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 Rv2005c/-:

update plot	correlation	link to info on gene
Rv1745c/idi	(cc=0.5079)	info on Rv1745c/idi
Rv1768/PE_PGRS31	(cc=0.4746)	info on Rv1768/PE_PGRS31
Rv2695/-	(cc=0.4733)	info on Rv2695/-
Rv3624c/hpt	(cc=0.4685)	info on Rv3624c/hpt
Rv0526/-	(cc=0.4683)	info on Rv0526/-
Rv1067c/PE_PGRS19	(cc=0.4479)	info on Rv1067c/PE_PGRS19
Rv3922c/-	(cc=0.4454)	info on Rv3922c/-
Rv2268c/cyp128	(cc=0.4413)	info on Rv2268c/cyp128
Rv3068c/pgmA	(cc=0.4381)	info on Rv3068c/pgmA
Rv0930/pstA1	(cc=0.4377)	info on Rv0930/pstA1

Correlation of Rv2005c/- with Rv1745c/idi

Normalized LFCs for Rv2005c/-:
(description and provenance of datasets)

	Rv2005c/-	Rv1745c/idi
Fe_supp_jason_reseq	-0.245	-0.376
low_pH_jason_reseq	0.335	1.482
NO_jason_reseq	-0.473	0.877
B6_jason_reseq	-0.051	0.504
MHCII_jason_reseq	-0.773	0.631
Isoniazid02	0.253	0.706
Rifampicin4	0.084	1.346
Ethambutol3	0.168	-0.392
Meropenem3	0.386	-0.437
Vancomycin16	0.0	0.218
Rv2680_day32	-0.199	2.457
H37Rv_KO_MarP	0.113	0.223
hypoxia_3wks	-0.231	-1.168
hypoxia_6wks	-0.927	-0.687
glycerol	0.177	3.28
cholesterol	1.572	2.024
AJ	-0.519	0.855
Bibs02	-0.193	2.649
Bibs02c	0.236	3.154
BL6	0.835	0.312
BL6a	-0.151	2.593
BXD01	0.0	2.047
BXD010	0.102	1.381
BXD011	-0.161	2.476
BXD03	-0.907	0.499
BXD04	0.826	1.728
BXD05	-0.364	1.129
BXD06	0.139	1.567
BXD07	0.11	1.494
BXD08	0.522	1.295
BXD09	0.0	1.412
CAST	-0.108	-0.295
CCcont	-0.717	1.14
DS01	1.128	2.774
DS02	1.137	2.467
DS04	-0.128	2.402
DS0c	0.666	1.857
GP01	0.733	2.131
GP02	2.069	1.668
GP0c	0.899	2.297
NOD	0.965	-0.288
NZO	-0.253	-0.548
PWK	-0.331	-0.755
H37Rv_KO_CtpC	0.059	0.126
H37Rv_KO_CtpD	-0.342	0.666
H37Rv_KO_Rv1272	0.453	2.229
H37Rv_KO_SugABC	0.829	2.086
H37Rv_KO_MbtN	-0.243	1.909
Trans05	0.959	1.568
macrophage_unactivated	-0.764	1.042
IL1	0.077	0.237
Rapamycin	-0.424	0.0
Tcell	-0.495	0.508
GMCSF	0.779	1.04
IFNab	-0.121	-0.529
IFNg	-0.329	-0.468
IFNg_GMCSF1	-0.525	0.0
Rv1432_day32	0.484	0.473
Rv1565c_day32	-1.164	1.164
secA2_input	-0.717	0.466
delta_Rv3594	0.356	1.635
delta_Rv3717	-0.034	1.345
delta_Rv3811	-0.211	1.248
delta_Rv0954	-0.302	-0.892
PonA1	0.364	0.994
EccD1_KO	-0.329	0.849
EspI_KO	-0.385	0.197
PE35_KO	0.123	-0.254
PPE68_KO	-0.176	-0.426
glycerol2	-0.832	-2.221
lignocerate	-0.792	-1.386
oleate	-1.72	-1.613
phosphatidylcholine	-0.889	-1.882
acetate	-1.518	-0.229
glucAc	-0.926	-0.823
Rv0950ko	-0.075	0.22
Rv1096ko	0.66	0.82
Rv3684ko	-0.383	-0.318
delta_otsA_trehalose	-0.505	0.232