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 Rv1772/-:

update plot	correlation	link to info on gene
Rv1964/yrbE3A	(cc=0.4517)	info on Rv1964/yrbE3A
Rv1892/-	(cc=0.4144)	info on Rv1892/-
Rv0057/-	(cc=0.4116)	info on Rv0057/-
Rv3618/-	(cc=0.4083)	info on Rv3618/-
Rv0364/-	(cc=0.4051)	info on Rv0364/-
Rv2789c/fadE21	(cc=0.4042)	info on Rv2789c/fadE21
Rv2480c/-	(cc=0.4005)	info on Rv2480c/-
Rv2495c/bkdC	(cc=0.4001)	info on Rv2495c/bkdC
Rv0222/echA1	(cc=0.3902)	info on Rv0222/echA1
Rv1720c/vapC12	(cc=0.3862)	info on Rv1720c/vapC12

Correlation of Rv1772/- with Rv1892/-

Normalized LFCs for Rv1772/-:
(description and provenance of datasets)

	Rv1772/-	Rv1892/-
Fe_supp_jason_reseq	-3.334	0.065
low_pH_jason_reseq	-1.822	-0.997
NO_jason_reseq	-0.68	0.228
B6_jason_reseq	-2.688	-0.277
MHCII_jason_reseq	-3.659	-0.127
Isoniazid02	0.354	0.194
Rifampicin4	-1.543	-0.011
Ethambutol3	1.497	0.4
Meropenem3	0.973	0.452
Vancomycin16	0.154	0.127
Rv2680_day32	-0.828	0.304
H37Rv_KO_MarP	-0.799	0.212
hypoxia_3wks	-1.049	0.299
hypoxia_6wks	-1.138	0.62
glycerol	-1.546	0.24
cholesterol	0.384	0.302
AJ	0.65	0.768
Bibs02	0.107	0.069
Bibs02c	0.082	-0.323
BL6	1.146	0.32
BL6a	1.551	0.034
BXD01	-0.501	0.375
BXD010	-1.496	0.673
BXD011	0.099	0.437
BXD03	0.851	0.139
BXD04	-0.668	0.513
BXD05	1.785	0.602
BXD06	-0.967	0.538
BXD07	0.345	0.798
BXD08	-0.911	0.636
BXD09	-0.18	0.796
CAST	-0.295	0.237
CCcont	-0.49	0.368
DS01	-0.527	0.522
DS02	2.083	0.337
DS04	0.603	0.587
DS0c	-1.752	0.218
GP01	0.307	-0.057
GP02	-1.275	1.255
GP0c	-1.109	0.015
NOD	3.695	0.14
NZO	-0.256	0.501
PWK	1.421	1.816
H37Rv_KO_CtpC	1.419	0.408
H37Rv_KO_CtpD	-1.405	0.09
H37Rv_KO_Rv1272	0.0	0.816
H37Rv_KO_SugABC	-1.22	0.092
H37Rv_KO_MbtN	2.598	1.48
Trans05	-1.609	0.447
macrophage_unactivated	0.754	1.556
IL1	-0.086	0.691
Rapamycin	1.093	0.307
Tcell	1.844	0.531
GMCSF	-0.945	0.898
IFNab	0.088	0.674
IFNg	2.392	1.152
IFNg_GMCSF1	2.91	-0.198
Rv1432_day32	-2.282	-0.047
Rv1565c_day32	0.0	0.1
secA2_input	-0.941	0.85
delta_Rv3594	1.225	0.314
delta_Rv3717	0.603	0.418
delta_Rv3811	-1.022	0.433
delta_Rv0954	-1.292	0.611
PonA1	-0.793	-0.312
EccD1_KO	-2.131	-0.595
EspI_KO	-2.059	-0.59
PE35_KO	-1.619	-0.75
PPE68_KO	-0.921	-0.461
glycerol2	0.988	0.768
lignocerate	1.841	1.102
oleate	-1.494	0.034
phosphatidylcholine	0.794	0.707
acetate	2.031	1.167
glucAc	0.157	1.005
Rv0950ko	0.582	0.247
Rv1096ko	-0.211	-0.187
Rv3684ko	1.89	0.147
delta_otsA_trehalose	-1.296	-1.231