycerol2	-0.352	-0.577
lignocerate	-0.084	-0.799
oleate	0.16	-0.24
phosphatidylcholine	-0.097	-0.522
acetate	-0.351	-1.039
glucAc	-0.716	-1.065
Rv0950ko	-0.286	-0.829
Rv1096ko	0.024	0.546
Rv3684ko	-0.026	-0.193
delta_otsA_trehalose	-1.218	1.139