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 Rv3814c/-

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

	Rv0073/-	Rv3814c/-
Fe_supp_jason_reseq	-0.133	0.843
low_pH_jason_reseq	-0.422	-0.532
NO_jason_reseq	-0.761	-3.221
B6_jason_reseq	0.152	1.44
MHCII_jason_reseq	-0.392	0.822
Isoniazid02	-1.654	-1.988
Rifampicin4	-0.801	-2.385
Ethambutol3	-0.55	-0.117
Meropenem3	-1.17	-2.199
Vancomycin16	-1.141	-2.555
Rv2680_day32	0.489	-0.695
H37Rv_KO_MarP	0.0	0.586
hypoxia_3wks	-0.203	0.283
hypoxia_6wks	-0.244	-0.654
glycerol	0.812	1.088
cholesterol	0.242	1.401
AJ	-0.076	-0.116
Bibs02	0.755	0.436
Bibs02c	0.915	1.246
BL6	0.766	2.058
BL6a	0.042	1.597
BXD01	0.451	1.763
BXD010	0.271	2.224
BXD011	-0.245	1.226
BXD03	0.36	0.36
BXD04	0.559	1.847
BXD05	0.599	1.45
BXD06	0.259	1.617
BXD07	0.015	1.823
BXD08	-0.198	2.195
BXD09	0.235	1.283
CAST	0.143	0.48
CCcont	-0.04	1.762
DS01	1.3	0.674
DS02	0.553	1.249
DS04	0.41	0.202
DS0c	0.903	1.662
GP01	0.275	1.015
GP02	0.285	1.175
GP0c	-0.336	1.283
NOD	0.395	0.4
NZO	0.306	-1.049
PWK	0.796	0.247
H37Rv_KO_CtpC	0.467	0.522
H37Rv_KO_CtpD	1.33	1.78
H37Rv_KO_Rv1272	0.816	1.986
H37Rv_KO_SugABC	-0.049	1.432
H37Rv_KO_MbtN	-0.225	1.409
Trans05	1.018	2.239
macrophage_unactivated	0.208	0.363
IL1	0.08	-0.839
Rapamycin	0.338	-0.144
Tcell	0.277	0.798
GMCSF	-0.256	-0.605
IFNab	-0.187	-0.469
IFNg	-0.241	-0.909
IFNg_GMCSF1	-0.512	-0.456
Rv1432_day32	-0.489	0.465
Rv1565c_day32	-0.092	0.733
secA2_input	0.269	-0.947
delta_Rv3594	-0.17	0.988
delta_Rv3717	-0.341	1.559
delta_Rv3811	-0.439	1.277
delta_Rv0954	-0.134	0.729
PonA1	-0.008	-0.233
EccD1_KO	-0.102	0.855
EspI_KO	0.268	0.046
PE35_KO	0.257	0.047
PPE68_KO	0.531	0.518
glycerol2	0.073	1.447
lignocerate	-0.323	1.391
oleate	0.336	0.15
phosphatidylcholine	0.022	1.119
acetate	-1.034	1.275
glucAc	-0.98	0.865
Rv0950ko	0.271	0.733
Rv1096ko	0.305	0.121
Rv3684ko	-0.698	0.426
delta_otsA_trehalose	-0.232	-1.489