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 Rv0073/-:

update plot	correlation	link to info on gene
Rv0160c/PE4	(cc=0.5614)	info on Rv0160c/PE4
Rv2431c/PE25	(cc=0.5486)	info on Rv2431c/PE25
Rv2352c/PPE38	(cc=0.5416)	info on Rv2352c/PPE38
Rv3045/adhC	(cc=0.53)	info on Rv3045/adhC
Rv0456B/mazE1	(cc=0.5264)	info on Rv0456B/mazE1
Rv0197/-	(cc=0.5135)	info on Rv0197/-
Rv3404c/-	(cc=0.5038)	info on Rv3404c/-
Rv3814c/-	(cc=0.4958)	info on Rv3814c/-
Rv2957/-	(cc=0.4929)	info on Rv2957/-
Rv2472/-	(cc=0.4893)	info on Rv2472/-

Correlation of Rv0073/- with Rv2431c/PE25

Normalized LFCs for Rv0073/-:
(description and provenance of datasets)

	Rv0073/-	Rv2431c/PE25
Fe_supp_jason_reseq	-0.133	0.619
low_pH_jason_reseq	-0.422	0.522
NO_jason_reseq	-0.761	-0.914
B6_jason_reseq	0.152	-0.36
MHCII_jason_reseq	-0.392	-0.217
Isoniazid02	-1.654	-0.931
Rifampicin4	-0.801	-1.6
Ethambutol3	-0.55	-1.563
Meropenem3	-1.17	-1.653
Vancomycin16	-1.141	-0.921
Rv2680_day32	0.489	-0.087
H37Rv_KO_MarP	0.0	-0.447
hypoxia_3wks	-0.203	0.582
hypoxia_6wks	-0.244	0.0
glycerol	0.812	3.461
cholesterol	0.242	6.0
AJ	-0.076	1.303
Bibs02	0.755	1.457
Bibs02c	0.915	1.199
BL6	0.766	1.457
BL6a	0.042	2.072
BXD01	0.451	0.827
BXD010	0.271	0.551
BXD011	-0.245	2.085
BXD03	0.36	1.534
BXD04	0.559	1.689
BXD05	0.599	2.296
BXD06	0.259	1.937
BXD07	0.015	2.139
BXD08	-0.198	1.605
BXD09	0.235	2.05
CAST	0.143	-0.192
CCcont	-0.04	1.232
DS01	1.3	3.744
DS02	0.553	3.294
DS04	0.41	3.536
DS0c	0.903	2.665
GP01	0.275	0.531
GP02	0.285	0.806
GP0c	-0.336	1.557
NOD	0.395	1.523
NZO	0.306	0.962
PWK	0.796	2.947
H37Rv_KO_CtpC	0.467	1.81
H37Rv_KO_CtpD	1.33	1.079
H37Rv_KO_Rv1272	0.816	2.011
H37Rv_KO_SugABC	-0.049	1.484
H37Rv_KO_MbtN	-0.225	0.09
Trans05	1.018	2.411
macrophage_unactivated	0.208	0.211
IL1	0.08	0.561
Rapamycin	0.338	0.233
Tcell	0.277	0.72
GMCSF	-0.256	-0.304
IFNab	-0.187	0.668
IFNg	-0.241	0.786
IFNg_GMCSF1	-0.512	0.852
Rv1432_day32	-0.489	0.439
Rv1565c_day32	-0.092	5.482
secA2_input	0.269	-1.575
delta_Rv3594	-0.17	0.425
delta_Rv3717	-0.341	0.174
delta_Rv3811	-0.439	0.013
delta_Rv0954	-0.134	1.122
PonA1	-0.008	0.196
EccD1_KO	-0.102	-0.72
EspI_KO	0.268	-0.148
PE35_KO	0.257	0.639
PPE68_KO	0.531	0.64
glycerol2	0.073	-0.013
lignocerate	-0.323	-0.468
oleate	0.336	0.801
phosphatidylcholine	0.022	0.162
acetate	-1.034	-0.753
glucAc	-0.98	-0.664
Rv0950ko	0.271	0.084
Rv1096ko	0.305	-1.197
Rv3684ko	-0.698	-0.177
delta_otsA_trehalose	-0.232	0.513