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 Rv1724c/-:

update plot	correlation	link to info on gene
Rv3528c/-	(cc=0.5811)	info on Rv3528c/-
Rv1500/-	(cc=0.5604)	info on Rv1500/-
Rv1753c/PPE24	(cc=0.5376)	info on Rv1753c/PPE24
Rv3840/-	(cc=0.536)	info on Rv3840/-
Rv2735c/-	(cc=0.533)	info on Rv2735c/-
Rv1923/lipD	(cc=0.5269)	info on Rv1923/lipD
Rv3116/moeB2	(cc=0.5126)	info on Rv3116/moeB2
Rv1984c/cfp21	(cc=0.5107)	info on Rv1984c/cfp21
Rv1498c/-	(cc=0.5073)	info on Rv1498c/-
Rv0642c/mmaA4	(cc=0.5002)	info on Rv0642c/mmaA4

Correlation of Rv1724c/- with Rv3528c/-

Normalized LFCs for Rv1724c/-:
(description and provenance of datasets)

	Rv1724c/-	Rv3528c/-
Fe_supp_jason_reseq	0.971	0.838
low_pH_jason_reseq	0.069	-0.607
NO_jason_reseq	0.252	0.137
B6_jason_reseq	0.292	0.547
MHCII_jason_reseq	0.452	0.445
Isoniazid02	-0.189	-0.068
Rifampicin4	-0.282	0.0
Ethambutol3	-0.203	-0.449
Meropenem3	-0.369	-0.442
Vancomycin16	-0.276	0.353
Rv2680_day32	-0.018	-0.186
H37Rv_KO_MarP	0.031	-0.054
hypoxia_3wks	0.199	-0.833
hypoxia_6wks	-0.34	0.967
glycerol	-0.834	0.102
cholesterol	-0.048	-0.652
AJ	1.045	1.356
Bibs02	0.764	0.956
Bibs02c	-0.023	0.812
BL6	0.085	0.97
BL6a	0.561	2.408
BXD01	0.442	1.562
BXD010	1.103	1.676
BXD011	0.485	1.705
BXD03	0.496	2.078
BXD04	0.38	1.619
BXD05	0.946	2.306
BXD06	0.705	1.881
BXD07	0.709	2.076
BXD08	0.835	1.617
BXD09	0.682	1.922
CAST	0.464	0.117
CCcont	0.294	1.492
DS01	0.455	0.551
DS02	0.408	1.459
DS04	0.142	1.248
DS0c	0.058	-0.809
GP01	1.668	1.216
GP02	1.07	-0.141
GP0c	0.586	0.0
NOD	0.199	-0.12
NZO	0.419	-0.465
PWK	-0.385	0.615
H37Rv_KO_CtpC	1.1	2.026
H37Rv_KO_CtpD	0.086	0.662
H37Rv_KO_Rv1272	0.923	2.217
H37Rv_KO_SugABC	0.87	1.188
H37Rv_KO_MbtN	0.803	1.632
Trans05	0.69	0.725
macrophage_unactivated	-0.271	0.89
IL1	-0.089	0.243
Rapamycin	-0.199	0.0
Tcell	-0.049	0.762
GMCSF	0.407	0.145
IFNab	0.133	-0.088
IFNg	-0.16	0.754
IFNg_GMCSF1	0.255	-0.273
Rv1432_day32	0.057	-0.168
Rv1565c_day32	0.479	-0.357
secA2_input	0.141	0.377
delta_Rv3594	0.228	0.731
delta_Rv3717	0.525	-0.135
delta_Rv3811	0.128	0.219
delta_Rv0954	0.208	-0.211
PonA1	-0.097	-0.645
EccD1_KO	-0.73	-1.085
EspI_KO	-0.242	-0.713
PE35_KO	0.219	-0.403
PPE68_KO	0.093	-0.326
glycerol2	0.247	0.598
lignocerate	0.33	1.391
oleate	0.391	0.136
phosphatidylcholine	0.517	0.933
acetate	-0.11	0.999
glucAc	0.779	1.377
Rv0950ko	1.158	0.742
Rv1096ko	-0.229	0.48
Rv3684ko	0.121	0.318
delta_otsA_trehalose	-1.162	-1.179