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 Rv0369c/-:

update plot	correlation	link to info on gene
Rv0988/-	(cc=0.5302)	info on Rv0988/-
Rv1582c/-	(cc=0.5198)	info on Rv1582c/-
Rv0260c/-	(cc=0.5012)	info on Rv0260c/-
Rv3164c/moxR3	(cc=0.4966)	info on Rv3164c/moxR3
Rv0766c/cyp123	(cc=0.4898)	info on Rv0766c/cyp123
Rv1664/pks9	(cc=0.4861)	info on Rv1664/pks9
Rv2510c/-	(cc=0.4788)	info on Rv2510c/-
Rv0068/-	(cc=0.472)	info on Rv0068/-
Rv3398c/idsA1	(cc=0.4619)	info on Rv3398c/idsA1
Rv3166c/-	(cc=0.4605)	info on Rv3166c/-

Correlation of Rv0369c/- with Rv0068/-

Normalized LFCs for Rv0369c/-:
(description and provenance of datasets)

	Rv0369c/-	Rv0068/-
Fe_supp_jason_reseq	0.369	1.209
low_pH_jason_reseq	-0.842	-0.487
NO_jason_reseq	-0.874	0.055
B6_jason_reseq	-1.807	-0.62
MHCII_jason_reseq	0.395	-1.187
Isoniazid02	1.014	0.067
Rifampicin4	-0.579	-0.309
Ethambutol3	0.649	-0.159
Meropenem3	0.534	-0.188
Vancomycin16	0.377	0.3
Rv2680_day32	-0.837	0.158
H37Rv_KO_MarP	1.075	0.93
hypoxia_3wks	-0.379	0.179
hypoxia_6wks	0.186	0.203
glycerol	1.214	-0.205
cholesterol	1.264	0.727
AJ	0.487	0.101
Bibs02	0.628	-0.657
Bibs02c	-1.516	-0.796
BL6	0.812	0.515
BL6a	0.0	0.0
BXD01	0.274	0.503
BXD010	0.567	0.304
BXD011	0.745	0.0
BXD03	1.326	0.949
BXD04	1.746	0.801
BXD05	1.838	-0.03
BXD06	0.967	0.348
BXD07	1.705	0.108
BXD08	0.963	0.26
BXD09	0.596	0.031
CAST	1.308	-0.369
CCcont	1.082	0.836
DS01	0.38	-0.337
DS02	-0.492	-0.424
DS04	1.228	-0.103
DS0c	0.181	0.17
GP01	0.275	0.117
GP02	-0.705	-0.307
GP0c	0.333	-0.289
NOD	0.187	-0.19
NZO	-0.845	-0.461
PWK	1.736	0.578
H37Rv_KO_CtpC	1.735	0.568
H37Rv_KO_CtpD	1.478	1.114
H37Rv_KO_Rv1272	0.192	0.267
H37Rv_KO_SugABC	2.16	1.087
H37Rv_KO_MbtN	1.288	0.72
Trans05	-0.204	0.198
macrophage_unactivated	2.314	0.912
IL1	1.391	0.629
Rapamycin	1.292	0.451
Tcell	0.857	1.271
GMCSF	0.058	0.388
IFNab	1.273	0.444
IFNg	-0.374	0.214
IFNg_GMCSF1	1.216	0.17
Rv1432_day32	1.58	0.519
Rv1565c_day32	0.0	0.25
secA2_input	-0.463	0.111
delta_Rv3594	-0.653	-0.338
delta_Rv3717	-0.725	-0.703
delta_Rv3811	-0.781	-0.265
delta_Rv0954	-1.16	-0.651
PonA1	-1.978	0.639
EccD1_KO	0.865	0.372
EspI_KO	-0.254	-0.436
PE35_KO	1.706	0.175
PPE68_KO	0.685	0.157
glycerol2	-0.094	0.595
lignocerate	-0.04	0.401
oleate	-0.301	0.55
phosphatidylcholine	0.0	0.525
acetate	-0.352	-0.219
glucAc	0.098	-0.089
Rv0950ko	-0.727	0.467
Rv1096ko	-0.205	0.926
Rv3684ko	-1.055	-0.406
delta_otsA_trehalose	0.544	-0.913